diff --git a/.gitignore b/.gitignore index 6ad5f26..0efccc7 100644 --- a/.gitignore +++ b/.gitignore @@ -9,3 +9,4 @@ /web_src/**/*_files /web_src/**/*_cache /.luarc.json +*.log \ No newline at end of file diff --git a/fish-primers.qmd b/fish-primers.qmd new file mode 100644 index 0000000..9ee4c66 --- /dev/null +++ b/fish-primers.qmd @@ -0,0 +1,862 @@ +--- +title: "Designing Fish primers" +format: revealjs +editor: visual +--- + +```{r setup, include=FALSE} +library(knitr) +``` + +# Preparing the data + +------------------------------------------------------------------------ + +## What do we need ? + +To design a new animal DNA metabarcode we download from the NCBI the following data + +- The complete set of whole mitochondrial genomes +- The NCBI taxonomy + +------------------------------------------------------------------------ + +## We need also: + +- a Unix computer: a Mac or a Linux box +- A unix terminal window for typing commands +- Installed on the computer + - The OBITools --- + - ecoPrimers --- + - R --- + +------------------------------------------------------------------------ + +## Downloading the mitochondrial genomes + +We can use an internet browser and download the files from NCBI FTP website + +![](ncbi-ftp.png){fig-align="center"} + +------------------------------------------------------------------------ + +## Downloading the mitochondrial genomes + +We can use an internet browser and download the files from NCBI FTP website + +or run the following command lines + +```{bash} +#| eval: false +#| echo: true +curl 'https://ftp.ncbi.nlm.nih.gov/genomes/refseq/mitochondrion/mitochondrion.1.genomic.gbff.gz' \ + > mito.all.gb.gz +``` + +------------------------------------------------------------------------ + +```{bash} +#| eval: false +#| echo: true +zless mito.all.gb.gz +``` + +``` +LOCUS NW_009243181 45189 bp DNA linear CON 06-OCT-2014 +DEFINITION Fonticula alba strain ATCC 38817 mitochondrial scaffold + supercont2.211, whole genome shotgun sequence. +ACCESSION NW_009243181 NZ_AROH01000000 +VERSION NW_009243181.1 +DBLINK BioProject: PRJNA262900 + Assembly: GCF_000388065.1 +KEYWORDS WGS; RefSeq. +SOURCE mitochondrion Fonticula alba + ORGANISM Fonticula alba + Eukaryota; Rotosphaerida; Fonticulaceae; Fonticula. +REFERENCE 1 (bases 1 to 45189) +``` + +------------------------------------------------------------------------ + +## Downloading the complete taxonomy + +```{bash} +#| eval: false +#| echo: true +obitaxonomy --download-ncbi +``` + +``` +INFO[0000] Number of workers set 16 +INFO[0000] Downloading NCBI Taxdump to ncbitaxo_20250211.tgz +downloading 100% ████████████████████████████████████████| (66/66 MB, 5.1 MB/s) +``` + +The NCBI taxonomy contains all the relationship between taxa. Each taxon is identified by a unique numerical id: `taxid` + +------------------------------------------------------------------------ + +## The archive contains several files + +file: `nodes.dmp` + +``` +1 | 1 | no rank | | 8 | 0 | ... +2 | 131567 | superkingdom | | 0 | 0 | +6 | 335928 | genus | | 0 | 1 | +7 | 6 | species | AC | 0 | 1 | +9 | 32199 | species | BA | 0 | +10 | 135621 | genus | | 0 | +11 | 1707 | species | CG | 0 | 1 | +13 | 203488 | genus | | 0 | 1 | +14 | 13 | species | DT | 0 | 1 | +``` + +------------------------------------------------------------------------ + +## file: `names.dmp` + +``` +1 | root | | scientific name | +2 | Bacteria | Bacteria | scientific name | +2 | Monera | Monera | in-part | +2 | Procaryotae | Procaryotae | in-part | +2 | Prokaryota | Prokaryota | in-part | +2 | Prokaryotae | Prokaryotae | in-part | +2 | bacteria | bacteria | blast name | +2 | eubacteria | | genbank common name | +2 | prokaryote | prokaryote | in-part | +... +10 | Cellvibrio | | scientific name | +11 | [Cellvibrio] gilvus | | scientific name | +13 | Dictyoglomus | | scientific name | +14 | Dictyoglomus thermophilum | | scientific name | +``` + +------------------------------------------------------------------------ + +## Preparing the set of complete genomes + +```{bash} +#| eval: false +#| echo: true +obiconvert --skip-empty \ + --update-taxid \ + -t ncbitaxo_20250211.tgz \ + mito.all.gb.gz \ + > mito.all.fasta +head -5 mito.all.fasta +``` + +five first lines of the new `mito.all.fasta` file + +``` +>NC_072933 {"definition":"Echinosophora koreensis mitochondrion, complete genome.","scientific_name":"mitochondrion Echinosophora koreensis","taxid":228658} +ctttcgggtcggaaatagaagatctggattagatcccttctcgatagctttagtcagagc +tcatccctcgaaaaagggagtagtgagatgagaaaagggtgactagaatacggaaattca +actagtgaagtcagatccgggaattccactattgaagttatccgtcttaggcttcaagca +agctatctttcaaggaagtcagtctaagccctaagccaagatctgctttttgccagtcaa +``` + +------------------------------------------------------------------------ + +## We want: + +- annotate sequences by their species `taxid` +- keep a single genome per species +- extract only vertebrate genome + +------------------------------------------------------------------------ + +## Looking for the **Vertebrata**'s taxid + +```{bash} +#| eval: false +#| echo: true +obitaxonomy -t ncbitaxo_20250211.tgz \ + --fixed \ + 'vertebrata' +``` + +``` csv +taxid,parent,taxonomic_rank,scientific_name +taxon:1261581 [Vertebrata]@genus,taxon:2008651 [Polysiphonioideae]@subfamily,genus,Vertebrata +taxon:7742 [Vertebrata]@clade,taxon:89593 [Craniata]@subphylum,clade,Vertebrata +``` + +------------------------------------------------------------------------ + +## Looking for the **Vertebrata**'s taxid + +```{bash} +#| eval: false +#| echo: true +obitaxonomy -t ncbitaxo_20250211.tgz \ + --fixed \ + 'vertebrata' \ + | csvlook +``` + +``` csv +| taxid | parent | taxonomic_rank | scientific_name | +| -------------------------------- | ------------------------------------------- | -------------- | --------------- | +| taxon:1261581 [Vertebrata]@genus | taxon:2008651 [Polysiphonioideae]@subfamily | genus | Vertebrata | +| taxon:7742 [Vertebrata]@clade | taxon:89593 [Craniata]@subphylum | clade | Vertebrata | +``` + +## A genus called **Vertebrata** + +```{bash} +#| eval: false +#| echo: true +obitaxonomy -t ncbitaxo_20250211.tgz \ + -p 2008651 \ + | csvlook +``` + +``` csv +| taxid | parent | taxonomic_rank | scientific_name | +| ------------------------------------------- | ------------------------------------------- | -------------- | ------------------ | +| taxon:2008651 [Polysiphonioideae]@subfamily | taxon:2803 [Rhodomelaceae]@family | subfamily | Polysiphonioideae | +| taxon:2803 [Rhodomelaceae]@family | taxon:2802 [Ceramiales]@order | family | Rhodomelaceae | +| taxon:2802 [Ceramiales]@order | taxon:2045261 [Rhodymeniophycidae]@subclass | order | Ceramiales | +| taxon:2045261 [Rhodymeniophycidae]@subclass | taxon:2806 [Florideophyceae]@class | subclass | Rhodymeniophycidae | +| taxon:2806 [Florideophyceae]@class | taxon:2763 [Rhodophyta]@phylum | class | Florideophyceae | +| taxon:2763 [Rhodophyta]@phylum | taxon:2759 [Eukaryota]@superkingdom | phylum | Rhodophyta | +| taxon:2759 [Eukaryota]@superkingdom | taxon:131567 [cellular organisms]@no rank | superkingdom | Eukaryota | +| taxon:131567 [cellular organisms]@no rank | taxon:1 [root]@no rank | no rank | cellular organisms | +| taxon:1 [root]@no rank | taxon:1 [root]@no rank | no rank | root | +``` + +------------------------------------------------------------------------ + +## Reannotation and selection of the genomes + +```{bash} +#| eval: false +#| echo: true +obiannotate -t ncbitaxo_20250211.tgz \ + --with-taxon-at-rank=species \ + mito.all.fasta | \ + obiannotate -S 'ori_taxid=annotations.taxid' | \ + obiannotate -S 'taxid=annotations.species_taxid' | \ + obiuniq -c taxid > mito.one.fasta +``` + +------------------------------------------------------------------------ + +## Species representation + +```{bash} +#| eval: false +#| echo: true + +obicsv -k taxid mito.one.fasta \ + | tail -n +2 \ + | sort \ + | uniq -c \ + | sort -nk1 \ + | cut -w -f 2 \ + | uplot count +``` + +``` + ┌ ┐ + 1 ┤■■■■■■■■■■■■■■■■■■■■■■■■■■■■■■■ 17769.0 + 2 ┤ 90.0 + 3 ┤ 17.0 + 4 ┤ 5.0 + 5 ┤ 4.0 + 6 ┤ 2.0 + 7 ┤ 1.0 + └ ┘ +``` + +------------------------------------------------------------------------ + +## Selection of the vertebrata genomes + +```{bash} +#| eval: false +#| echo: true + +obigrep -t ncbitaxo_20250211.tgz \ + -r 7742 \ + mito.one.fasta > mito.vert.fasta +``` + +```{bash} +#| eval: false +#| echo: true + +obicount mito.vert.fasta \ + | csvlook +``` + +``` +| entities | n | +| -------- | ----------- | +| variants | 7,822 | +| reads | 7,823 | +| symbols | 131,378,756 | +``` + +------------------------------------------------------------------------ + +## Prepare data for ecoPrimers 1/3 + +```{bash} +#| eval: false +#| echo: true +mkdir ncbitaxo_20250211 +cd ncbitaxo_20250211 +tar zxvf ../ncbitaxo_20250211.tgz +cd .. +``` + +------------------------------------------------------------------------ + +## Prepare data for ecoPrimers 2/3 + +```{bash} +#| eval: false +#| echo: true +obiconvert -O mito.vert.fasta > mito.vert.old.fasta +``` + +```{bash} +#| eval: false +#| echo: true +head -5 mito.vert.old.fasta +``` + +``` csv +>NC_071784 taxid=taxon:2065826 [Sineleotris saccharae]@species; count=1; ori_taxid=taxon:2065826 [Sineleotris saccharae]@species; scientific_name=mitochondrion Sineleotris saccharae; species_name=Sineleotris saccharae; species_taxid=taxon:2065826 [Sineleotris saccharae]@species; Sineleotris saccharae mitochondrion, complete genome. +gctagcgtagcttaaccaaagcataacactgaagatgttaagatgggccctagaaagccc +cgcaagcacaaaagcttggtcctggctttactatcagcttaggctaaacttacacatgca +agtatccgcatccccgtgagaatgcccttaagctcccaccgctaacaggagtcaaggagc +cggtatcaggcacaaccctgagttagcccacgacaccttgctcagccacacccccaaggg +``` + +------------------------------------------------------------------------ + +## Prepare data for ecoPrimers 3/3 + +```{bash} +#| eval: false +#| echo: true +ecoPCRFormat -t ncbitaxo_20250211 \ + -f \ + -n vertebrata \ + mito.vert.old.fasta +``` + +```{bash} +#| eval: false +#| echo: true +ls -l vertebrata* +``` + +``` +-rw-r--r--@ 1 coissac staff 260899785 Feb 11 11:53 vertabrata.ndx +-rw-r--r--@ 1 coissac staff 546 Feb 11 11:53 vertabrata.rdx +-rw-r--r--@ 1 coissac staff 121379751 Feb 11 11:53 vertabrata.tdx +-rw-r--r--@ 1 coissac staff 40446318 Feb 11 11:54 vertabrata_001.sdx +``` + +------------------------------------------------------------------------ + +## Looking for the *Teleostei* `taxid` + +```{bash} +#| eval: false +#| echo: true +obitaxonomy -t ncbitaxo_20250211.tgz \ + --fixed \ + 'Teleostei' \ + | csvlook +``` + +``` csv +| taxid | parent | taxonomic_rank | scientific_name | +| ---------------------------------- | ---------------------------------- | -------------- | --------------- | +| taxon:32443 [Teleostei]@infraclass | taxon:41665 [Neopterygii]@subclass | infraclass | Teleostei | +``` + +------------------------------------------------------------------------ + +## Selecting the best primer pairs + +```{bash} +#| eval: false +#| echo: true +ecoPrimers -d vertebrata \ + -e 3 -3 2 \ + -l 30 -L 150 \ + -r 32443 \ + -c > Teleostei.ecoprimers +``` + +- Total pair count : 9407 +- Total good pair count : 407 + +------------------------------------------------------------------------ + +```{bash} +#| eval: false +#| echo: true +head -35 Teleostei.ecoprimers +``` + +``` csv +# +# ecoPrimer version 0.5 +# Rank level optimisation : species +# max error count by oligonucleotide : 3 +# +# Restricted to taxon: +# 32443 : Teleostei (infraclass) +# +# strict primer quorum : 0.70 +# example quorum : 0.90 +# counterexample quorum : 0.10 +# +# database : vertebrata +# Database is constituted of 3909 examples corresponding to 3876 species +# and 0 counterexamples corresponding to 0 species +# +# amplifiat length between [30,150] bp +# DB sequences are considered as circular +# Pairs having specificity less than 0.60 will be ignored +# + 0 AGAGTGACGGGCGGTGTG CGTCAGGTCGAGGTGTAG 62.8 42.4 57.5 34.1 12 11 GG 3864 0 0.988 3832 0 0.989 2731 0.713 134 146 138.22 + 1 CGTCAGGTCGAGGTGTAG GAGTGACGGGCGGTGTGT 57.5 34.1 63.1 42.9 11 12 GG 3863 0 0.988 3831 0 0.988 2730 0.713 133 145 137.22 + 2 CGTCAGGTCGAGGTGTAG GGGAGAGTGACGGGCGGT 57.5 34.1 64.5 37.0 11 13 GG 3811 0 0.975 3779 0 0.975 2689 0.712 137 149 141.22 + 3 CGTCAGGTCGAGGTGTAG GGGGAGAGTGACGGGCGG 57.5 34.1 65.5 38.4 11 14 GG 3804 0 0.973 3772 0 0.973 2682 0.711 138 149 142.22 + 4 ACACCGCCCGTCACTCTC ACCTTCCGGTACACTTAC 62.5 36.8 54.0 16.6 12 9 GG 3850 0 0.985 3818 0 0.985 2658 0.696 46 132 66.51 + 5 AACGTCAGGTCGAGGTGT AGAGTGACGGGCGGTGTG 58.8 28.4 62.8 41.7 10 12 GG 3779 0 0.967 3746 0 0.966 2653 0.708 137 148 140.23 + 6 ACACCGCCCGTCACTCTC CACCTTCCGGTACACTTA 62.5 36.8 54.0 16.6 12 9 GG 3846 0 0.984 3814 0 0.984 2654 0.696 47 133 67.51 + 7 AACGTCAGGTCGAGGTGT GAGTGACGGGCGGTGTGT 58.8 28.4 63.1 42.1 10 12 GG 3778 0 0.966 3745 0 0.966 2652 0.708 136 147 139.23 + 8 ACCTTCCGGTACACTTAC CACACCGCCCGTCACTCT 54.0 16.6 62.8 37.3 9 12 GG 3845 0 0.984 3813 0 0.984 2653 0.696 47 133 67.51 + 9 ACACCGCCCGTCACTCTC TCCGGTACACTTACCATG 62.5 36.8 54.1 18.1 12 9 GG 3851 0 0.985 3819 0 0.985 2651 0.694 42 128 62.51 + 10 ACACCGCCCGTCACTCTC CCGGTACACTTACCATGT 62.5 36.8 54.4 18.6 12 9 GG 3851 0 0.985 3819 0 0.985 2651 0.694 41 127 61.51 + 11 ACACCGCCCGTCACTCTC CCAAGTGCACCTTCCGGT 62.5 36.8 60.7 28.9 12 11 GG 3837 0 0.982 3805 0 0.982 2650 0.696 54 140 74.51 + 12 ACACCGCCCGTCACTCTC GCACCTTCCGGTACACTT 62.5 36.8 57.7 22.5 12 10 GG 3842 0 0.983 3810 0 0.983 2650 0.696 48 134 68.51 + 13 ACACCGCCCGTCACTCTC CGGTACACTTACCATGTT 62.5 36.8 52.4 15.7 12 8 GG 3850 0 0.985 3818 0 0.985 2650 0.694 40 126 60.51 + 14 ACACCGCCCGTCACTCTC CACTTACCATGTTACGAC 62.5 36.8 51.1 27.7 12 8 GG 3850 0 0.985 3817 0 0.985 2649 0.694 35 121 55.51 +``` + +------------------------------------------------------------------------ + +- Primer ID : 11 + +  + +| Primer | sequence | tm max | tm min | GC count | +|---------|--------------------|--------|--------|----------| +| Forward | ACACCGCCCGTCACTCTC | 62.5 | 36.8 | 12 | +| Reverse | CCAAGTGCACCTTCCGGT | 60.7 | 28.9 | 11 | + +  + +- amplifying 3837/3909 sequences\ +- identify 2650/3876 Species +- Size ranging from 54bp to 140bp (mean: 74.75 bp) + +## Testing the new primer pair + +```{bash} +#| eval: false +#| echo: true +obipcr --forward ACACCGCCCGTCACTCTC \ + --reverse CCAAGTGCACCTTCCGGT \ + -e 5 \ + -l 30 -L 150 \ + -c \ + mito.vert.fasta \ + > Teleostei_11.fasta +``` + +```{bash} +#| eval: false +#| echo: true +head Teleostei_11.fasta +``` + +``` csv +>NC_022183_sub[925..998] {"count":1,"definition":"Acrossocheilus hemispinus mitochondrion, complete genome.","direction":"forward","forward_error":1,"forward_match":"acaccgcccgtcaccctc","forward_primer":"ACACCGCCCGTCACTCTC","ori_taxid":"taxon:356810 [Acrossocheilus hemispinus]@species","reverse_error":0,"reverse_match":"ccaagtgcaccttccggt","reverse_primer":"CCAAGTGCACCTTCCGGT","scientific_name":"mitochondrion Acrossocheilus hemispinus","species_name":"Acrossocheilus hemispinus","species_taxid":"taxon:356810 [Acrossocheilus hemispinus]@species","taxid":"taxon:356810 [Acrossocheilus hemispinus]@species"} +cccgtcaaaatacaccaaaaatacttaatacaataacactaacaaggggaggcaagtcgt +aacatggtaagtgt +>NC_018560_sub[916..988] {"count":1,"definition":"Astatotilapia calliptera mitochondrion, complete genome.","direction":"forward","forward_error":0,"forward_match":"acaccgcccgtcactctc","forward_primer":"ACACCGCCCGTCACTCTC","ori_taxid":"taxon:8154 [Astatotilapia calliptera]@species","reverse_error":1,"reverse_match":"ccaagtacaccttccggt","reverse_primer":"CCAAGTGCACCTTCCGGT","scientific_name":"mitochondrion Astatotilapia calliptera (eastern happy)","species_name":"Astatotilapia calliptera","species_taxid":"taxon:8154 [Astatotilapia calliptera]@species","taxid":"taxon:8154 [Astatotilapia calliptera]@species"} +cccaagccaacaacatcctataaataatacattttaccggtaaaggggaggcaagtcgta +acatggtaagtgt +>NC_056117_sub[923..997] {"count":1,"definition":"Pseudocrossocheilus tridentis mitochondrion, complete genome.","direction":"forward","forward_error":0,"forward_match":"acaccgcccgtcactctc","forward_primer":"ACACCGCCCGTCACTCTC","ori_taxid":"taxon:887881 [Pseudocrossocheilus tridentis]@species","reverse_error":0,"reverse_match":"ccaagtgcaccttccggt","reverse_primer":"CCAAGTGCACCTTCCGGT","scientific_name":"mitochondrion Pseudocrossocheilus tridentis","species_name":"Pseudocrossocheilus tridentis","species_taxid":"taxon:887881 [Pseudocrossocheilus tridentis]@species","taxid":"taxon:887881 [Pseudocrossocheilus tridentis]@species"} +ccctgtcaaaaagcatcaaatatatataataaattagcaatgacaaggggaggcaagtcg +taacacggtaagtgt +>NC_045904_sub[919..997] {"count":1,"definition":"Eospalax fontanierii mitochondrion, complete genome.","direction":"forward","forward_error":1,"forward_match":"acaccgcccgtcgctctc","forward_primer":"ACACCGCCCGTCACTCTC","ori_taxid":"taxon:146134 [Eospalax fontanierii]@species","reverse_error":4,"reverse_match":"ccaagcacactttccagt","reverse_primer":"CCAAGTGCACCTTCCGGT","scientific_name":"mitochondrion Eospalax fontanierii","species_name":"Eospalax fontanierii","species_taxid":"taxon:146134 [Eospalax fontanierii]@species","taxid":"taxon:146134 [Eospalax fontanierii]@species"} +``` + +------------------------------------------------------------------------ + +convert the fasta file to csv + +```{bash} +#| eval: false +#| echo: true +obicsv --auto -s -i Teleostei_11.fasta > Teleostei_11.csv +``` + +and display the begining of the table + +```{bash} +#| eval: false +#| echo: true +head Teleostei_11.csv | csvlook +``` + +``` csv +| id | count | direction | forward_error | forward_match | forward_primer | ori_taxid | reverse_error | reverse_match | reverse_primer | scientific_name | species_name | species_taxid | taxid | sequence | +| ------------------------- | ----- | --------- | ------------- | ------------------ | ------------------ | ---------------------------------------------------- | ------------- | ------------------ | ------------------ | ------------------------------------------------------ | ----------------------------- | ---------------------------------------------------- | ---------------------------------------------------- | ------------------------------------------------------------------------------- | +| NC_022183_sub[925..998] | True | forward | True | acaccgcccgtcaccctc | ACACCGCCCGTCACTCTC | taxon:356810 [Acrossocheilus hemispinus]@species | 0 | ccaagtgcaccttccggt | CCAAGTGCACCTTCCGGT | mitochondrion Acrossocheilus hemispinus | Acrossocheilus hemispinus | taxon:356810 [Acrossocheilus hemispinus]@species | taxon:356810 [Acrossocheilus hemispinus]@species | cccgtcaaaatacaccaaaaatacttaatacaataacactaacaaggggaggcaagtcgtaacatggtaagtgt | +| NC_018560_sub[916..988] | True | forward | False | acaccgcccgtcactctc | ACACCGCCCGTCACTCTC | taxon:8154 [Astatotilapia calliptera]@species | 1 | ccaagtacaccttccggt | CCAAGTGCACCTTCCGGT | mitochondrion Astatotilapia calliptera (eastern happy) | Astatotilapia calliptera | taxon:8154 [Astatotilapia calliptera]@species | taxon:8154 [Astatotilapia calliptera]@species | cccaagccaacaacatcctataaataatacattttaccggtaaaggggaggcaagtcgtaacatggtaagtgt | +| NC_056117_sub[923..997] | True | forward | False | acaccgcccgtcactctc | ACACCGCCCGTCACTCTC | taxon:887881 [Pseudocrossocheilus tridentis]@species | 0 | ccaagtgcaccttccggt | CCAAGTGCACCTTCCGGT | mitochondrion Pseudocrossocheilus tridentis | Pseudocrossocheilus tridentis | taxon:887881 [Pseudocrossocheilus tridentis]@species | taxon:887881 [Pseudocrossocheilus tridentis]@species | ccctgtcaaaaagcatcaaatatatataataaattagcaatgacaaggggaggcaagtcgtaacacggtaagtgt | +| NC_045904_sub[919..997] | True | forward | True | acaccgcccgtcgctctc | ACACCGCCCGTCACTCTC | taxon:146134 [Eospalax fontanierii]@species | 4 | ccaagcacactttccagt | CCAAGTGCACCTTCCGGT | mitochondrion Eospalax fontanierii | Eospalax fontanierii | taxon:146134 [Eospalax fontanierii]@species | taxon:146134 [Eospalax fontanierii]@species | ctcaagtacataaacttggatatattcttaataacccaacaaaaatattagaggagataagtcgtaacaaggtaagcat | +| NC_018546_sub[916..987] | True | forward | False | acaccgcccgtcactctc | ACACCGCCCGTCACTCTC | taxon:30732 [Oryzias melastigma]@species | 0 | ccaagtgcaccttccggt | CCAAGTGCACCTTCCGGT | mitochondrion Oryzias melastigma (Indian medaka) | Oryzias melastigma | taxon:30732 [Oryzias melastigma]@species | taxon:30732 [Oryzias melastigma]@species | cccgacccattttaaaaattaaataaaagatttcaggaactaaggggaggcaagtcgtaacatggtaagtgt | +| NC_044151_sub[922..993] | True | forward | False | acaccgcccgtcactctc | ACACCGCCCGTCACTCTC | taxon:2597641 [Sicyopterus squamosissimus]@species | 0 | ccaagtgcaccttccggt | CCAAGTGCACCTTCCGGT | mitochondrion Sicyopterus squamosissimus (cling goby) | Sicyopterus squamosissimus | taxon:2597641 [Sicyopterus squamosissimus]@species | taxon:2597641 [Sicyopterus squamosissimus]@species | cccaaaacaaacacacacataaataagaaaaaatgaaaataaaggggaggcaagtcgtaacatggtaagtgt | +| NC_044152_sub[922..994] | True | forward | False | acaccgcccgtcactctc | ACACCGCCCGTCACTCTC | taxon:2597642 [Sicyopterus stiphodonoides]@species | 0 | ccaagtgcaccttccggt | CCAAGTGCACCTTCCGGT | mitochondrion Sicyopterus stiphodonoides (cling goby) | Sicyopterus stiphodonoides | taxon:2597642 [Sicyopterus stiphodonoides]@species | taxon:2597642 [Sicyopterus stiphodonoides]@species | cccaaaacaaacacacacataaataagaaaaaantgaaaataaaggggaggcaagtcgtaacatggtaagtgt | +| NC_026976_sub[1453..1531] | True | forward | True | acaccgcccgtcactccc | ACACCGCCCGTCACTCTC | taxon:9545 [Macaca nemestrina]@species | 1 | ccaagtgcaccttccagt | CCAAGTGCACCTTCCGGT | mitochondrion Macaca nemestrina (pig-tailed macaque) | Macaca nemestrina | taxon:9545 [Macaca nemestrina]@species | taxon:9545 [Macaca nemestrina]@species | ctcaaatatatttaaggaacatcttaactaaacgccctaatatttatatagaggggataagtcgtaacatggtaagtgt | +| NC_031553_sub[921..995] | True | forward | False | acaccgcccgtcactctc | ACACCGCCCGTCACTCTC | taxon:643337 [Puntioplites proctozystron]@species | 0 | ccaagtgcaccttccggt | CCAAGTGCACCTTCCGGT | mitochondrion Puntioplites proctozystron | Puntioplites proctozystron | taxon:643337 [Puntioplites proctozystron]@species | taxon:643337 [Puntioplites proctozystron]@species | ccctgtcaaaacgcactaaaaatatctaatacaaaagcaccgacaaggggaggcaagtcgtaacacggtaagtgt | +``` + +# We are now switching to R + +------------------------------------------------------------------------ + +## Preparing our R session + +First we have to download the two follong libraries + +```{r} +#| echo: true +library(tidyverse) +library(ggpubr) +library(ROBITools4) +``` + +------------------------------------------------------------------------ + +## Loading the data + +```{r} +#| echo: true + +fish <- read_csv('Teleostei_11.csv', show_col_types = FALSE) +taxo <- read_ncbi_taxdump('ncbitaxo_20250211') +assign_default_taxonomy(taxo) +``` + +------------------------------------------------------------------------ + +Looking for Teleostei taxid + +```{r} +#| echo: true +teleo_taxid <- ecofind('Teleostei') +teleo_taxid +``` + +------------------------------------------------------------------------ + +## Format taxids + +```{r} +#| echo: true +fish %>% mutate( + taxid = as_taxid( + as.integer( + str_split_fixed( + str_split_fixed( + taxid,pattern = " ", + n = 2)[,1], + ":", + 2)[,2])) + ) %>% + as_tbl_obipcr() %>% + mutate(across(taxon(), + .names="category", + .fn=taxonomy_classifier(Teleostei = 32443))) %>% + group_by(category) %>% + mutate(weight = taxonomic_weights(taxid,taxo)) %>% + ungroup() -> fish +``` + +------------------------------------------------------------------------ + +## The fish tibble + +```{r} +#| echo: true +head(fish,n = 4) +``` + +------------------------------------------------------------------------ + +## Identifying which sequences belongs fish + +```{r} +#| echo: true +table(fish$category) +``` + +------------------------------------------------------------------------ + +## Testing the conservation of the priming sites + +```{r} +#| echo: true +pssm_forward <- pssm(fish$forward_match, + weights = fish$weight, + categories = fish$category) + +pssm_reverse <- pssm(fish$reverse_match, + weights = fish$weight, + categories = fish$category) +``` + +```{r} +#| echo: true +pssm_forward +``` + +------------------------------------------------------------------------ + +## Rescaling the matrix as Shanon entropy + +$$ +H = - \sum_{i \in \{A,C,G,T\}} p_i \times \frac{\log(p_i)}{\log(2)} +$$ + +```{r} +#| echo: true +pssm_forward <- pssm_scale_shanon(pssm_forward) +pssm_reverse <- pssm_scale_shanon(pssm_reverse) +``` + +------------------------------------------------------------------------ + +## Display the rescaled matrix + +```{r} +#| echo: true +pssm_forward +``` + +------------------------------------------------------------------------ + +## The DNA logo of our primer pair + +```{r} +#| echo: true +flogo <- ggbarcodelogo(pssm_forward) + + xlab("Forward primer") + ylab("Bits") +rlogo <- ggbarcodelogo(pssm_reverse) + + xlab("Reverse primer") + ylab("Bits") + +ggarrange(flogo,rlogo,ncol=2) -> dnaplot + +dnaplot +``` + +------------------------------------------------------------------------ + +## How many mismatches ? + +```{r} +#| echo: true +ggbarcodemistmatch(fish$forward_error, + fish$reverse_error, + otu=fish$species_name, + categories=fish$category) + theme_minimal() +``` + +------------------------------------------------------------------------ + +## Are we discriminate taxa ? + +```{r} +#| echo: true +with(fish %>% filter(category == "Teleostei"), + discriminated_at_rank(taxid, + c("species","genus","family","order"), + sequence)) +``` + +------------------------------------------------------------------------ + +## How many sequences will provide information at rank ? + +```{r} +#| echo: true +with(fish %>% filter(category == "Teleostei"), + discriminant_at_rank(taxid, + c("species","genus","family","order"), + sequence)) +``` + +------------------------------------------------------------------------ + +## Is it the same for *Cyprinidae* ? + +```{r} +#| echo: true +cyprinidae_taxid <- ecofind('Cyprinidae') +cyprinidae_taxid +``` + +------------------------------------------------------------------------ + +## Classify according to both categories + +```{r} +#| echo: true +fish %>% + mutate(across(taxon(), + .names="category2", + .fn=taxonomy_classifier(Teleostei = 32443, + Cyprinidae = 7953))) -> fish + +table(fish$category2) +``` + +------------------------------------------------------------------------ + +## Are we discriminate taxa ? + +```{r} +#| echo: true +with(fish %>% filter(category2 == "Cyprinidae"), + discriminated_at_rank(taxid, + c("species","genus"), + sequence)) +``` + +# Go back to unix + +## We run ecoPrimers and ecoPCR on the select primer pair + +```{bash} +#| eval: false +#| echo: true +ecoPrimers -d vertebrata \ + -e 3 -3 2 \ + -l 30 -L 150 \ + -r 7953 -c > Cyprinidae.ecoprimers +``` + +```{bash} +#| eval: false +#| echo: true +obipcr --forward ACGGCGTAAAGGGTGGTT \ + --reverse TATCTAATCCCAGTTTGT \ + -e 5 \ + -l 30 -L 500 \ + -c \ + mito.vert.fasta \ + > Cyprinidae_14.fasta +``` + +```{bash} +#| eval: false +#| echo: true +obicsv --auto -s -i Cyprinidae_14.fasta > Cyprinidae_14.csv +``` + +# Go back to R + +```{r} +cyprinidae <- read_csv('Cyprinidae_14.csv', + show_col_types = FALSE) %>% + mutate( + taxid = as_taxid( + as.integer( + str_split_fixed( + str_split_fixed( + taxid,pattern = " ", + n = 2)[,1], + ":", + 2)[,2])) + ) %>% + as_tbl_obipcr() %>% + mutate(across(taxon(), + .names="category", + .fn=taxonomy_classifier(Teleostei = 32443, + Cyprinidae = 7953))) %>% + group_by(category) %>% + mutate(weight = taxonomic_weights(taxid,taxo)) %>% + ungroup() +``` + +------------------------------------------------------------------------ + +## Identifying which sequences belongs fish and *Cyprinidae* + +```{r} +#| echo: true +table(cyprinidae$category) +``` + +------------------------------------------------------------------------ + +## Looking for conservation + +```{r} +#| echo: true +pssm_forward <- pssm(cyprinidae$forward_match, + weights = cyprinidae$weight, + categories = cyprinidae$category) %>% + pssm_scale_shanon() + +pssm_reverse <- pssm(cyprinidae$reverse_match, + weights = cyprinidae$weight, + categories = cyprinidae$category) %>% + pssm_scale_shanon() +``` + +------------------------------------------------------------------------ + +## Plot the new DNA logo + +```{r} +flogo <- ggbarcodelogo(pssm_forward) + + xlab("Forward primer") + ylab("Bits") +rlogo <- ggbarcodelogo(pssm_reverse) + + xlab("Reverse primer") + ylab("Bits") + +ggarrange(flogo,rlogo,ncol=2) -> dnaplot + +dnaplot +``` + +------------------------------------------------------------------------ + +## How many mismatches ? + +```{r} +#| echo: true +ggbarcodemistmatch(cyprinidae$forward_error, + cyprinidae$reverse_error, + otu=cyprinidae$species_name, + categories=cyprinidae$category) + theme_minimal() +``` + +------------------------------------------------------------------------ + +## Are we discriminate *Cyprinidae* taxa ? + +```{r} +#| echo: true +with(cyprinidae %>% filter(category == "Cyprinidae"), + discriminated_at_rank(taxid, + c("species","genus"), + sequence)) +``` \ No newline at end of file diff --git a/jupyterhub_volumes/course/biodiversity_metrics_exercises.ipynb b/jupyterhub_volumes/course/biodiversity_metrics_exercises.ipynb new file mode 100644 index 0000000..feab3fe --- /dev/null +++ b/jupyterhub_volumes/course/biodiversity_metrics_exercises.ipynb @@ -0,0 +1,1227 @@ +{ + "cells": [ + { + "cell_type": "markdown", + "id": "90c78109", + "metadata": {}, + "source": [ + "# Biodiversity Metrics — Hands-on Practice\n", + "\n", + "Follow this guided lab to reproduce the workflow presented in the *Biodiversity metrics & metabarcoding* lecture. Each exercise mirrors a concept from the slides so that you can redo the analyses step by step. Work in order, execute your own solution in the placeholder cell, and reveal the provided answer only after you tried.\n", + "\n", + "**How to use this notebook**\n", + "\n", + "- Run the notebook with an R kernel.\n", + "- Complete each code task in the `# your work here` cell.\n", + "- Compare with the hidden solution when you are confident in your attempt.\n", + "- Keep notes about questions or observations so that we can review them during lab time." + ] + }, + { + "cell_type": "markdown", + "id": "2c4e6e7a", + "metadata": {}, + "source": [ + "## Series 1 – Preparing the Environment\n", + "Focus: installing and loading every package used throughout the lecture (devtools, tidyverse, vegan, latex2exp, kableExtra, MetabarSchool)." + ] + }, + { + "cell_type": "markdown", + "id": "10e073bb", + "metadata": {}, + "source": [ + "### Exercise 1.1 – Install the required packages\n", + "\n", + "Install *devtools*, *tidyverse*, *vegan*, *latex2exp*, and *kableExtra* from CRAN if they are not already available. Then install **MetabarSchool** from the Git repository shown in the lecture." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "58323009", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "58073d0f", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "if (!requireNamespace('devtools', quietly = TRUE)) install.packages('devtools', dependencies = TRUE)\n", + "if (!requireNamespace('tidyverse', quietly = TRUE)) install.packages('tidyverse', dependencies = TRUE)\n", + "if (!requireNamespace('vegan', quietly = TRUE)) install.packages('vegan', dependencies = TRUE)\n", + "if (!requireNamespace('latex2exp', quietly = TRUE)) install.packages('latex2exp', dependencies = TRUE)\n", + "if (!requireNamespace('kableExtra', quietly = TRUE)) install.packages('kableExtra', dependencies = TRUE)\n", + "if (!requireNamespace('MetabarSchool', quietly = TRUE)) {\n", + " devtools::install_git('https://git.metabarcoding.org/MetabarcodingSchool/biodiversity-metrics.git')\n", + "}" + ] + }, + { + "cell_type": "markdown", + "id": "698da8cf", + "metadata": {}, + "source": [ + "### Exercise 1.2 – Load every library\n", + "\n", + "Attach tidyverse, vegan, latex2exp, kableExtra, and MetabarSchool so that their functions are available for the rest of the notebook." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "2719c43e", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "01a16266", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "library(tidyverse)\n", + "library(vegan)\n", + "library(latex2exp)\n", + "library(kableExtra)\n", + "library(MetabarSchool)" + ] + }, + { + "cell_type": "markdown", + "id": "38972d40", + "metadata": {}, + "source": [ + "## Series 2 – Exploring the mock community dataset\n", + "Focus: loading the `positive.*` objects that describe the mock community and understanding their structure." + ] + }, + { + "cell_type": "markdown", + "id": "a9d6eb01", + "metadata": {}, + "source": [ + "### Exercise 2.1 – Load the mock community data\n", + "\n", + "Load `positive.count`, `positive.samples`, and `positive.motus` from the MetabarSchool package." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "45c6e967", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "fd1f426f", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "data('positive.count')\n", + "data('positive.samples')\n", + "data('positive.motus')" + ] + }, + { + "cell_type": "markdown", + "id": "5782ad96", + "metadata": {}, + "source": [ + "### Exercise 2.2 – Inspect matrices and metadata\n", + "\n", + "Display the dimensions of `positive.count`, the first rows of `positive.samples`, and the first rows of `positive.motus` to replicate the introductory slides." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "1a1470bf", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "9f150200", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "dim(positive.count)\n", + "head(positive.samples, n = 3)\n", + "head(positive.motus, n = 3)" + ] + }, + { + "cell_type": "markdown", + "id": "ed7b50cc", + "metadata": {}, + "source": [ + "## Series 3 – Early data curation\n", + "Focus: removing singleton MOTUs and visualizing the uneven sequencing depth highlighted in the lecture." + ] + }, + { + "cell_type": "markdown", + "id": "566f88ae", + "metadata": {}, + "source": [ + "### Exercise 3.1 – Remove singleton MOTUs\n", + "\n", + "Count how many MOTUs occur once across the full dataset and filter them out of both `positive.count` and `positive.motus`." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "1ac5a29b", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "39a96b44", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "singleton.mask <- colSums(positive.count) > 1\n", + "table(singleton.mask)\n", + "positive.count <- positive.count[, singleton.mask]\n", + "positive.motus <- positive.motus[singleton.mask, ]" + ] + }, + { + "cell_type": "markdown", + "id": "433e47fe", + "metadata": {}, + "source": [ + "### Exercise 3.2 – Examine read depth per PCR\n", + "\n", + "Plot the distribution of total reads per PCR (log scale optional) to confirm that sequencing depth is heterogeneous." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "8e72af69", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "7a418577", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "par(bg = NA)\n", + "hist(rowSums(positive.count), breaks = 15,\n", + " xlab = 'Read counts', main = 'Number of reads per PCR')" + ] + }, + { + "cell_type": "markdown", + "id": "0b1d2501", + "metadata": {}, + "source": [ + "### Exercise 3.3 – Test the influence of dilution\n", + "\n", + "Reproduce the boxplot of read counts across dilution levels and compute the ANOVA that quantifies the fraction of variance explained by dilution." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "a27498aa", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "e3e44168", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "par(bg = NA)\n", + "boxplot(rowSums(positive.count) ~ positive.samples$dilution, log = 'y',\n", + " xlab = 'Dilution', ylab = 'Total reads')\n", + "aov_table <- summary(aov(rowSums(positive.count) ~ positive.samples$dilution))[[1]]\n", + "round((aov_table['positive.samples$dilution', 'Sum Sq'] / sum(aov_table[, 'Sum Sq'])) * 100, 1)" + ] + }, + { + "cell_type": "markdown", + "id": "d26b97bb", + "metadata": {}, + "source": [ + "## Series 4 – Rarefaction workflow\n", + "Focus: rarefying all PCRs to the same depth and documenting which MOTUs are retained." + ] + }, + { + "cell_type": "markdown", + "id": "7215a84e", + "metadata": {}, + "source": [ + "### Exercise 4.1 – Rarefy down to 2,000 reads\n", + "\n", + "Find the minimum sequencing depth across PCRs and run `rrarefy()` so that every PCR contains exactly 2,000 reads." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "a5b630ea", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "9396d525", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "min_reads <- min(rowSums(positive.count))\n", + "min_reads\n", + "positive.count.rarefied <- rrarefy(positive.count, sample = 2000)" + ] + }, + { + "cell_type": "markdown", + "id": "b9ffa199", + "metadata": {}, + "source": [ + "### Exercise 4.2 – Track retained MOTUs\n", + "\n", + "Identify which MOTUs have non-zero counts after rarefaction. Keep those columns in the rarefied count matrix as well as in `positive.motus`." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "e7ca495f", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "d64a8f53", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "are.still.present <- colSums(positive.count.rarefied) > 0\n", + "table(are.still.present)\n", + "positive.count.rarefied <- positive.count.rarefied[, are.still.present]\n", + "positive.motus.rare <- positive.motus[are.still.present, ]" + ] + }, + { + "cell_type": "markdown", + "id": "91c3d626", + "metadata": {}, + "source": [ + "### Exercise 4.3 – Compare distributions before and after\n", + "\n", + "Use histograms or boxplots to compare the MOTU read-count distribution before and after rarefaction, as shown on the slides." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "58aa7960", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "3acddc91", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "par(mfrow = c(1, 2), bg = NA)\n", + "hist(log10(colSums(positive.count) + 1), breaks = 30,\n", + " xlab = expression(log[10](reads~per~MOTU)), main = 'Not rarefied',\n", + " xlim = c(0, 6), ylim = c(0, 2300))\n", + "hist(log10(colSums(positive.count.rarefied) + 1), breaks = 30,\n", + " xlab = expression(log[10](reads~per~MOTU)), main = 'Rarefied data',\n", + " xlim = c(0, 6), ylim = c(0, 2300))" + ] + }, + { + "cell_type": "markdown", + "id": "8356f83d", + "metadata": {}, + "source": [ + "## Series 5 – Relative frequencies\n", + "Focus: transforming counts to relative abundances so that all PCRs sum to one." + ] + }, + { + "cell_type": "markdown", + "id": "093a4bdc", + "metadata": {}, + "source": [ + "### Exercise 5.1 – Compute relative frequencies\n", + "\n", + "Apply `decostand(..., method = \"total\")` to convert the raw `positive.count` matrix into `positive.count.relfreq`." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "d04a1702", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "84051b2e", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "positive.count.relfreq <- decostand(positive.count, method = 'total')" + ] + }, + { + "cell_type": "markdown", + "id": "ac101584", + "metadata": {}, + "source": [ + "### Exercise 5.2 – Check for empty MOTUs\n", + "\n", + "Verify that no MOTU sums to zero after the relative-frequency transformation." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "c6dc22c2", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "432d3736", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "table(colSums(positive.count.relfreq) == 0)" + ] + }, + { + "cell_type": "markdown", + "id": "c98dd7aa", + "metadata": {}, + "source": [ + "## Series 6 – Alpha-diversity on toy environments\n", + "Focus: rehearse richness, Gini–Simpson, Shannon entropy, and Hill numbers exactly as on the lecture example." + ] + }, + { + "cell_type": "markdown", + "id": "5619e9b0", + "metadata": {}, + "source": [ + "### Exercise 6.1 – Encode the two environments and compute richness\n", + "\n", + "Create the two probability vectors from the slides (E1 and E2), bind them into a matrix named `environments`, and compute richness `S` for each." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "1745870a", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "5ae56e8d", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "E1 <- c(A = 0.25, B = 0.25, C = 0.25, D = 0.25, E = 0, F = 0, G = 0)\n", + "E2 <- c(A = 0.55, B = 0.07, C = 0.02, D = 0.17, E = 0.07, F = 0.07, G = 0.03)\n", + "environments <- rbind(`Environment 1` = E1, `Environment 2` = E2)\n", + "S <- rowSums(environments > 0)\n", + "S" + ] + }, + { + "cell_type": "markdown", + "id": "8957a397", + "metadata": {}, + "source": [ + "### Exercise 6.2 – Compute Gini–Simpson and Shannon indices\n", + "\n", + "Use the formulas from the slides to compute Gini–Simpson (`1 - sum(p^2)`) and Shannon entropy (`-sum(p * log(p))`) for each environment." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "cf9e5cb8", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "e001766e", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "GiniSimpson <- 1 - rowSums(environments^2)\n", + "Shannon <- -rowSums(environments * log(environments), na.rm = TRUE)\n", + "data.frame(`Gini-Simpson` = GiniSimpson, `Shannon` = Shannon)" + ] + }, + { + "cell_type": "markdown", + "id": "f0b46c2c", + "metadata": {}, + "source": [ + "### Exercise 6.3 – Convert Shannon entropy to Hill numbers\n", + "\n", + "Follow the lecture by transforming Shannon entropy to Hill numbers via `exp(H)`." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "597ffb15", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "48b56af5", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "Hill <- exp(-rowSums(environments * log(environments), na.rm = TRUE))\n", + "Hill" + ] + }, + { + "cell_type": "markdown", + "id": "f83fda9d", + "metadata": {}, + "source": [ + "## Series 7 – Generalized entropy and biodiversity spectra\n", + "Focus: implementing the `log_q`, `exp_q`, `H_q`, and `D_q` helpers and generating diversity spectra just like on the slides." + ] + }, + { + "cell_type": "markdown", + "id": "d4827495", + "metadata": {}, + "source": [ + "### Exercise 7.1 – Implement the generalized log and exponential\n", + "\n", + "Write the `log_q()` and `exp_q()` functions introduced in the lecture. They should fall back to the natural log/exp when `q = 1`." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "91876c04", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "8dc09ddc", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "log_q <- function(x, q = 1) {\n", + " if (q == 1) {\n", + " log(x)\n", + " } else {\n", + " (x^(1 - q) - 1) / (1 - q)\n", + " }\n", + "}\n", + "exp_q <- function(x, q = 1) {\n", + " if (q == 1) {\n", + " exp(x)\n", + " } else {\n", + " (1 + (1 - q) * x)^(1 / (1 - q))\n", + " }\n", + "}" + ] + }, + { + "cell_type": "markdown", + "id": "0842dfd5", + "metadata": {}, + "source": [ + "### Exercise 7.2 – Build entropy and diversity spectra\n", + "\n", + "Define `H_q()`, `D_q()`, `H_spectrum()`, and `D_spectrum()`, then compute the spectra for the toy environments over `q = seq(0, 3, by = 0.1)`." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "0e4262b3", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "d5addf0f", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "H_q <- function(x, q = 1) {\n", + " sum(x * log_q(1 / x, q), na.rm = TRUE)\n", + "}\n", + "D_q <- function(x, q = 1) {\n", + " exp_q(H_q(x, q), q)\n", + "}\n", + "H_spectrum <- function(x, q = 1) {\n", + " sapply(q, function(Q) H_q(x, Q))\n", + "}\n", + "D_spectrum <- function(x, q = 1) {\n", + " sapply(q, function(Q) D_q(x, Q))\n", + "}\n", + "qs <- seq(0, 3, by = 0.1)\n", + "environments.H <- apply(environments, MARGIN = 1, H_spectrum, q = qs)\n", + "environments.D <- apply(environments, MARGIN = 1, D_spectrum, q = qs)\n", + "list(H = environments.H, D = environments.D)" + ] + }, + { + "cell_type": "markdown", + "id": "c294ed9e", + "metadata": {}, + "source": [ + "### Exercise 7.3 – Compare spectra for the mock community\n", + "\n", + "Use the `plants.16` dataset and the mock-community relative frequencies to compute `H.mock`, `D.mock`, and the distributions of `positive.H` and `positive.D` shown on the slides." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "e86de7d4", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "accb758e", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "data('plants.16')\n", + "positive.count.relfreq <- decostand(positive.count, method = 'total')\n", + "H.mock <- H_spectrum(plants.16$dilution, q = qs)\n", + "D.mock <- D_spectrum(plants.16$dilution, q = qs)\n", + "positive.H <- apply(positive.count.relfreq, MARGIN = 1, H_spectrum, q = qs)\n", + "positive.D <- apply(positive.count.relfreq, MARGIN = 1, D_spectrum, q = qs)\n", + "list(H.mock = H.mock, D.mock = D.mock, positive.H = positive.H, positive.D = positive.D)" + ] + }, + { + "cell_type": "markdown", + "id": "54760c35", + "metadata": {}, + "source": [ + "## Series 8 – Impact of extra cleaning on α-diversity\n", + "Focus: repeating the spectral computation on the cleaned dataset (`positive.clean.count`)." + ] + }, + { + "cell_type": "markdown", + "id": "ed7211a9", + "metadata": {}, + "source": [ + "### Exercise 8.1 – Load the cleaned counts and normalize\n", + "\n", + "Load `positive.clean.count`, convert it to relative frequencies, and store the result in `positive.clean.count.relfreq`." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "05cf6f64", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "46de8a61", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "data('positive.clean.count')\n", + "positive.clean.count.relfreq <- decostand(positive.clean.count, method = 'total')" + ] + }, + { + "cell_type": "markdown", + "id": "15087b1c", + "metadata": {}, + "source": [ + "### Exercise 8.2 – Compute entropy and diversity spectra\n", + "\n", + "Apply `H_spectrum()` and `D_spectrum()` to every cleaned PCR (using the same `qs`) and summarize the distributions (e.g., via `rowMeans` or boxplots)." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "ccca62a3", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "805ebb6f", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "positive.clean.H <- apply(positive.clean.count.relfreq, MARGIN = 1, H_spectrum, q = qs)\n", + "positive.clean.D <- apply(positive.clean.count.relfreq, MARGIN = 1, D_spectrum, q = qs)\n", + "positive.clean.H.means <- rowMeans(positive.clean.H)\n", + "positive.clean.D.means <- rowMeans(positive.clean.D)\n", + "list(H = positive.clean.H, D = positive.clean.D,\n", + " H.means = positive.clean.H.means,\n", + " D.means = positive.clean.D.means)" + ] + }, + { + "cell_type": "markdown", + "id": "ada1e0c9", + "metadata": {}, + "source": [ + "## Series 9 – β-diversity: Guiana rainforest case study\n", + "Focus: cleaning replicated PCRs, averaging them, and building several distance matrices on the Guiana dataset exactly like on the slides." + ] + }, + { + "cell_type": "markdown", + "id": "c9799240", + "metadata": {}, + "source": [ + "### Exercise 9.1 – Load Guiana data and flag bad PCRs\n", + "\n", + "Load `guiana.count`, `guiana.samples`, and `guiana.motus`. Then repeat the `tag_bad_pcr()` filtering three times so that only reliable PCRs remain in `guiana.count.clean` and `guiana.samples.clean`." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "a6a20527", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "2665255a", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "data('guiana.count')\n", + "data('guiana.samples')\n", + "data('guiana.motus')\n", + "guiana.count.clean <- guiana.count\n", + "guiana.samples.clean <- guiana.samples\n", + "for (cycle in 1:3) {\n", + " s <- tag_bad_pcr(guiana.samples.clean$sample, guiana.count.clean)\n", + " guiana.count.clean <- guiana.count.clean[s$keep, ]\n", + " guiana.samples.clean <- guiana.samples.clean[s$keep, ]\n", + "}\n", + "table(s$keep)" + ] + }, + { + "cell_type": "markdown", + "id": "883353c4", + "metadata": {}, + "source": [ + "### Exercise 9.2 – Average PCR replicates and retain real samples\n", + "\n", + "Bind the `tag_bad_pcr` summary to `guiana.samples.clean`, average counts by biological sample, keep one metadata line per sample, and drop rows without a site identifier." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "494cedda", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "2e3a5435", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "guiana.samples.clean <- cbind(guiana.samples.clean, s[rownames(guiana.samples.clean), ])\n", + "guiana.count.mean <- aggregate(decostand(guiana.count.clean, method = 'total'),\n", + " by = list(guiana.samples.clean$sample), FUN = mean)\n", + "rownames(guiana.count.mean) <- guiana.count.mean[, 1]\n", + "guiana.count.mean <- as.matrix(guiana.count.mean[, -1])\n", + "guiana.samples.mean <- aggregate(guiana.samples.clean,\n", + " by = list(guiana.samples.clean$sample),\n", + " FUN = function(i) i[1])\n", + "rownames(guiana.samples.mean) <- guiana.samples.mean[, 1]\n", + "guiana.samples.mean <- guiana.samples.mean[, -1]\n", + "guiana.samples.final <- guiana.samples.mean[!is.na(guiana.samples.mean$site_id), ]\n", + "guiana.count.final <- guiana.count.mean[rownames(guiana.samples.final), ]" + ] + }, + { + "cell_type": "markdown", + "id": "7daae74c", + "metadata": {}, + "source": [ + "### Exercise 9.3 – Create transformed matrices\n", + "\n", + "Compute the Hellinger transformation, relative frequencies, and presence/absence thresholds (0.1%, 1%, and 5%) used later in the slides." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "78512528", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "5e3c43e4", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "guiana.hellinger.final <- decostand(guiana.count.final, method = 'hellinger')\n", + "guiana.relfreq.final <- decostand(guiana.count.final, method = 'total')\n", + "guiana.presence.1.final <- guiana.relfreq.final > 0.001\n", + "guiana.presence.10.final <- guiana.relfreq.final > 0.01\n", + "guiana.presence.50.final <- guiana.relfreq.final > 0.05" + ] + }, + { + "cell_type": "markdown", + "id": "1e36cfd3", + "metadata": {}, + "source": [ + "### Exercise 9.4 – Compute distance matrices\n", + "\n", + "Using `vegdist()`, reproduce the Bray–Curtis, Euclidean (on Hellinger), and Jaccard (three thresholds) distances." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "9a17fc33", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "952cf1b7", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "guiana.bc.dist <- vegdist(guiana.relfreq.final, method = 'bray')\n", + "guiana.euc.dist <- vegdist(guiana.hellinger.final, method = 'euclidean')\n", + "guiana.jac.1.dist <- vegdist(guiana.presence.1.final, method = 'jaccard')\n", + "guiana.jac.10.dist <- vegdist(guiana.presence.10.final, method = 'jaccard')\n", + "guiana.jac.50.dist <- vegdist(guiana.presence.50.final, method = 'jaccard')" + ] + }, + { + "cell_type": "markdown", + "id": "6dce2f2e", + "metadata": {}, + "source": [ + "## Series 10 – Ordination and diversity comparisons\n", + "Focus: recreating the ordination figures and the final comparison of α-diversity spectra across sites/materials." + ] + }, + { + "cell_type": "markdown", + "id": "37a99ef4", + "metadata": {}, + "source": [ + "### Exercise 10.1 – Run principal coordinate analyses\n", + "\n", + "Apply `cmdscale()` (with `k = 3`) to every distance matrix and store the resulting objects for plotting." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "7ceafe4f", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "1c457d01", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "guiana.bc.pcoa <- cmdscale(guiana.bc.dist, k = 3, eig = TRUE)\n", + "guiana.euc.pcoa <- cmdscale(guiana.euc.dist, k = 3, eig = TRUE)\n", + "guiana.jac.1.pcoa <- cmdscale(guiana.jac.1.dist, k = 3, eig = TRUE)\n", + "guiana.jac.10.pcoa <- cmdscale(guiana.jac.10.dist, k = 3, eig = TRUE)\n", + "guiana.jac.50.pcoa <- cmdscale(guiana.jac.50.dist, k = 3, eig = TRUE)" + ] + }, + { + "cell_type": "markdown", + "id": "4becf772", + "metadata": {}, + "source": [ + "### Exercise 10.2 – Compare Euclidean PCoA and PCA\n", + "\n", + "Create the `samples.type` factor (Material × Site), plot the Euclidean PCoA (first two axes), and run a PCA on the Hellinger-transformed data to mirror the lecture." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "078deace", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "76d6a234", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "samples.type <- interaction(guiana.samples.final$Material,\n", + " guiana.samples.final$Site, drop = FALSE)\n", + "par(mfrow = c(1, 2), bg = NA)\n", + "plot(guiana.euc.pcoa$points[, 1:2], col = samples.type, asp = 1,\n", + " xlab = 'Axis 1', ylab = 'Axis 2', main = 'Euclidean on Hellinger')\n", + "guiana.hellinger.pca <- prcomp(guiana.hellinger.final, center = TRUE, scale. = FALSE)\n", + "plot(guiana.hellinger.pca$x[, 1:2], col = samples.type, asp = 1,\n", + " xlab = 'Axis 1', ylab = 'Axis 2', main = 'PCA on Hellinger data')" + ] + }, + { + "cell_type": "markdown", + "id": "422dcd81", + "metadata": {}, + "source": [ + "### Exercise 10.3 – Compare diversity spectra by habitat\n", + "\n", + "Apply `H_spectrum()` to each averaged Guiana sample (using the same `qs`) and reproduce the boxplots comparing Mana vs Petit Plateau and Litter vs Soil." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "176f0cb5", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "d26e3cd4", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "guiana.relfreq.spectra <- apply(guiana.relfreq.final, MARGIN = 1, H_spectrum, q = qs)\n", + "par(mfrow = c(2, 2), bg = NA)\n", + "boxplot(t(guiana.relfreq.spectra[, samples.type == 'litter.Mana']), log = 'y',\n", + " names = qs, las = 2, main = 'Mana litter', ylab = expression(''^q * H))\n", + "boxplot(t(guiana.relfreq.spectra[, samples.type == 'soil.Mana']), log = 'y',\n", + " names = qs, las = 2, main = 'Mana soil', ylab = expression(''^q * H))\n", + "boxplot(t(guiana.relfreq.spectra[, samples.type == 'litter.Petit Plateau']), log = 'y',\n", + " names = qs, las = 2, main = 'Petit Plateau litter', ylab = expression(''^q * H))\n", + "boxplot(t(guiana.relfreq.spectra[, samples.type == 'soil.Petit Plateau']), log = 'y',\n", + " names = qs, las = 2, main = 'Petit Plateau soil', ylab = expression(''^q * H))" + ] + } + ], + "metadata": { + "kernelspec": { + "display_name": "R", + "language": "R", + "name": "ir" + }, + "language_info": { + "name": "R" + } + }, + "nbformat": 4, + "nbformat_minor": 5 +} diff --git a/jupyterhub_volumes/course/unix.ipynb b/jupyterhub_volumes/course/unix.ipynb index 9de4ff6..2f60fa3 100644 --- a/jupyterhub_volumes/course/unix.ipynb +++ b/jupyterhub_volumes/course/unix.ipynb @@ -2,128 +2,883 @@ "cells": [ { "cell_type": "markdown", + "id": "30438c30", "metadata": {}, "source": [ - "# Unix Essentials — Bash Exercises\n", + "# Unix Essentials — Bash Practice Notebook\n", "\n", - "This notebook contains short hands-on Bash exercises.\n", - "Each exercise has a hidden solution that can be unfolded when needed." + "This notebook contains 50 small Bash exercises grouped by topic.\n", + "Each exercise includes a hidden solution that can be revealed in Jupyter." ] }, { "cell_type": "markdown", + "id": "39d711f9", "metadata": {}, "source": [ - "## Exercise 1 – Listing and Filtering Files\n", - "\n", - "Create three files and list only those whose name ends with `.log`." + "## Series 1 — Paths and Directories" + ] + }, + { + "cell_type": "markdown", + "id": "6fb7335e", + "metadata": {}, + "source": [ + "### Exercise 1.1 — Show your current working directory" ] }, { "cell_type": "code", "execution_count": null, + "id": "2b8575f3", "metadata": {}, "outputs": [], "source": [ "# your work here\n", - "touch report.log notes.txt errors.log\n", - "# list files ending with .log" + "pwd" ] }, { "cell_type": "code", "execution_count": null, + "id": "21f63bb0", "metadata": { "jupyter": { - "source_hidden": true, - "outputs_hidden": true + "outputs_hidden": true, + "source_hidden": true } }, "outputs": [], "source": [ "# Solution\n", - "ls *.log" + "pwd" ] }, { "cell_type": "markdown", + "id": "61a624bf", "metadata": {}, "source": [ - "## Exercise 2 – Redirecting Output\n", - "\n", - "List the `/etc` directory and save the results in a file named `listing.txt`, then display the first five lines of that file." + "### Exercise 1.2 — Create a new directory named `testdir`" ] }, { "cell_type": "code", "execution_count": null, + "id": "4a4df387", "metadata": {}, "outputs": [], "source": [ "# your work here\n", - "# 1. list /etc\n", - "# 2. redirect output to listing.txt\n", - "# 3. show first five lines" + "mkdir testdir" ] }, { "cell_type": "code", "execution_count": null, + "id": "2b5cfbca", "metadata": { "jupyter": { - "source_hidden": true, - "outputs_hidden": true + "outputs_hidden": true, + "source_hidden": true } }, "outputs": [], "source": [ "# Solution\n", - "ls /etc > listing.txt\n", - "head -5 listing.txt" + "mkdir testdir" ] }, { "cell_type": "markdown", + "id": "2dccbb61", "metadata": {}, "source": [ - "## Exercise 3 – Using a For Loop\n", - "\n", - "Write a loop that prints the line count of each `.txt` file in the current directory." + "### Exercise 1.3 — Move into `testdir` using a relative path" ] }, { "cell_type": "code", "execution_count": null, + "id": "fb73ca3c", "metadata": {}, "outputs": [], "source": [ "# your work here\n", - "# hint: use wc -l" + "cd testdir" ] }, { "cell_type": "code", "execution_count": null, + "id": "ba670a20", "metadata": { "jupyter": { - "source_hidden": true, - "outputs_hidden": true + "outputs_hidden": true, + "source_hidden": true } }, "outputs": [], "source": [ "# Solution\n", - "for f in *.txt; do\n", - " echo \"$f: $(wc -l < \"$f\") lines\"\n", - "done" + "cd testdir" ] }, { "cell_type": "markdown", + "id": "4f7e5817", "metadata": {}, "source": [ - "---\n", - "All solutions are hidden by default (`source_hidden: true`). Students can unfold them in Jupyter’s interface to compare with their own answers." + "### Exercise 1.4 — Create two subdirectories `a` and `b` in one command" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "30be8f44", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here\n", + "mkdir a b" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "caf92714", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "mkdir a b" + ] + }, + { + "cell_type": "markdown", + "id": "edec9041", + "metadata": {}, + "source": [ + "### Exercise 1.5 — Return to the parent directory using `..`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "32a0f1df", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here\n", + "cd .." + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "2a0aa92f", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "cd .." + ] + }, + { + "cell_type": "markdown", + "id": "31917159", + "metadata": {}, + "source": [ + "### Exercise 1.6 — Create nested directories `one/two/three` in a single command" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "c0a313c3", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here\n", + "mkdir -p one/two/three" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "4af63dce", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "mkdir -p one/two/three" + ] + }, + { + "cell_type": "markdown", + "id": "24ee949e", + "metadata": {}, + "source": [ + "### Exercise 1.7 — List the absolute path of the current directory" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "8258fff7", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here\n", + "pwd" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "a6a062b2", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "pwd" + ] + }, + { + "cell_type": "markdown", + "id": "6d724d3e", + "metadata": {}, + "source": [ + "### Exercise 1.8 — Create a directory using an absolute path" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "5f497f7c", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here\n", + "mkdir /tmp/mydir" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "1d1d4e27", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "mkdir /tmp/mydir" + ] + }, + { + "cell_type": "markdown", + "id": "0a4cbe5b", + "metadata": {}, + "source": [ + "### Exercise 1.9 — Display both `.` and `..` directories with `ls -a`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "7d962a9f", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here\n", + "ls -a" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "91994de2", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "ls -a" + ] + }, + { + "cell_type": "markdown", + "id": "e147ff34", + "metadata": {}, + "source": [ + "### Exercise 1.10 — Remove the directory `/tmp/mydir`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "dcae28e3", + "metadata": {}, + "outputs": [], + "source": [ + "# your work here\n", + "rmdir /tmp/mydir" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "1a000f14", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "rmdir /tmp/mydir" + ] + }, + { + "cell_type": "markdown", + "id": "578548f7", + "metadata": {}, + "source": [ + "## Series 2 — File Manipulation" + ] + }, + { + "cell_type": "markdown", + "id": "813140d5", + "metadata": {}, + "source": [ + "### Exercise 2.1 — Create an empty file named `notes.txt`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "08385872", + "metadata": {}, + "outputs": [], + "source": [ + "touch notes.txt" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "a474ad37", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "touch notes.txt" + ] + }, + { + "cell_type": "markdown", + "id": "6e918f3d", + "metadata": {}, + "source": [ + "### Exercise 2.2 — Copy `notes.txt` to `backup.txt`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "faf85985", + "metadata": {}, + "outputs": [], + "source": [ + "cp notes.txt backup.txt" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "4d3e54d5", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "cp notes.txt backup.txt" + ] + }, + { + "cell_type": "markdown", + "id": "2c924f2e", + "metadata": {}, + "source": [ + "### Exercise 2.3 — Rename `backup.txt` to `archive.txt`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "2d4adeb4", + "metadata": {}, + "outputs": [], + "source": [ + "mv backup.txt archive.txt" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "2c62e70f", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "mv backup.txt archive.txt" + ] + }, + { + "cell_type": "markdown", + "id": "c9e525a7", + "metadata": {}, + "source": [ + "### Exercise 2.4 — Create 3 files and remove one with `rm`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "3ef53a3a", + "metadata": {}, + "outputs": [], + "source": [ + "touch a.txt b.txt c.txt\n", + "rm b.txt" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "55e07074", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "touch a.txt b.txt c.txt\n", + "rm b.txt" + ] + }, + { + "cell_type": "markdown", + "id": "b5a406b4", + "metadata": {}, + "source": [ + "### Exercise 2.5 — Remove a directory recursively" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "2c819a49", + "metadata": {}, + "outputs": [], + "source": [ + "mkdir -p tmpdir/sub\n", + "rm -rf tmpdir" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "b958a668", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "mkdir -p tmpdir/sub\n", + "rm -rf tmpdir" + ] + }, + { + "cell_type": "markdown", + "id": "9aa4996e", + "metadata": {}, + "source": [ + "## Series 3 — Redirections and Pipes" + ] + }, + { + "cell_type": "markdown", + "id": "ada90797", + "metadata": {}, + "source": [ + "### Exercise 3.1 — Save the output of `ls` to a file `list.txt`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "25afa75b", + "metadata": {}, + "outputs": [], + "source": [ + "ls > list.txt" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "80ca4767", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "ls > list.txt" + ] + }, + { + "cell_type": "markdown", + "id": "61c3bff6", + "metadata": {}, + "source": [ + "### Exercise 3.2 — Append the date to `list.txt`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "b7849f15", + "metadata": {}, + "outputs": [], + "source": [ + "date >> list.txt" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "83b08fe6", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "date >> list.txt" + ] + }, + { + "cell_type": "markdown", + "id": "600edcaa", + "metadata": {}, + "source": [ + "### Exercise 3.3 — Count lines of `list.txt` with a pipe" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "37e859f4", + "metadata": {}, + "outputs": [], + "source": [ + "cat list.txt | wc -l" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "d1429a1c", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "cat list.txt | wc -l" + ] + }, + { + "cell_type": "markdown", + "id": "a901cf34", + "metadata": {}, + "source": [ + "### Exercise 3.4 — Redirect error messages to a file" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "f2c1d530", + "metadata": {}, + "outputs": [], + "source": [ + "ls /fakepath 2> errors.txt" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "66c68bc4", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "ls /fakepath 2> errors.txt" + ] + }, + { + "cell_type": "markdown", + "id": "72e5eca4", + "metadata": {}, + "source": [ + "## Series 4 — Viewing Results" + ] + }, + { + "cell_type": "markdown", + "id": "dd7cbf2e", + "metadata": {}, + "source": [ + "### Exercise 4.1 — Display the first 5 lines of `/etc/passwd`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "195c0f25", + "metadata": {}, + "outputs": [], + "source": [ + "head -5 /etc/passwd" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "72dc0297", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "head -5 /etc/passwd" + ] + }, + { + "cell_type": "markdown", + "id": "227ebdf8", + "metadata": {}, + "source": [ + "### Exercise 4.2 — Show the last 3 lines of `/etc/passwd`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "3a829074", + "metadata": {}, + "outputs": [], + "source": [ + "tail -3 /etc/passwd" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "e66f1752", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "tail -3 /etc/passwd" + ] + }, + { + "cell_type": "markdown", + "id": "826cbb41", + "metadata": {}, + "source": [ + "### Exercise 4.3 — Use `grep` to show lines containing 'root'" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "df9a877b", + "metadata": {}, + "outputs": [], + "source": [ + "grep root /etc/passwd" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "5ed43d3d", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "grep root /etc/passwd" + ] + }, + { + "cell_type": "markdown", + "id": "a6c2f0a8", + "metadata": {}, + "source": [ + "## Series 5 — Process Management" + ] + }, + { + "cell_type": "markdown", + "id": "333ab7c1", + "metadata": {}, + "source": [ + "### Exercise 5.1 — List current processes" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "41dc9dfb", + "metadata": {}, + "outputs": [], + "source": [ + "ps" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "c0f28455", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "ps" + ] + }, + { + "cell_type": "markdown", + "id": "c2d37e8f", + "metadata": {}, + "source": [ + "### Exercise 5.2 — Display dynamic process list with `top`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "7931c9aa", + "metadata": {}, + "outputs": [], + "source": [ + "top" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "id": "947570cf", + "metadata": { + "jupyter": { + "outputs_hidden": true, + "source_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n", + "top" ] } ], diff --git a/jupyterhub_volumes/course/unix_exercises_bash.ipynb b/jupyterhub_volumes/course/unix_exercises_bash.ipynb new file mode 100644 index 0000000..7784d09 --- /dev/null +++ b/jupyterhub_volumes/course/unix_exercises_bash.ipynb @@ -0,0 +1,1560 @@ +{ + "cells": [ + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "# Unix Essentials \u2014 Bash Practice Notebook\n\n", + "This notebook contains 50 short exercises grouped in 5 series.\n", + "Each exercise has a hidden solution for self-assessment." + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "## Series 1 \u2013 Path Manipulation\n\nFocus: `pwd`, `cd`, `mkdir`, `.`, `..`, relative and absolute paths." + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 1.1 \u2013 Show current directory" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\npwd" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 1.2 \u2013 Create a directory named `work`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nmkdir work" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 1.3 \u2013 Change to the `work` directory" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ncd work" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 1.4 \u2013 Create two subdirectories `data` and `logs`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nmkdir data logs" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 1.5 \u2013 Move back to the parent directory" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ncd .." + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 1.6 \u2013 Create nested directories `project/src` in one command" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nmkdir -p project/src" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 1.7 \u2013 Display the absolute path" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\npwd" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 1.8 \u2013 List all including hidden ones" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nls -a" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 1.9 \u2013 Create directory using absolute path `/tmp/test1`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nmkdir /tmp/test1" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 1.10 \u2013 Remove directory `/tmp/test1`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nrmdir /tmp/test1" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "## Series 2 \u2013 File Manipulation\n\nFocus: `rm`, `rm -rf`, `rmdir`, `cp`, `mv`." + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 2.1 \u2013 Create an empty file `a.txt`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ntouch a.txt" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 2.2 \u2013 Copy `a.txt` to `b.txt`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ncp a.txt b.txt" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 2.3 \u2013 Rename `b.txt` to `c.txt`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nmv b.txt c.txt" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 2.4 \u2013 Move `c.txt` to `/tmp/`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nmv c.txt /tmp/" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 2.5 \u2013 Create a folder `tempdir`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nmkdir tempdir" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 2.6 \u2013 Create files `x.txt`, `y.txt` in it" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ntouch tempdir/x.txt tempdir/y.txt" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 2.7 \u2013 Remove `y.txt`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nrm tempdir/y.txt" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 2.8 \u2013 Remove non-empty folder `tempdir` recursively" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nrm -rf tempdir" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 2.9 \u2013 Create and remove empty folder `delete_me`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nmkdir delete_me && rmdir delete_me" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 2.10 \u2013 Create file with text using echo" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\necho 'hello world' > greeting.txt" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "## Series 3 \u2013 Redirections and Pipes\n\nFocus: Redirect input/output, combine with pipes." + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 3.1 \u2013 Save `ls` output to file" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nls > list.txt" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 3.2 \u2013 Append date to `list.txt`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ndate >> list.txt" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 3.3 \u2013 View first 5 lines of `list.txt`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nhead -5 list.txt" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 3.4 \u2013 Count lines using pipe" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ncat list.txt | wc -l" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 3.5 \u2013 Redirect errors to `errors.txt`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nls /fake 2> errors.txt" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 3.6 \u2013 Redirect both output and errors" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nls /fake > all.txt 2>&1" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 3.7 \u2013 Use pipe to sort `list.txt`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ncat list.txt | sort" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 3.8 \u2013 Combine commands with `| grep`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nls /etc | grep conf" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 3.9 \u2013 Use input redirection `<` to count words" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nwc -w < list.txt" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 3.10 \u2013 Chain three commands" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ncat list.txt | sort | uniq" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "## Series 4 \u2013 Viewing Results\n\nFocus: `head`, `tail`, `cat`, `grep`, `less`." + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 4.1 \u2013 Display first 10 lines of `/etc/passwd`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nhead /etc/passwd" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 4.2 \u2013 Show last 5 lines of `/etc/passwd`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ntail -5 /etc/passwd" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 4.3 \u2013 View complete file `/etc/hostname`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ncat /etc/hostname" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 4.4 \u2013 Search for 'root' in `/etc/passwd`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ngrep root /etc/passwd" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 4.5 \u2013 Count matches of 'bash' in `/etc/passwd`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ngrep -c bash /etc/passwd" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 4.6 \u2013 Show line numbers with `grep`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ngrep -n bash /etc/passwd" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 4.7 \u2013 Invert match to exclude 'bash'" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ngrep -v bash /etc/passwd" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 4.8 \u2013 Use `less` to browse `/etc/services`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nless /etc/services" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 4.9 \u2013 Concatenate multiple small files" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ncat a.txt greeting.txt > merged.txt" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 4.10 \u2013 Show sorted unique words from `list.txt`" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ncat list.txt | tr ' ' '\\n' | sort | uniq" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "## Series 5 \u2013 Process Management\n\nFocus: `ps`, `kill`, `ctrl-c`, `ctrl-z`, `top`." + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 5.1 \u2013 List processes" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nps" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 5.2 \u2013 Show detailed process tree" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nps aux" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 5.3 \u2013 Find your shell PID" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\necho $$" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 5.4 \u2013 Launch sleep in background" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nsleep 60 &" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 5.5 \u2013 List background jobs" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\njobs" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 5.6 \u2013 Bring job to foreground" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nfg" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 5.7 \u2013 Stop a process by PID" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nkill " + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 5.8 \u2013 Force kill a process" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\nkill -9 " + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 5.9 \u2013 Display dynamic processes" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\ntop" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ + "### Exercise 5.10 \u2013 Exit `top` with `q` key" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "# your work here" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": { + "jupyter": { + "source_hidden": true, + "outputs_hidden": true + } + }, + "outputs": [], + "source": [ + "# Solution\n# press q in top" + ] + } + ], + "metadata": { + "kernelspec": { + "display_name": "Bash", + "language": "bash", + "name": "bash" + }, + "language_info": { + "name": "bash" + } + }, + "nbformat": 4, + "nbformat_minor": 5 +} \ No newline at end of file diff --git a/obijupyterhub/build_student.log b/obijupyterhub/build_student.log index 04b88a6..b64bc6d 100644 --- a/obijupyterhub/build_student.log +++ b/obijupyterhub/build_student.log @@ -1,8 +1,8 @@ #0 building with "orbstack" instance using docker driver #1 [internal] load build definition from Dockerfile -#1 transferring dockerfile: 2.49kB done -#1 DONE 0.0s +#1 transferring dockerfile: 2.46kB done +#1 DONE 0.1s #2 [internal] load metadata for docker.io/jupyter/base-notebook:latest #2 DONE 0.0s @@ -15,1979 +15,15177 @@ #4 CACHED #5 [internal] load build context -#5 transferring context: 39B done +#5 transferring context: 751B done #5 DONE 0.0s #6 [rust-builder 2/6] RUN apt-get update && apt-get install -y curl build-essential zlib1g-dev unzip && apt-get clean && rm -rf /var/lib/apt/lists/* -#6 0.390 Get:1 http://ports.ubuntu.com/ubuntu-ports jammy InRelease [270 kB] -#6 0.943 Get:2 http://ports.ubuntu.com/ubuntu-ports jammy-updates InRelease [128 kB] -#6 1.074 Get:3 http://ports.ubuntu.com/ubuntu-ports jammy-backports InRelease [127 kB] -#6 1.206 Get:4 http://ports.ubuntu.com/ubuntu-ports jammy-security InRelease [129 kB] -#6 1.338 Get:5 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 Packages [1,758 kB] -#6 1.659 Get:6 http://ports.ubuntu.com/ubuntu-ports jammy/restricted arm64 Packages [24.2 kB] -#6 1.659 Get:7 http://ports.ubuntu.com/ubuntu-ports jammy/multiverse arm64 Packages [224 kB] -#6 1.673 Get:8 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 Packages [17.2 MB] -#6 2.493 Get:9 http://ports.ubuntu.com/ubuntu-ports jammy-updates/restricted arm64 Packages [5,751 kB] -#6 2.623 Get:10 http://ports.ubuntu.com/ubuntu-ports jammy-updates/universe arm64 Packages [1,618 kB] -#6 2.662 Get:11 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 Packages [3,594 kB] -#6 2.752 Get:12 http://ports.ubuntu.com/ubuntu-ports jammy-updates/multiverse arm64 Packages [46.0 kB] -#6 2.757 Get:13 http://ports.ubuntu.com/ubuntu-ports jammy-backports/universe arm64 Packages [33.3 kB] -#6 2.757 Get:14 http://ports.ubuntu.com/ubuntu-ports jammy-backports/main arm64 Packages [83.5 kB] -#6 2.758 Get:15 http://ports.ubuntu.com/ubuntu-ports jammy-security/universe arm64 Packages [1,317 kB] -#6 2.781 Get:16 http://ports.ubuntu.com/ubuntu-ports jammy-security/multiverse arm64 Packages [39.5 kB] -#6 2.783 Get:17 http://ports.ubuntu.com/ubuntu-ports jammy-security/main arm64 Packages [3,258 kB] -#6 2.861 Get:18 http://ports.ubuntu.com/ubuntu-ports jammy-security/restricted arm64 Packages [5,552 kB] -#6 3.865 Fetched 41.2 MB in 4s (11.0 MB/s) -#6 3.865 Reading package lists... -#6 4.530 Reading package lists... -#6 5.171 Building dependency tree... -#6 5.313 Reading state information... -#6 5.475 The following additional packages will be installed: -#6 5.475 binutils binutils-aarch64-linux-gnu binutils-common cpp cpp-11 dirmngr -#6 5.475 dpkg-dev fakeroot fontconfig-config g++ g++-11 gcc gcc-11 gcc-11-base -#6 5.475 gcc-12-base gnupg gnupg-l10n gnupg-utils gpg gpg-agent gpg-wks-client -#6 5.475 gpg-wks-server gpgconf gpgsm gpgv libalgorithm-diff-perl -#6 5.475 libalgorithm-diff-xs-perl libalgorithm-merge-perl libasan6 libassuan0 -#6 5.475 libatomic1 libbinutils libbrotli1 libbsd0 libc-dev-bin libc-devtools libc6 -#6 5.475 libc6-dev libcc1-0 libcrypt-dev libctf-nobfd0 libctf0 libcurl4 libdeflate0 -#6 5.475 libdpkg-perl libexpat1 libfakeroot libfile-fcntllock-perl libfontconfig1 -#6 5.475 libfreetype6 libgcc-11-dev libgcc-s1 libgd3 libgdbm-compat4 libgdbm6 -#6 5.475 libgomp1 libhwasan0 libisl23 libitm1 libjbig0 libjpeg-turbo8 libjpeg8 -#6 5.475 libksba8 libldap-2.5-0 libldap-common liblocale-gettext-perl liblsan0 libmd0 -#6 5.475 libmpc3 libmpfr6 libnghttp2-14 libnpth0 libnsl-dev libperl5.34 libpng16-16 -#6 5.475 libreadline8 librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db -#6 5.475 libsqlite3-0 libssh-4 libstdc++-11-dev libstdc++6 libtiff5 libtirpc-dev -#6 5.475 libtsan0 libubsan1 libwebp7 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 -#6 5.475 libxpm4 linux-libc-dev lto-disabled-list make manpages manpages-dev netbase -#6 5.475 patch perl perl-base perl-modules-5.34 pinentry-curses readline-common -#6 5.476 rpcsvc-proto ucf xz-utils -#6 5.476 Suggested packages: -#6 5.476 binutils-doc cpp-doc gcc-11-locales dbus-user-session libpam-systemd -#6 5.476 pinentry-gnome3 tor debian-keyring gcc-11-doc gcc-multilib autoconf automake -#6 5.476 libtool flex bison gdb gcc-doc parcimonie xloadimage scdaemon glibc-doc git -#6 5.476 bzr libgd-tools gdbm-l10n libsasl2-modules-gssapi-mit -#6 5.476 | libsasl2-modules-gssapi-heimdal libsasl2-modules-ldap libsasl2-modules-otp -#6 5.476 libsasl2-modules-sql libstdc++-11-doc make-doc man-browser ed diffutils-doc -#6 5.476 perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl -#6 5.476 libtap-harness-archive-perl pinentry-doc readline-doc zip -#6 5.476 Recommended packages: -#6 5.476 libnss-nis libnss-nisplus -#6 5.591 The following NEW packages will be installed: -#6 5.591 binutils binutils-aarch64-linux-gnu binutils-common build-essential cpp -#6 5.591 cpp-11 curl dirmngr dpkg-dev fakeroot fontconfig-config g++ g++-11 gcc -#6 5.591 gcc-11 gcc-11-base gnupg gnupg-l10n gnupg-utils gpg gpg-agent gpg-wks-client -#6 5.591 gpg-wks-server gpgconf gpgsm libalgorithm-diff-perl -#6 5.591 libalgorithm-diff-xs-perl libalgorithm-merge-perl libasan6 libassuan0 -#6 5.591 libatomic1 libbinutils libbrotli1 libbsd0 libc-dev-bin libc-devtools -#6 5.591 libc6-dev libcc1-0 libcrypt-dev libctf-nobfd0 libctf0 libcurl4 libdeflate0 -#6 5.591 libdpkg-perl libexpat1 libfakeroot libfile-fcntllock-perl libfontconfig1 -#6 5.591 libfreetype6 libgcc-11-dev libgd3 libgdbm-compat4 libgdbm6 libgomp1 -#6 5.591 libhwasan0 libisl23 libitm1 libjbig0 libjpeg-turbo8 libjpeg8 libksba8 -#6 5.591 libldap-2.5-0 libldap-common liblocale-gettext-perl liblsan0 libmd0 libmpc3 -#6 5.591 libmpfr6 libnghttp2-14 libnpth0 libnsl-dev libperl5.34 libpng16-16 -#6 5.591 libreadline8 librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db -#6 5.591 libsqlite3-0 libssh-4 libstdc++-11-dev libtiff5 libtirpc-dev libtsan0 -#6 5.591 libubsan1 libwebp7 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxpm4 -#6 5.591 linux-libc-dev lto-disabled-list make manpages manpages-dev netbase patch -#6 5.591 perl perl-modules-5.34 pinentry-curses readline-common rpcsvc-proto ucf -#6 5.591 unzip xz-utils zlib1g-dev -#6 5.592 The following packages will be upgraded: -#6 5.592 gcc-12-base gpgv libc6 libgcc-s1 libstdc++6 perl-base -#6 5.804 6 upgraded, 108 newly installed, 0 to remove and 44 not upgraded. -#6 5.804 Need to get 86.4 MB of archives. -#6 5.804 After this operation, 280 MB of additional disk space will be used. -#6 5.804 Get:1 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 perl-base arm64 5.34.0-3ubuntu1.5 [1,710 kB] -#6 6.620 Get:2 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gcc-12-base arm64 12.3.0-1ubuntu1~22.04.2 [20.6 kB] -#6 6.623 Get:3 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgcc-s1 arm64 12.3.0-1ubuntu1~22.04.2 [39.7 kB] -#6 6.624 Get:4 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libstdc++6 arm64 12.3.0-1ubuntu1~22.04.2 [661 kB] -#6 6.649 Get:5 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libc6 arm64 2.35-0ubuntu3.11 [2,709 kB] -#6 6.785 Get:6 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 liblocale-gettext-perl arm64 1.07-4build3 [16.9 kB] -#6 6.785 Get:7 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 perl-modules-5.34 all 5.34.0-3ubuntu1.5 [2,977 kB] -#6 6.858 Get:8 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libgdbm6 arm64 1.23-1 [34.1 kB] -#6 6.859 Get:9 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libgdbm-compat4 arm64 1.23-1 [6,294 B] -#6 6.859 Get:10 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libperl5.34 arm64 5.34.0-3ubuntu1.5 [4,721 kB] -#6 7.075 Get:11 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 perl arm64 5.34.0-3ubuntu1.5 [232 kB] -#6 7.088 Get:12 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpgv arm64 2.2.27-3ubuntu2.4 [134 kB] -#6 7.096 Get:13 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libmd0 arm64 1.0.4-1build1 [23.8 kB] -#6 7.096 Get:14 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libbsd0 arm64 0.11.5-1 [43.7 kB] -#6 7.097 Get:15 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libexpat1 arm64 2.4.7-1ubuntu0.6 [77.8 kB] -#6 7.098 Get:16 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 readline-common all 8.1.2-1 [53.5 kB] -#6 7.098 Get:17 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libreadline8 arm64 8.1.2-1 [153 kB] -#6 7.106 Get:18 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libsqlite3-0 arm64 3.37.2-2ubuntu0.5 [636 kB] -#6 7.115 Get:19 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 netbase all 6.3 [12.9 kB] -#6 7.173 Get:20 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 ucf all 3.0043 [56.1 kB] -#6 7.188 Get:21 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libnghttp2-14 arm64 1.43.0-1ubuntu0.2 [76.0 kB] -#6 7.192 Get:22 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libpng16-16 arm64 1.6.37-3build5 [189 kB] -#6 7.298 Get:23 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxau6 arm64 1:1.0.9-1build5 [7,624 B] -#6 7.301 Get:24 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxdmcp6 arm64 1:1.1.3-0ubuntu5 [10.8 kB] -#6 7.301 Get:25 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxcb1 arm64 1.14-3ubuntu3 [49.0 kB] -#6 7.303 Get:26 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libx11-data all 2:1.7.5-1ubuntu0.3 [120 kB] -#6 7.376 Get:27 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libx11-6 arm64 2:1.7.5-1ubuntu0.3 [661 kB] -#6 7.392 Get:28 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 manpages all 5.10-1ubuntu1 [1,375 kB] -#6 7.412 Get:29 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 xz-utils arm64 5.2.5-2ubuntu1 [84.4 kB] -#6 7.414 Get:30 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 binutils-common arm64 2.38-4ubuntu2.10 [223 kB] -#6 7.424 Get:31 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libbinutils arm64 2.38-4ubuntu2.10 [824 kB] -#6 7.479 Get:32 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libctf-nobfd0 arm64 2.38-4ubuntu2.10 [109 kB] -#6 7.496 Get:33 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libctf0 arm64 2.38-4ubuntu2.10 [103 kB] -#6 7.502 Get:34 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 binutils-aarch64-linux-gnu arm64 2.38-4ubuntu2.10 [3,225 kB] -#6 7.600 Get:35 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 binutils arm64 2.38-4ubuntu2.10 [3,160 B] -#6 7.606 Get:36 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libc-dev-bin arm64 2.35-0ubuntu3.11 [19.7 kB] -#6 7.606 Get:37 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 linux-libc-dev arm64 5.15.0-161.171 [1,284 kB] -#6 7.777 Get:38 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libcrypt-dev arm64 1:4.4.27-1 [119 kB] -#6 7.784 Get:39 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 rpcsvc-proto arm64 1.4.2-0ubuntu6 [65.4 kB] -#6 7.794 Get:40 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libtirpc-dev arm64 1.3.2-2ubuntu0.1 [199 kB] -#6 7.801 Get:41 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libnsl-dev arm64 1.3.0-2build2 [72.1 kB] -#6 7.807 Get:42 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libc6-dev arm64 2.35-0ubuntu3.11 [1,548 kB] -#6 7.829 Get:43 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gcc-11-base arm64 11.4.0-1ubuntu1~22.04.2 [20.8 kB] -#6 7.830 Get:44 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libisl23 arm64 0.24-2build1 [689 kB] -#6 7.837 Get:45 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libmpfr6 arm64 4.1.0-3build3 [245 kB] -#6 7.839 Get:46 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libmpc3 arm64 1.2.1-2build1 [48.1 kB] -#6 7.882 Get:47 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 cpp-11 arm64 11.4.0-1ubuntu1~22.04.2 [9,717 kB] -#6 8.119 Get:48 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 cpp arm64 4:11.2.0-1ubuntu1 [27.7 kB] -#6 8.121 Get:49 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libcc1-0 arm64 12.3.0-1ubuntu1~22.04.2 [45.1 kB] -#6 8.123 Get:50 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgomp1 arm64 12.3.0-1ubuntu1~22.04.2 [124 kB] -#6 8.124 Get:51 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libitm1 arm64 12.3.0-1ubuntu1~22.04.2 [28.5 kB] -#6 8.125 Get:52 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libatomic1 arm64 12.3.0-1ubuntu1~22.04.2 [10.8 kB] -#6 8.125 Get:53 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libasan6 arm64 11.4.0-1ubuntu1~22.04.2 [2,236 kB] -#6 8.171 Get:54 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 liblsan0 arm64 12.3.0-1ubuntu1~22.04.2 [1,038 kB] -#6 8.192 Get:55 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libtsan0 arm64 11.4.0-1ubuntu1~22.04.2 [2,239 kB] -#6 8.246 Get:56 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libubsan1 arm64 12.3.0-1ubuntu1~22.04.2 [967 kB] -#6 8.271 Get:57 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libhwasan0 arm64 12.3.0-1ubuntu1~22.04.2 [1,120 kB] -#6 8.295 Get:58 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgcc-11-dev arm64 11.4.0-1ubuntu1~22.04.2 [1,145 kB] -#6 8.320 Get:59 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gcc-11 arm64 11.4.0-1ubuntu1~22.04.2 [19.5 MB] -#6 8.902 Get:60 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 gcc arm64 4:11.2.0-1ubuntu1 [5,128 B] -#6 8.902 Get:61 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libstdc++-11-dev arm64 11.4.0-1ubuntu1~22.04.2 [2,088 kB] -#6 8.932 Get:62 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 g++-11 arm64 11.4.0-1ubuntu1~22.04.2 [11.2 MB] -#6 9.207 Get:63 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 g++ arm64 4:11.2.0-1ubuntu1 [1,394 B] -#6 9.212 Get:64 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 make arm64 4.3-4.1build1 [177 kB] -#6 9.226 Get:65 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libdpkg-perl all 1.21.1ubuntu2.6 [237 kB] -#6 9.230 Get:66 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 patch arm64 2.7.6-7build2 [105 kB] -#6 9.235 Get:67 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 lto-disabled-list all 24 [12.5 kB] -#6 9.236 Get:68 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 dpkg-dev all 1.21.1ubuntu2.6 [922 kB] -#6 9.246 Get:69 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 build-essential arm64 12.9ubuntu3 [4,740 B] -#6 9.246 Get:70 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libbrotli1 arm64 1.0.9-2build6 [314 kB] -#6 9.249 Get:71 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libsasl2-modules-db arm64 2.1.27+dfsg2-3ubuntu1.2 [21.1 kB] -#6 9.304 Get:72 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libsasl2-2 arm64 2.1.27+dfsg2-3ubuntu1.2 [55.6 kB] -#6 9.322 Get:73 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libldap-2.5-0 arm64 2.5.19+dfsg-0ubuntu0.22.04.1 [181 kB] -#6 9.328 Get:74 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2build4 [59.2 kB] -#6 9.329 Get:75 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libssh-4 arm64 0.9.6-2ubuntu0.22.04.5 [185 kB] -#6 9.401 Get:76 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libcurl4 arm64 7.81.0-1ubuntu1.21 [284 kB] -#6 9.409 Get:77 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 curl arm64 7.81.0-1ubuntu1.21 [190 kB] -#6 9.414 Get:78 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libassuan0 arm64 2.5.5-1build1 [36.5 kB] -#6 9.414 Get:79 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpgconf arm64 2.2.27-3ubuntu2.4 [92.9 kB] -#6 9.415 Get:80 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libksba8 arm64 1.6.0-2ubuntu0.2 [117 kB] -#6 9.418 Get:81 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libnpth0 arm64 1.6-3build2 [8,156 B] -#6 9.418 Get:82 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 dirmngr arm64 2.2.27-3ubuntu2.4 [289 kB] -#6 9.426 Get:83 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libfakeroot arm64 1.28-1ubuntu1 [31.5 kB] -#6 9.426 Get:84 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 fakeroot arm64 1.28-1ubuntu1 [60.5 kB] -#6 9.498 Get:85 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 fontconfig-config all 2.13.1-4.2ubuntu5 [29.1 kB] -#6 9.507 Get:86 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gnupg-l10n all 2.2.27-3ubuntu2.4 [54.7 kB] -#6 9.513 Get:87 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gnupg-utils arm64 2.2.27-3ubuntu2.4 [304 kB] -#6 9.520 Get:88 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpg arm64 2.2.27-3ubuntu2.4 [507 kB] -#6 9.531 Get:89 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 pinentry-curses arm64 1.1.1-1build2 [33.5 kB] -#6 9.531 Get:90 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpg-agent arm64 2.2.27-3ubuntu2.4 [204 kB] -#6 9.535 Get:91 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpg-wks-client arm64 2.2.27-3ubuntu2.4 [61.4 kB] -#6 9.536 Get:92 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpg-wks-server arm64 2.2.27-3ubuntu2.4 [56.8 kB] -#6 9.537 Get:93 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpgsm arm64 2.2.27-3ubuntu2.4 [192 kB] -#6 9.594 Get:94 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gnupg all 2.2.27-3ubuntu2.4 [315 kB] -#6 9.605 Get:95 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libalgorithm-diff-perl all 1.201-1 [41.8 kB] -#6 9.610 Get:96 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libalgorithm-diff-xs-perl arm64 0.04-6build3 [11.7 kB] -#6 9.625 Get:97 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libalgorithm-merge-perl all 0.08-3 [12.0 kB] -#6 9.632 Get:98 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libfreetype6 arm64 2.11.1+dfsg-1ubuntu0.3 [382 kB] -#6 9.641 Get:99 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libfontconfig1 arm64 2.13.1-4.2ubuntu5 [135 kB] -#6 9.647 Get:100 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libjpeg-turbo8 arm64 2.1.2-0ubuntu1 [129 kB] -#6 9.648 Get:101 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libjpeg8 arm64 8c-2ubuntu10 [2,264 B] -#6 9.847 Get:102 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libdeflate0 arm64 1.10-2 [69.1 kB] -#6 10.19 Get:103 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libjbig0 arm64 2.1-3.1ubuntu0.22.04.1 [29.1 kB] -#6 10.22 Get:104 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libwebp7 arm64 1.2.2-2ubuntu0.22.04.2 [193 kB] -#6 10.40 Get:105 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libtiff5 arm64 4.3.0-6ubuntu0.12 [181 kB] -#6 10.48 Get:106 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libxpm4 arm64 1:3.5.12-1ubuntu0.22.04.2 [35.5 kB] -#6 10.49 Get:107 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgd3 arm64 2.3.0-2ubuntu2.3 [127 kB] -#6 10.52 Get:108 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libc-devtools arm64 2.35-0ubuntu3.11 [27.8 kB] -#6 10.53 Get:109 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libfile-fcntllock-perl arm64 0.22-3build7 [33.7 kB] -#6 10.54 Get:110 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libldap-common all 2.5.19+dfsg-0ubuntu0.22.04.1 [16.1 kB] -#6 10.54 Get:111 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libsasl2-modules arm64 2.1.27+dfsg2-3ubuntu1.2 [68.4 kB] -#6 10.57 Get:112 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 manpages-dev all 5.10-1ubuntu1 [2,309 kB] -#6 10.80 Get:113 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 unzip arm64 6.0-26ubuntu3.2 [171 kB] -#6 10.81 Get:114 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 zlib1g-dev arm64 1:1.2.11.dfsg-2ubuntu9.2 [163 kB] -#6 10.92 debconf: delaying package configuration, since apt-utils is not installed -#6 10.94 Fetched 86.4 MB in 5s (16.6 MB/s) -#6 11.09 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) -#6 11.09 Preparing to unpack .../perl-base_5.34.0-3ubuntu1.5_arm64.deb ... -#6 11.23 Unpacking perl-base (5.34.0-3ubuntu1.5) over (5.34.0-3ubuntu1.2) ... -#6 11.45 Setting up perl-base (5.34.0-3ubuntu1.5) ... -#6 11.50 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) -#6 11.50 Preparing to unpack .../gcc-12-base_12.3.0-1ubuntu1~22.04.2_arm64.deb ... -#6 11.51 Unpacking gcc-12-base:arm64 (12.3.0-1ubuntu1~22.04.2) over (12.3.0-1ubuntu1~22.04) ... -#6 11.54 Setting up gcc-12-base:arm64 (12.3.0-1ubuntu1~22.04.2) ... -#6 11.64 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) -#6 11.64 Preparing to unpack .../libgcc-s1_12.3.0-1ubuntu1~22.04.2_arm64.deb ... -#6 11.70 Unpacking libgcc-s1:arm64 (12.3.0-1ubuntu1~22.04.2) over (12.3.0-1ubuntu1~22.04) ... -#6 11.77 Setting up libgcc-s1:arm64 (12.3.0-1ubuntu1~22.04.2) ... -#6 11.88 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) -#6 11.88 Preparing to unpack .../libstdc++6_12.3.0-1ubuntu1~22.04.2_arm64.deb ... -#6 11.91 Unpacking libstdc++6:arm64 (12.3.0-1ubuntu1~22.04.2) over (12.3.0-1ubuntu1~22.04) ... -#6 11.99 Setting up libstdc++6:arm64 (12.3.0-1ubuntu1~22.04.2) ... -#6 12.04 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) -#6 12.04 Preparing to unpack .../libc6_2.35-0ubuntu3.11_arm64.deb ... -#6 12.11 Unpacking libc6:arm64 (2.35-0ubuntu3.11) over (2.35-0ubuntu3.4) ... -#6 12.25 Setting up libc6:arm64 (2.35-0ubuntu3.11) ... -#6 13.36 Selecting previously unselected package liblocale-gettext-perl. -#6 13.36 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) -#6 13.36 Preparing to unpack .../0-liblocale-gettext-perl_1.07-4build3_arm64.deb ... -#6 13.37 Unpacking liblocale-gettext-perl (1.07-4build3) ... -#6 13.41 Selecting previously unselected package perl-modules-5.34. -#6 13.41 Preparing to unpack .../1-perl-modules-5.34_5.34.0-3ubuntu1.5_all.deb ... -#6 13.42 Unpacking perl-modules-5.34 (5.34.0-3ubuntu1.5) ... -#6 13.59 Selecting previously unselected package libgdbm6:arm64. -#6 13.59 Preparing to unpack .../2-libgdbm6_1.23-1_arm64.deb ... -#6 13.60 Unpacking libgdbm6:arm64 (1.23-1) ... -#6 13.64 Selecting previously unselected package libgdbm-compat4:arm64. -#6 13.64 Preparing to unpack .../3-libgdbm-compat4_1.23-1_arm64.deb ... -#6 13.64 Unpacking libgdbm-compat4:arm64 (1.23-1) ... -#6 13.67 Selecting previously unselected package libperl5.34:arm64. -#6 13.67 Preparing to unpack .../4-libperl5.34_5.34.0-3ubuntu1.5_arm64.deb ... -#6 13.68 Unpacking libperl5.34:arm64 (5.34.0-3ubuntu1.5) ... -#6 13.85 Selecting previously unselected package perl. -#6 13.85 Preparing to unpack .../5-perl_5.34.0-3ubuntu1.5_arm64.deb ... -#6 13.88 Unpacking perl (5.34.0-3ubuntu1.5) ... -#6 13.96 Preparing to unpack .../6-gpgv_2.2.27-3ubuntu2.4_arm64.deb ... -#6 14.03 Unpacking gpgv (2.2.27-3ubuntu2.4) over (2.2.27-3ubuntu2.1) ... -#6 14.07 Setting up gpgv (2.2.27-3ubuntu2.4) ... -#6 14.12 Selecting previously unselected package libmd0:arm64. -#6 14.12 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 7866 files and directories currently installed.) -#6 14.13 Preparing to unpack .../000-libmd0_1.0.4-1build1_arm64.deb ... -#6 14.13 Unpacking libmd0:arm64 (1.0.4-1build1) ... -#6 14.16 Selecting previously unselected package libbsd0:arm64. -#6 14.16 Preparing to unpack .../001-libbsd0_0.11.5-1_arm64.deb ... -#6 14.17 Unpacking libbsd0:arm64 (0.11.5-1) ... -#6 14.28 Selecting previously unselected package libexpat1:arm64. -#6 14.28 Preparing to unpack .../002-libexpat1_2.4.7-1ubuntu0.6_arm64.deb ... -#6 14.29 Unpacking libexpat1:arm64 (2.4.7-1ubuntu0.6) ... -#6 14.39 Selecting previously unselected package readline-common. -#6 14.40 Preparing to unpack .../003-readline-common_8.1.2-1_all.deb ... -#6 14.40 Unpacking readline-common (8.1.2-1) ... -#6 14.51 Selecting previously unselected package libreadline8:arm64. -#6 14.51 Preparing to unpack .../004-libreadline8_8.1.2-1_arm64.deb ... -#6 14.52 Unpacking libreadline8:arm64 (8.1.2-1) ... -#6 14.63 Selecting previously unselected package libsqlite3-0:arm64. -#6 14.64 Preparing to unpack .../005-libsqlite3-0_3.37.2-2ubuntu0.5_arm64.deb ... -#6 14.64 Unpacking libsqlite3-0:arm64 (3.37.2-2ubuntu0.5) ... -#6 14.72 Selecting previously unselected package netbase. -#6 14.72 Preparing to unpack .../006-netbase_6.3_all.deb ... -#6 14.76 Unpacking netbase (6.3) ... -#6 14.87 Selecting previously unselected package ucf. -#6 14.88 Preparing to unpack .../007-ucf_3.0043_all.deb ... -#6 14.88 Moving old data out of the way -#6 14.88 Unpacking ucf (3.0043) ... -#6 14.99 Selecting previously unselected package libnghttp2-14:arm64. -#6 15.00 Preparing to unpack .../008-libnghttp2-14_1.43.0-1ubuntu0.2_arm64.deb ... -#6 15.00 Unpacking libnghttp2-14:arm64 (1.43.0-1ubuntu0.2) ... -#6 15.06 Selecting previously unselected package libpng16-16:arm64. -#6 15.06 Preparing to unpack .../009-libpng16-16_1.6.37-3build5_arm64.deb ... -#6 15.07 Unpacking libpng16-16:arm64 (1.6.37-3build5) ... -#6 15.13 Selecting previously unselected package libxau6:arm64. -#6 15.13 Preparing to unpack .../010-libxau6_1%3a1.0.9-1build5_arm64.deb ... -#6 15.14 Unpacking libxau6:arm64 (1:1.0.9-1build5) ... -#6 15.25 Selecting previously unselected package libxdmcp6:arm64. -#6 15.25 Preparing to unpack .../011-libxdmcp6_1%3a1.1.3-0ubuntu5_arm64.deb ... -#6 15.25 Unpacking libxdmcp6:arm64 (1:1.1.3-0ubuntu5) ... -#6 15.35 Selecting previously unselected package libxcb1:arm64. -#6 15.35 Preparing to unpack .../012-libxcb1_1.14-3ubuntu3_arm64.deb ... -#6 15.35 Unpacking libxcb1:arm64 (1.14-3ubuntu3) ... -#6 15.38 Selecting previously unselected package libx11-data. -#6 15.38 Preparing to unpack .../013-libx11-data_2%3a1.7.5-1ubuntu0.3_all.deb ... -#6 15.39 Unpacking libx11-data (2:1.7.5-1ubuntu0.3) ... -#6 15.46 Selecting previously unselected package libx11-6:arm64. -#6 15.46 Preparing to unpack .../014-libx11-6_2%3a1.7.5-1ubuntu0.3_arm64.deb ... -#6 15.47 Unpacking libx11-6:arm64 (2:1.7.5-1ubuntu0.3) ... -#6 15.50 Selecting previously unselected package manpages. -#6 15.50 Preparing to unpack .../015-manpages_5.10-1ubuntu1_all.deb ... -#6 15.50 Unpacking manpages (5.10-1ubuntu1) ... -#6 15.59 Selecting previously unselected package xz-utils. -#6 15.59 Preparing to unpack .../016-xz-utils_5.2.5-2ubuntu1_arm64.deb ... -#6 15.60 Unpacking xz-utils (5.2.5-2ubuntu1) ... -#6 15.61 Selecting previously unselected package binutils-common:arm64. -#6 15.61 Preparing to unpack .../017-binutils-common_2.38-4ubuntu2.10_arm64.deb ... -#6 15.62 Unpacking binutils-common:arm64 (2.38-4ubuntu2.10) ... -#6 15.68 Selecting previously unselected package libbinutils:arm64. -#6 15.68 Preparing to unpack .../018-libbinutils_2.38-4ubuntu2.10_arm64.deb ... -#6 15.69 Unpacking libbinutils:arm64 (2.38-4ubuntu2.10) ... -#6 15.73 Selecting previously unselected package libctf-nobfd0:arm64. -#6 15.73 Preparing to unpack .../019-libctf-nobfd0_2.38-4ubuntu2.10_arm64.deb ... -#6 15.73 Unpacking libctf-nobfd0:arm64 (2.38-4ubuntu2.10) ... -#6 15.75 Selecting previously unselected package libctf0:arm64. -#6 15.75 Preparing to unpack .../020-libctf0_2.38-4ubuntu2.10_arm64.deb ... -#6 15.75 Unpacking libctf0:arm64 (2.38-4ubuntu2.10) ... -#6 15.77 Selecting previously unselected package binutils-aarch64-linux-gnu. -#6 15.77 Preparing to unpack .../021-binutils-aarch64-linux-gnu_2.38-4ubuntu2.10_arm64.deb ... -#6 15.78 Unpacking binutils-aarch64-linux-gnu (2.38-4ubuntu2.10) ... -#6 15.87 Selecting previously unselected package binutils. -#6 15.87 Preparing to unpack .../022-binutils_2.38-4ubuntu2.10_arm64.deb ... -#6 15.87 Unpacking binutils (2.38-4ubuntu2.10) ... -#6 15.96 Selecting previously unselected package libc-dev-bin. -#6 15.96 Preparing to unpack .../023-libc-dev-bin_2.35-0ubuntu3.11_arm64.deb ... -#6 15.96 Unpacking libc-dev-bin (2.35-0ubuntu3.11) ... -#6 15.98 Selecting previously unselected package linux-libc-dev:arm64. -#6 15.98 Preparing to unpack .../024-linux-libc-dev_5.15.0-161.171_arm64.deb ... -#6 15.99 Unpacking linux-libc-dev:arm64 (5.15.0-161.171) ... -#6 16.07 Selecting previously unselected package libcrypt-dev:arm64. -#6 16.07 Preparing to unpack .../025-libcrypt-dev_1%3a4.4.27-1_arm64.deb ... -#6 16.08 Unpacking libcrypt-dev:arm64 (1:4.4.27-1) ... -#6 16.09 Selecting previously unselected package rpcsvc-proto. -#6 16.10 Preparing to unpack .../026-rpcsvc-proto_1.4.2-0ubuntu6_arm64.deb ... -#6 16.10 Unpacking rpcsvc-proto (1.4.2-0ubuntu6) ... -#6 16.12 Selecting previously unselected package libtirpc-dev:arm64. -#6 16.12 Preparing to unpack .../027-libtirpc-dev_1.3.2-2ubuntu0.1_arm64.deb ... -#6 16.12 Unpacking libtirpc-dev:arm64 (1.3.2-2ubuntu0.1) ... -#6 16.14 Selecting previously unselected package libnsl-dev:arm64. -#6 16.14 Preparing to unpack .../028-libnsl-dev_1.3.0-2build2_arm64.deb ... -#6 16.14 Unpacking libnsl-dev:arm64 (1.3.0-2build2) ... -#6 16.16 Selecting previously unselected package libc6-dev:arm64. -#6 16.16 Preparing to unpack .../029-libc6-dev_2.35-0ubuntu3.11_arm64.deb ... -#6 16.16 Unpacking libc6-dev:arm64 (2.35-0ubuntu3.11) ... -#6 16.24 Selecting previously unselected package gcc-11-base:arm64. -#6 16.24 Preparing to unpack .../030-gcc-11-base_11.4.0-1ubuntu1~22.04.2_arm64.deb ... -#6 16.24 Unpacking gcc-11-base:arm64 (11.4.0-1ubuntu1~22.04.2) ... -#6 16.32 Selecting previously unselected package libisl23:arm64. -#6 16.32 Preparing to unpack .../031-libisl23_0.24-2build1_arm64.deb ... -#6 16.32 Unpacking libisl23:arm64 (0.24-2build1) ... -#6 16.40 Selecting previously unselected package libmpfr6:arm64. -#6 16.40 Preparing to unpack .../032-libmpfr6_4.1.0-3build3_arm64.deb ... -#6 16.40 Unpacking libmpfr6:arm64 (4.1.0-3build3) ... -#6 16.43 Selecting previously unselected package libmpc3:arm64. -#6 16.43 Preparing to unpack .../033-libmpc3_1.2.1-2build1_arm64.deb ... -#6 16.46 Unpacking libmpc3:arm64 (1.2.1-2build1) ... -#6 16.50 Selecting previously unselected package cpp-11. -#6 16.50 Preparing to unpack .../034-cpp-11_11.4.0-1ubuntu1~22.04.2_arm64.deb ... -#6 16.50 Unpacking cpp-11 (11.4.0-1ubuntu1~22.04.2) ... -#6 16.65 Selecting previously unselected package cpp. -#6 16.65 Preparing to unpack .../035-cpp_4%3a11.2.0-1ubuntu1_arm64.deb ... -#6 16.66 Unpacking cpp (4:11.2.0-1ubuntu1) ... -#6 16.69 Selecting previously unselected package libcc1-0:arm64. -#6 16.69 Preparing to unpack .../036-libcc1-0_12.3.0-1ubuntu1~22.04.2_arm64.deb ... -#6 16.70 Unpacking libcc1-0:arm64 (12.3.0-1ubuntu1~22.04.2) ... -#6 16.73 Selecting previously unselected package libgomp1:arm64. -#6 16.73 Preparing to unpack .../037-libgomp1_12.3.0-1ubuntu1~22.04.2_arm64.deb ... -#6 16.73 Unpacking libgomp1:arm64 (12.3.0-1ubuntu1~22.04.2) ... -#6 16.81 Selecting previously unselected package libitm1:arm64. -#6 16.81 Preparing to unpack .../038-libitm1_12.3.0-1ubuntu1~22.04.2_arm64.deb ... -#6 16.81 Unpacking libitm1:arm64 (12.3.0-1ubuntu1~22.04.2) ... -#6 16.88 Selecting previously unselected package libatomic1:arm64. -#6 16.88 Preparing to unpack .../039-libatomic1_12.3.0-1ubuntu1~22.04.2_arm64.deb ... -#6 16.88 Unpacking libatomic1:arm64 (12.3.0-1ubuntu1~22.04.2) ... -#6 16.91 Selecting previously unselected package libasan6:arm64. -#6 16.91 Preparing to unpack .../040-libasan6_11.4.0-1ubuntu1~22.04.2_arm64.deb ... -#6 16.92 Unpacking libasan6:arm64 (11.4.0-1ubuntu1~22.04.2) ... -#6 17.00 Selecting previously unselected package liblsan0:arm64. -#6 17.00 Preparing to unpack .../041-liblsan0_12.3.0-1ubuntu1~22.04.2_arm64.deb ... -#6 17.00 Unpacking liblsan0:arm64 (12.3.0-1ubuntu1~22.04.2) ... -#6 17.04 Selecting previously unselected package libtsan0:arm64. -#6 17.05 Preparing to unpack .../042-libtsan0_11.4.0-1ubuntu1~22.04.2_arm64.deb ... -#6 17.05 Unpacking libtsan0:arm64 (11.4.0-1ubuntu1~22.04.2) ... -#6 17.11 Selecting previously unselected package libubsan1:arm64. -#6 17.12 Preparing to unpack .../043-libubsan1_12.3.0-1ubuntu1~22.04.2_arm64.deb ... -#6 17.12 Unpacking libubsan1:arm64 (12.3.0-1ubuntu1~22.04.2) ... -#6 17.18 Selecting previously unselected package libhwasan0:arm64. -#6 17.18 Preparing to unpack .../044-libhwasan0_12.3.0-1ubuntu1~22.04.2_arm64.deb ... -#6 17.20 Unpacking libhwasan0:arm64 (12.3.0-1ubuntu1~22.04.2) ... -#6 17.25 Selecting previously unselected package libgcc-11-dev:arm64. -#6 17.25 Preparing to unpack .../045-libgcc-11-dev_11.4.0-1ubuntu1~22.04.2_arm64.deb ... -#6 17.25 Unpacking libgcc-11-dev:arm64 (11.4.0-1ubuntu1~22.04.2) ... -#6 17.33 Selecting previously unselected package gcc-11. -#6 17.33 Preparing to unpack .../046-gcc-11_11.4.0-1ubuntu1~22.04.2_arm64.deb ... -#6 17.33 Unpacking gcc-11 (11.4.0-1ubuntu1~22.04.2) ... -#6 17.58 Selecting previously unselected package gcc. -#6 17.58 Preparing to unpack .../047-gcc_4%3a11.2.0-1ubuntu1_arm64.deb ... -#6 17.59 Unpacking gcc (4:11.2.0-1ubuntu1) ... -#6 17.67 Selecting previously unselected package libstdc++-11-dev:arm64. -#6 17.67 Preparing to unpack .../048-libstdc++-11-dev_11.4.0-1ubuntu1~22.04.2_arm64.deb ... -#6 17.68 Unpacking libstdc++-11-dev:arm64 (11.4.0-1ubuntu1~22.04.2) ... -#6 17.80 Selecting previously unselected package g++-11. -#6 17.80 Preparing to unpack .../049-g++-11_11.4.0-1ubuntu1~22.04.2_arm64.deb ... -#6 17.81 Unpacking g++-11 (11.4.0-1ubuntu1~22.04.2) ... -#6 18.02 Selecting previously unselected package g++. -#6 18.02 Preparing to unpack .../050-g++_4%3a11.2.0-1ubuntu1_arm64.deb ... -#6 18.06 Unpacking g++ (4:11.2.0-1ubuntu1) ... -#6 18.15 Selecting previously unselected package make. -#6 18.15 Preparing to unpack .../051-make_4.3-4.1build1_arm64.deb ... -#6 18.15 Unpacking make (4.3-4.1build1) ... -#6 18.24 Selecting previously unselected package libdpkg-perl. -#6 18.24 Preparing to unpack .../052-libdpkg-perl_1.21.1ubuntu2.6_all.deb ... -#6 18.25 Unpacking libdpkg-perl (1.21.1ubuntu2.6) ... -#6 18.28 Selecting previously unselected package patch. -#6 18.28 Preparing to unpack .../053-patch_2.7.6-7build2_arm64.deb ... -#6 18.28 Unpacking patch (2.7.6-7build2) ... -#6 18.30 Selecting previously unselected package lto-disabled-list. -#6 18.30 Preparing to unpack .../054-lto-disabled-list_24_all.deb ... -#6 18.31 Unpacking lto-disabled-list (24) ... -#6 18.33 Selecting previously unselected package dpkg-dev. -#6 18.33 Preparing to unpack .../055-dpkg-dev_1.21.1ubuntu2.6_all.deb ... -#6 18.33 Unpacking dpkg-dev (1.21.1ubuntu2.6) ... -#6 18.35 Selecting previously unselected package build-essential. -#6 18.35 Preparing to unpack .../056-build-essential_12.9ubuntu3_arm64.deb ... -#6 18.35 Unpacking build-essential (12.9ubuntu3) ... -#6 18.38 Selecting previously unselected package libbrotli1:arm64. -#6 18.38 Preparing to unpack .../057-libbrotli1_1.0.9-2build6_arm64.deb ... -#6 18.38 Unpacking libbrotli1:arm64 (1.0.9-2build6) ... -#6 18.41 Selecting previously unselected package libsasl2-modules-db:arm64. -#6 18.41 Preparing to unpack .../058-libsasl2-modules-db_2.1.27+dfsg2-3ubuntu1.2_arm64.deb ... -#6 18.41 Unpacking libsasl2-modules-db:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... -#6 18.49 Selecting previously unselected package libsasl2-2:arm64. -#6 18.49 Preparing to unpack .../059-libsasl2-2_2.1.27+dfsg2-3ubuntu1.2_arm64.deb ... -#6 18.49 Unpacking libsasl2-2:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... -#6 18.59 Selecting previously unselected package libldap-2.5-0:arm64. -#6 18.59 Preparing to unpack .../060-libldap-2.5-0_2.5.19+dfsg-0ubuntu0.22.04.1_arm64.deb ... -#6 18.59 Unpacking libldap-2.5-0:arm64 (2.5.19+dfsg-0ubuntu0.22.04.1) ... -#6 18.70 Selecting previously unselected package librtmp1:arm64. -#6 18.70 Preparing to unpack .../061-librtmp1_2.4+20151223.gitfa8646d.1-2build4_arm64.deb ... -#6 18.71 Unpacking librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2build4) ... -#6 18.75 Selecting previously unselected package libssh-4:arm64. -#6 18.75 Preparing to unpack .../062-libssh-4_0.9.6-2ubuntu0.22.04.5_arm64.deb ... -#6 18.75 Unpacking libssh-4:arm64 (0.9.6-2ubuntu0.22.04.5) ... -#6 18.84 Selecting previously unselected package libcurl4:arm64. -#6 18.84 Preparing to unpack .../063-libcurl4_7.81.0-1ubuntu1.21_arm64.deb ... -#6 18.85 Unpacking libcurl4:arm64 (7.81.0-1ubuntu1.21) ... -#6 18.94 Selecting previously unselected package curl. -#6 18.94 Preparing to unpack .../064-curl_7.81.0-1ubuntu1.21_arm64.deb ... -#6 18.95 Unpacking curl (7.81.0-1ubuntu1.21) ... -#6 19.04 Selecting previously unselected package libassuan0:arm64. -#6 19.04 Preparing to unpack .../065-libassuan0_2.5.5-1build1_arm64.deb ... -#6 19.04 Unpacking libassuan0:arm64 (2.5.5-1build1) ... -#6 19.13 Selecting previously unselected package gpgconf. -#6 19.14 Preparing to unpack .../066-gpgconf_2.2.27-3ubuntu2.4_arm64.deb ... -#6 19.14 Unpacking gpgconf (2.2.27-3ubuntu2.4) ... -#6 19.18 Selecting previously unselected package libksba8:arm64. -#6 19.18 Preparing to unpack .../067-libksba8_1.6.0-2ubuntu0.2_arm64.deb ... -#6 19.18 Unpacking libksba8:arm64 (1.6.0-2ubuntu0.2) ... -#6 19.26 Selecting previously unselected package libnpth0:arm64. -#6 19.26 Preparing to unpack .../068-libnpth0_1.6-3build2_arm64.deb ... -#6 19.27 Unpacking libnpth0:arm64 (1.6-3build2) ... -#6 19.30 Selecting previously unselected package dirmngr. -#6 19.30 Preparing to unpack .../069-dirmngr_2.2.27-3ubuntu2.4_arm64.deb ... -#6 19.31 Unpacking dirmngr (2.2.27-3ubuntu2.4) ... -#6 19.40 Selecting previously unselected package libfakeroot:arm64. -#6 19.41 Preparing to unpack .../070-libfakeroot_1.28-1ubuntu1_arm64.deb ... -#6 19.41 Unpacking libfakeroot:arm64 (1.28-1ubuntu1) ... -#6 19.44 Selecting previously unselected package fakeroot. -#6 19.44 Preparing to unpack .../071-fakeroot_1.28-1ubuntu1_arm64.deb ... -#6 19.44 Unpacking fakeroot (1.28-1ubuntu1) ... -#6 19.46 Selecting previously unselected package fontconfig-config. -#6 19.46 Preparing to unpack .../072-fontconfig-config_2.13.1-4.2ubuntu5_all.deb ... -#6 19.46 Unpacking fontconfig-config (2.13.1-4.2ubuntu5) ... -#6 19.48 Selecting previously unselected package gnupg-l10n. -#6 19.49 Preparing to unpack .../073-gnupg-l10n_2.2.27-3ubuntu2.4_all.deb ... -#6 19.49 Unpacking gnupg-l10n (2.2.27-3ubuntu2.4) ... -#6 19.51 Selecting previously unselected package gnupg-utils. -#6 19.51 Preparing to unpack .../074-gnupg-utils_2.2.27-3ubuntu2.4_arm64.deb ... -#6 19.51 Unpacking gnupg-utils (2.2.27-3ubuntu2.4) ... -#6 19.54 Selecting previously unselected package gpg. -#6 19.54 Preparing to unpack .../075-gpg_2.2.27-3ubuntu2.4_arm64.deb ... -#6 19.54 Unpacking gpg (2.2.27-3ubuntu2.4) ... -#6 19.62 Selecting previously unselected package pinentry-curses. -#6 19.62 Preparing to unpack .../076-pinentry-curses_1.1.1-1build2_arm64.deb ... -#6 19.63 Unpacking pinentry-curses (1.1.1-1build2) ... -#6 19.66 Selecting previously unselected package gpg-agent. -#6 19.66 Preparing to unpack .../077-gpg-agent_2.2.27-3ubuntu2.4_arm64.deb ... -#6 19.67 Unpacking gpg-agent (2.2.27-3ubuntu2.4) ... -#6 19.74 Selecting previously unselected package gpg-wks-client. -#6 19.74 Preparing to unpack .../078-gpg-wks-client_2.2.27-3ubuntu2.4_arm64.deb ... -#6 19.75 Unpacking gpg-wks-client (2.2.27-3ubuntu2.4) ... -#6 19.80 Selecting previously unselected package gpg-wks-server. -#6 19.80 Preparing to unpack .../079-gpg-wks-server_2.2.27-3ubuntu2.4_arm64.deb ... -#6 19.82 Unpacking gpg-wks-server (2.2.27-3ubuntu2.4) ... -#6 19.85 Selecting previously unselected package gpgsm. -#6 19.85 Preparing to unpack .../080-gpgsm_2.2.27-3ubuntu2.4_arm64.deb ... -#6 19.85 Unpacking gpgsm (2.2.27-3ubuntu2.4) ... -#6 19.88 Selecting previously unselected package gnupg. -#6 19.88 Preparing to unpack .../081-gnupg_2.2.27-3ubuntu2.4_all.deb ... -#6 19.89 Unpacking gnupg (2.2.27-3ubuntu2.4) ... -#6 19.91 Selecting previously unselected package libalgorithm-diff-perl. -#6 19.91 Preparing to unpack .../082-libalgorithm-diff-perl_1.201-1_all.deb ... -#6 19.92 Unpacking libalgorithm-diff-perl (1.201-1) ... -#6 19.94 Selecting previously unselected package libalgorithm-diff-xs-perl. -#6 19.94 Preparing to unpack .../083-libalgorithm-diff-xs-perl_0.04-6build3_arm64.deb ... -#6 19.94 Unpacking libalgorithm-diff-xs-perl (0.04-6build3) ... -#6 19.97 Selecting previously unselected package libalgorithm-merge-perl. -#6 19.97 Preparing to unpack .../084-libalgorithm-merge-perl_0.08-3_all.deb ... -#6 19.98 Unpacking libalgorithm-merge-perl (0.08-3) ... -#6 20.00 Selecting previously unselected package libfreetype6:arm64. -#6 20.00 Preparing to unpack .../085-libfreetype6_2.11.1+dfsg-1ubuntu0.3_arm64.deb ... -#6 20.01 Unpacking libfreetype6:arm64 (2.11.1+dfsg-1ubuntu0.3) ... -#6 20.09 Selecting previously unselected package libfontconfig1:arm64. -#6 20.09 Preparing to unpack .../086-libfontconfig1_2.13.1-4.2ubuntu5_arm64.deb ... -#6 20.09 Unpacking libfontconfig1:arm64 (2.13.1-4.2ubuntu5) ... -#6 20.18 Selecting previously unselected package libjpeg-turbo8:arm64. -#6 20.18 Preparing to unpack .../087-libjpeg-turbo8_2.1.2-0ubuntu1_arm64.deb ... -#6 20.18 Unpacking libjpeg-turbo8:arm64 (2.1.2-0ubuntu1) ... -#6 20.22 Selecting previously unselected package libjpeg8:arm64. -#6 20.22 Preparing to unpack .../088-libjpeg8_8c-2ubuntu10_arm64.deb ... -#6 20.23 Unpacking libjpeg8:arm64 (8c-2ubuntu10) ... -#6 20.26 Selecting previously unselected package libdeflate0:arm64. -#6 20.26 Preparing to unpack .../089-libdeflate0_1.10-2_arm64.deb ... -#6 20.27 Unpacking libdeflate0:arm64 (1.10-2) ... -#6 20.36 Selecting previously unselected package libjbig0:arm64. -#6 20.37 Preparing to unpack .../090-libjbig0_2.1-3.1ubuntu0.22.04.1_arm64.deb ... -#6 20.37 Unpacking libjbig0:arm64 (2.1-3.1ubuntu0.22.04.1) ... -#6 20.47 Selecting previously unselected package libwebp7:arm64. -#6 20.47 Preparing to unpack .../091-libwebp7_1.2.2-2ubuntu0.22.04.2_arm64.deb ... -#6 20.48 Unpacking libwebp7:arm64 (1.2.2-2ubuntu0.22.04.2) ... -#6 20.58 Selecting previously unselected package libtiff5:arm64. -#6 20.58 Preparing to unpack .../092-libtiff5_4.3.0-6ubuntu0.12_arm64.deb ... -#6 20.59 Unpacking libtiff5:arm64 (4.3.0-6ubuntu0.12) ... -#6 20.63 Selecting previously unselected package libxpm4:arm64. -#6 20.63 Preparing to unpack .../093-libxpm4_1%3a3.5.12-1ubuntu0.22.04.2_arm64.deb ... -#6 20.63 Unpacking libxpm4:arm64 (1:3.5.12-1ubuntu0.22.04.2) ... -#6 20.67 Selecting previously unselected package libgd3:arm64. -#6 20.67 Preparing to unpack .../094-libgd3_2.3.0-2ubuntu2.3_arm64.deb ... -#6 20.67 Unpacking libgd3:arm64 (2.3.0-2ubuntu2.3) ... -#6 20.69 Selecting previously unselected package libc-devtools. -#6 20.69 Preparing to unpack .../095-libc-devtools_2.35-0ubuntu3.11_arm64.deb ... -#6 20.70 Unpacking libc-devtools (2.35-0ubuntu3.11) ... -#6 20.72 Selecting previously unselected package libfile-fcntllock-perl. -#6 20.72 Preparing to unpack .../096-libfile-fcntllock-perl_0.22-3build7_arm64.deb ... -#6 20.72 Unpacking libfile-fcntllock-perl (0.22-3build7) ... -#6 20.80 Selecting previously unselected package libldap-common. -#6 20.80 Preparing to unpack .../097-libldap-common_2.5.19+dfsg-0ubuntu0.22.04.1_all.deb ... -#6 20.80 Unpacking libldap-common (2.5.19+dfsg-0ubuntu0.22.04.1) ... -#6 20.89 Selecting previously unselected package libsasl2-modules:arm64. -#6 20.89 Preparing to unpack .../098-libsasl2-modules_2.1.27+dfsg2-3ubuntu1.2_arm64.deb ... -#6 20.90 Unpacking libsasl2-modules:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... -#6 20.98 Selecting previously unselected package manpages-dev. -#6 20.98 Preparing to unpack .../099-manpages-dev_5.10-1ubuntu1_all.deb ... -#6 20.99 Unpacking manpages-dev (5.10-1ubuntu1) ... -#6 21.25 Selecting previously unselected package unzip. -#6 21.25 Preparing to unpack .../100-unzip_6.0-26ubuntu3.2_arm64.deb ... -#6 21.25 Unpacking unzip (6.0-26ubuntu3.2) ... -#6 21.34 Selecting previously unselected package zlib1g-dev:arm64. -#6 21.34 Preparing to unpack .../101-zlib1g-dev_1%3a1.2.11.dfsg-2ubuntu9.2_arm64.deb ... -#6 21.34 Unpacking zlib1g-dev:arm64 (1:1.2.11.dfsg-2ubuntu9.2) ... -#6 21.38 Setting up libksba8:arm64 (1.6.0-2ubuntu0.2) ... -#6 21.40 Setting up libexpat1:arm64 (2.4.7-1ubuntu0.6) ... -#6 21.41 Setting up gcc-11-base:arm64 (11.4.0-1ubuntu1~22.04.2) ... -#6 21.46 Setting up libxau6:arm64 (1:1.0.9-1build5) ... -#6 21.48 Setting up lto-disabled-list (24) ... -#6 21.49 Setting up manpages (5.10-1ubuntu1) ... -#6 21.50 Setting up unzip (6.0-26ubuntu3.2) ... -#6 21.51 Setting up libbrotli1:arm64 (1.0.9-2build6) ... -#6 21.52 Setting up libsqlite3-0:arm64 (3.37.2-2ubuntu0.5) ... -#6 21.53 Setting up libsasl2-modules:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... -#6 21.54 Setting up binutils-common:arm64 (2.38-4ubuntu2.10) ... -#6 21.55 Setting up libnghttp2-14:arm64 (1.43.0-1ubuntu0.2) ... -#6 21.57 Setting up libdeflate0:arm64 (1.10-2) ... -#6 21.58 Setting up linux-libc-dev:arm64 (5.15.0-161.171) ... -#6 21.60 Setting up libctf-nobfd0:arm64 (2.38-4ubuntu2.10) ... -#6 21.61 Setting up libnpth0:arm64 (1.6-3build2) ... -#6 21.62 Setting up libassuan0:arm64 (2.5.5-1build1) ... -#6 21.63 Setting up libgomp1:arm64 (12.3.0-1ubuntu1~22.04.2) ... -#6 21.67 Setting up perl-modules-5.34 (5.34.0-3ubuntu1.5) ... -#6 21.70 Setting up libldap-common (2.5.19+dfsg-0ubuntu0.22.04.1) ... -#6 21.71 Setting up libjbig0:arm64 (2.1-3.1ubuntu0.22.04.1) ... -#6 21.78 Setting up libfakeroot:arm64 (1.28-1ubuntu1) ... -#6 21.80 Setting up libasan6:arm64 (11.4.0-1ubuntu1~22.04.2) ... -#6 21.81 Setting up libsasl2-modules-db:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... -#6 21.82 Setting up fakeroot (1.28-1ubuntu1) ... -#6 21.83 update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode -#6 21.83 update-alternatives: warning: skip creation of /usr/share/man/man1/fakeroot.1.gz because associated file /usr/share/man/man1/fakeroot-sysv.1.gz (of link group fakeroot) doesn't exist -#6 21.83 update-alternatives: warning: skip creation of /usr/share/man/man1/faked.1.gz because associated file /usr/share/man/man1/faked-sysv.1.gz (of link group fakeroot) doesn't exist -#6 21.83 update-alternatives: warning: skip creation of /usr/share/man/es/man1/fakeroot.1.gz because associated file /usr/share/man/es/man1/fakeroot-sysv.1.gz (of link group fakeroot) doesn't exist -#6 21.83 update-alternatives: warning: skip creation of /usr/share/man/es/man1/faked.1.gz because associated file /usr/share/man/es/man1/faked-sysv.1.gz (of link group fakeroot) doesn't exist -#6 21.83 update-alternatives: warning: skip creation of /usr/share/man/fr/man1/fakeroot.1.gz because associated file /usr/share/man/fr/man1/fakeroot-sysv.1.gz (of link group fakeroot) doesn't exist -#6 21.83 update-alternatives: warning: skip creation of /usr/share/man/fr/man1/faked.1.gz because associated file /usr/share/man/fr/man1/faked-sysv.1.gz (of link group fakeroot) doesn't exist -#6 21.83 update-alternatives: warning: skip creation of /usr/share/man/sv/man1/fakeroot.1.gz because associated file /usr/share/man/sv/man1/fakeroot-sysv.1.gz (of link group fakeroot) doesn't exist -#6 21.83 update-alternatives: warning: skip creation of /usr/share/man/sv/man1/faked.1.gz because associated file /usr/share/man/sv/man1/faked-sysv.1.gz (of link group fakeroot) doesn't exist -#6 21.89 Setting up libtirpc-dev:arm64 (1.3.2-2ubuntu0.1) ... -#6 21.90 Setting up rpcsvc-proto (1.4.2-0ubuntu6) ... -#6 21.92 Setting up libx11-data (2:1.7.5-1ubuntu0.3) ... -#6 21.94 Setting up make (4.3-4.1build1) ... -#6 21.95 Setting up libmpfr6:arm64 (4.1.0-3build3) ... -#6 21.98 Setting up gnupg-l10n (2.2.27-3ubuntu2.4) ... -#6 21.99 Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2build4) ... -#6 22.01 Setting up xz-utils (5.2.5-2ubuntu1) ... -#6 22.02 update-alternatives: using /usr/bin/xz to provide /usr/bin/lzma (lzma) in auto mode -#6 22.02 update-alternatives: warning: skip creation of /usr/share/man/man1/lzma.1.gz because associated file /usr/share/man/man1/xz.1.gz (of link group lzma) doesn't exist -#6 22.02 update-alternatives: warning: skip creation of /usr/share/man/man1/unlzma.1.gz because associated file /usr/share/man/man1/unxz.1.gz (of link group lzma) doesn't exist -#6 22.02 update-alternatives: warning: skip creation of /usr/share/man/man1/lzcat.1.gz because associated file /usr/share/man/man1/xzcat.1.gz (of link group lzma) doesn't exist -#6 22.02 update-alternatives: warning: skip creation of /usr/share/man/man1/lzmore.1.gz because associated file /usr/share/man/man1/xzmore.1.gz (of link group lzma) doesn't exist -#6 22.02 update-alternatives: warning: skip creation of /usr/share/man/man1/lzless.1.gz because associated file /usr/share/man/man1/xzless.1.gz (of link group lzma) doesn't exist -#6 22.02 update-alternatives: warning: skip creation of /usr/share/man/man1/lzdiff.1.gz because associated file /usr/share/man/man1/xzdiff.1.gz (of link group lzma) doesn't exist -#6 22.02 update-alternatives: warning: skip creation of /usr/share/man/man1/lzcmp.1.gz because associated file /usr/share/man/man1/xzcmp.1.gz (of link group lzma) doesn't exist -#6 22.02 update-alternatives: warning: skip creation of /usr/share/man/man1/lzgrep.1.gz because associated file /usr/share/man/man1/xzgrep.1.gz (of link group lzma) doesn't exist -#6 22.02 update-alternatives: warning: skip creation of /usr/share/man/man1/lzegrep.1.gz because associated file /usr/share/man/man1/xzegrep.1.gz (of link group lzma) doesn't exist -#6 22.02 update-alternatives: warning: skip creation of /usr/share/man/man1/lzfgrep.1.gz because associated file /usr/share/man/man1/xzfgrep.1.gz (of link group lzma) doesn't exist -#6 22.03 Setting up libpng16-16:arm64 (1.6.37-3build5) ... -#6 22.04 Setting up libmpc3:arm64 (1.2.1-2build1) ... -#6 22.05 Setting up libatomic1:arm64 (12.3.0-1ubuntu1~22.04.2) ... -#6 22.06 Setting up patch (2.7.6-7build2) ... -#6 22.12 Setting up ucf (3.0043) ... -#6 22.18 Setting up libjpeg-turbo8:arm64 (2.1.2-0ubuntu1) ... -#6 22.20 Setting up libsasl2-2:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... -#6 22.24 Setting up libssh-4:arm64 (0.9.6-2ubuntu0.22.04.5) ... -#6 22.27 Setting up libwebp7:arm64 (1.2.2-2ubuntu0.22.04.2) ... -#6 22.27 Setting up libubsan1:arm64 (12.3.0-1ubuntu1~22.04.2) ... -#6 22.28 Setting up libmd0:arm64 (1.0.4-1build1) ... -#6 22.30 Setting up libnsl-dev:arm64 (1.3.0-2build2) ... -#6 22.31 Setting up libhwasan0:arm64 (12.3.0-1ubuntu1~22.04.2) ... -#6 22.32 Setting up libcrypt-dev:arm64 (1:4.4.27-1) ... -#6 22.33 Setting up netbase (6.3) ... -#6 22.35 Setting up libbinutils:arm64 (2.38-4ubuntu2.10) ... -#6 22.36 Setting up libisl23:arm64 (0.24-2build1) ... -#6 22.36 Setting up libc-dev-bin (2.35-0ubuntu3.11) ... -#6 22.37 Setting up libbsd0:arm64 (0.11.5-1) ... -#6 22.38 Setting up readline-common (8.1.2-1) ... -#6 22.39 Setting up libcc1-0:arm64 (12.3.0-1ubuntu1~22.04.2) ... -#6 22.39 Setting up liblocale-gettext-perl (1.07-4build3) ... -#6 22.40 Setting up liblsan0:arm64 (12.3.0-1ubuntu1~22.04.2) ... -#6 22.41 Setting up libitm1:arm64 (12.3.0-1ubuntu1~22.04.2) ... -#6 22.41 Setting up libgdbm6:arm64 (1.23-1) ... -#6 22.42 Setting up libtsan0:arm64 (11.4.0-1ubuntu1~22.04.2) ... -#6 22.47 Setting up libctf0:arm64 (2.38-4ubuntu2.10) ... -#6 22.49 Setting up libjpeg8:arm64 (8c-2ubuntu10) ... -#6 22.50 Setting up pinentry-curses (1.1.1-1build2) ... -#6 22.53 Setting up cpp-11 (11.4.0-1ubuntu1~22.04.2) ... -#6 22.57 Setting up manpages-dev (5.10-1ubuntu1) ... -#6 22.58 Setting up libxdmcp6:arm64 (1:1.1.3-0ubuntu5) ... -#6 22.59 Setting up libxcb1:arm64 (1.14-3ubuntu3) ... -#6 22.60 Setting up fontconfig-config (2.13.1-4.2ubuntu5) ... -#6 22.76 Setting up libreadline8:arm64 (8.1.2-1) ... -#6 22.78 Setting up binutils-aarch64-linux-gnu (2.38-4ubuntu2.10) ... -#6 22.78 Setting up binutils (2.38-4ubuntu2.10) ... -#6 22.79 Setting up libldap-2.5-0:arm64 (2.5.19+dfsg-0ubuntu0.22.04.1) ... -#6 22.80 Setting up libfreetype6:arm64 (2.11.1+dfsg-1ubuntu0.3) ... -#6 22.80 Setting up libgdbm-compat4:arm64 (1.23-1) ... -#6 22.81 Setting up libgcc-11-dev:arm64 (11.4.0-1ubuntu1~22.04.2) ... -#6 22.82 Setting up gcc-11 (11.4.0-1ubuntu1~22.04.2) ... -#6 22.82 Setting up cpp (4:11.2.0-1ubuntu1) ... -#6 22.83 Setting up gpgconf (2.2.27-3ubuntu2.4) ... -#6 22.84 Setting up libcurl4:arm64 (7.81.0-1ubuntu1.21) ... -#6 22.85 Setting up libc6-dev:arm64 (2.35-0ubuntu3.11) ... -#6 22.85 Setting up libx11-6:arm64 (2:1.7.5-1ubuntu0.3) ... -#6 22.86 Setting up libtiff5:arm64 (4.3.0-6ubuntu0.12) ... -#6 22.88 Setting up curl (7.81.0-1ubuntu1.21) ... -#6 22.92 Setting up libfontconfig1:arm64 (2.13.1-4.2ubuntu5) ... -#6 22.93 Setting up gpg (2.2.27-3ubuntu2.4) ... -#6 22.94 Setting up gnupg-utils (2.2.27-3ubuntu2.4) ... -#6 22.95 Setting up libperl5.34:arm64 (5.34.0-3ubuntu1.5) ... -#6 22.97 Setting up gpg-agent (2.2.27-3ubuntu2.4) ... -#6 23.28 Setting up libxpm4:arm64 (1:3.5.12-1ubuntu0.22.04.2) ... -#6 23.31 Setting up gpgsm (2.2.27-3ubuntu2.4) ... -#6 23.32 Setting up gcc (4:11.2.0-1ubuntu1) ... -#6 23.33 Setting up dirmngr (2.2.27-3ubuntu2.4) ... -#6 23.42 Setting up perl (5.34.0-3ubuntu1.5) ... -#6 23.45 Setting up libgd3:arm64 (2.3.0-2ubuntu2.3) ... -#6 23.49 Setting up libdpkg-perl (1.21.1ubuntu2.6) ... -#6 23.50 Setting up libstdc++-11-dev:arm64 (11.4.0-1ubuntu1~22.04.2) ... -#6 23.51 Setting up gpg-wks-server (2.2.27-3ubuntu2.4) ... -#6 23.51 Setting up zlib1g-dev:arm64 (1:1.2.11.dfsg-2ubuntu9.2) ... -#6 23.52 Setting up libc-devtools (2.35-0ubuntu3.11) ... -#6 23.53 Setting up gpg-wks-client (2.2.27-3ubuntu2.4) ... -#6 23.54 Setting up g++-11 (11.4.0-1ubuntu1~22.04.2) ... -#6 23.55 Setting up libfile-fcntllock-perl (0.22-3build7) ... -#6 23.55 Setting up libalgorithm-diff-perl (1.201-1) ... -#6 23.56 Setting up dpkg-dev (1.21.1ubuntu2.6) ... -#6 23.57 Setting up g++ (4:11.2.0-1ubuntu1) ... -#6 23.58 update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode -#6 23.58 update-alternatives: warning: skip creation of /usr/share/man/man1/c++.1.gz because associated file /usr/share/man/man1/g++.1.gz (of link group c++) doesn't exist -#6 23.59 Setting up gnupg (2.2.27-3ubuntu2.4) ... -#6 23.59 Setting up build-essential (12.9ubuntu3) ... -#6 23.61 Setting up libalgorithm-diff-xs-perl (0.04-6build3) ... -#6 23.61 Setting up libalgorithm-merge-perl (0.08-3) ... -#6 23.62 Processing triggers for libc-bin (2.35-0ubuntu3.4) ... -#6 DONE 24.3s +#6 0.363 Get:1 http://ports.ubuntu.com/ubuntu-ports jammy InRelease [270 kB] +#6 0.530 Get:2 http://ports.ubuntu.com/ubuntu-ports jammy-updates InRelease [128 kB] +#6 0.564 Get:3 http://ports.ubuntu.com/ubuntu-ports jammy-backports InRelease [127 kB] +#6 0.593 Get:4 http://ports.ubuntu.com/ubuntu-ports jammy-security InRelease [129 kB] +#6 0.623 Get:5 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 Packages [1,758 kB] +#6 0.748 Get:6 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 Packages [17.2 MB] +#6 1.225 Get:7 http://ports.ubuntu.com/ubuntu-ports jammy/multiverse arm64 Packages [224 kB] +#6 1.226 Get:8 http://ports.ubuntu.com/ubuntu-ports jammy/restricted arm64 Packages [24.2 kB] +#6 1.226 Get:9 http://ports.ubuntu.com/ubuntu-ports jammy-updates/restricted arm64 Packages [5,751 kB] +#6 1.315 Get:10 http://ports.ubuntu.com/ubuntu-ports jammy-updates/universe arm64 Packages [1,618 kB] +#6 1.337 Get:11 http://ports.ubuntu.com/ubuntu-ports jammy-updates/multiverse arm64 Packages [46.0 kB] +#6 1.382 Get:12 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 Packages [3,594 kB] +#6 1.645 Get:13 http://ports.ubuntu.com/ubuntu-ports jammy-backports/universe arm64 Packages [33.3 kB] +#6 1.646 Get:14 http://ports.ubuntu.com/ubuntu-ports jammy-backports/main arm64 Packages [83.5 kB] +#6 1.668 Get:15 http://ports.ubuntu.com/ubuntu-ports jammy-security/restricted arm64 Packages [5,552 kB] +#6 1.853 Get:16 http://ports.ubuntu.com/ubuntu-ports jammy-security/main arm64 Packages [3,258 kB] +#6 1.948 Get:17 http://ports.ubuntu.com/ubuntu-ports jammy-security/multiverse arm64 Packages [39.5 kB] +#6 1.949 Get:18 http://ports.ubuntu.com/ubuntu-ports jammy-security/universe arm64 Packages [1,317 kB] +#6 2.236 Fetched 41.2 MB in 2s (20.8 MB/s) +#6 2.236 Reading package lists... +#6 2.843 Reading package lists... +#6 3.411 Building dependency tree... +#6 3.575 Reading state information... +#6 3.780 The following additional packages will be installed: +#6 3.780 binutils binutils-aarch64-linux-gnu binutils-common cpp cpp-11 dirmngr +#6 3.780 dpkg-dev fakeroot fontconfig-config g++ g++-11 gcc gcc-11 gcc-11-base +#6 3.780 gcc-12-base gnupg gnupg-l10n gnupg-utils gpg gpg-agent gpg-wks-client +#6 3.780 gpg-wks-server gpgconf gpgsm gpgv libalgorithm-diff-perl +#6 3.780 libalgorithm-diff-xs-perl libalgorithm-merge-perl libasan6 libassuan0 +#6 3.780 libatomic1 libbinutils libbrotli1 libbsd0 libc-dev-bin libc-devtools libc6 +#6 3.780 libc6-dev libcc1-0 libcrypt-dev libctf-nobfd0 libctf0 libcurl4 libdeflate0 +#6 3.780 libdpkg-perl libexpat1 libfakeroot libfile-fcntllock-perl libfontconfig1 +#6 3.780 libfreetype6 libgcc-11-dev libgcc-s1 libgd3 libgdbm-compat4 libgdbm6 +#6 3.780 libgomp1 libhwasan0 libisl23 libitm1 libjbig0 libjpeg-turbo8 libjpeg8 +#6 3.780 libksba8 libldap-2.5-0 libldap-common liblocale-gettext-perl liblsan0 libmd0 +#6 3.780 libmpc3 libmpfr6 libnghttp2-14 libnpth0 libnsl-dev libperl5.34 libpng16-16 +#6 3.780 libreadline8 librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db +#6 3.780 libsqlite3-0 libssh-4 libstdc++-11-dev libstdc++6 libtiff5 libtirpc-dev +#6 3.780 libtsan0 libubsan1 libwebp7 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 +#6 3.781 libxpm4 linux-libc-dev lto-disabled-list make manpages manpages-dev netbase +#6 3.781 patch perl perl-base perl-modules-5.34 pinentry-curses readline-common +#6 3.781 rpcsvc-proto ucf xz-utils +#6 3.781 Suggested packages: +#6 3.781 binutils-doc cpp-doc gcc-11-locales dbus-user-session libpam-systemd +#6 3.781 pinentry-gnome3 tor debian-keyring gcc-11-doc gcc-multilib autoconf automake +#6 3.781 libtool flex bison gdb gcc-doc parcimonie xloadimage scdaemon glibc-doc git +#6 3.781 bzr libgd-tools gdbm-l10n libsasl2-modules-gssapi-mit +#6 3.781 | libsasl2-modules-gssapi-heimdal libsasl2-modules-ldap libsasl2-modules-otp +#6 3.781 libsasl2-modules-sql libstdc++-11-doc make-doc man-browser ed diffutils-doc +#6 3.781 perl-doc libterm-readline-gnu-perl | libterm-readline-perl-perl +#6 3.781 libtap-harness-archive-perl pinentry-doc readline-doc zip +#6 3.781 Recommended packages: +#6 3.781 libnss-nis libnss-nisplus +#6 3.883 The following NEW packages will be installed: +#6 3.883 binutils binutils-aarch64-linux-gnu binutils-common build-essential cpp +#6 3.883 cpp-11 curl dirmngr dpkg-dev fakeroot fontconfig-config g++ g++-11 gcc +#6 3.883 gcc-11 gcc-11-base gnupg gnupg-l10n gnupg-utils gpg gpg-agent gpg-wks-client +#6 3.883 gpg-wks-server gpgconf gpgsm libalgorithm-diff-perl +#6 3.883 libalgorithm-diff-xs-perl libalgorithm-merge-perl libasan6 libassuan0 +#6 3.883 libatomic1 libbinutils libbrotli1 libbsd0 libc-dev-bin libc-devtools +#6 3.883 libc6-dev libcc1-0 libcrypt-dev libctf-nobfd0 libctf0 libcurl4 libdeflate0 +#6 3.883 libdpkg-perl libexpat1 libfakeroot libfile-fcntllock-perl libfontconfig1 +#6 3.883 libfreetype6 libgcc-11-dev libgd3 libgdbm-compat4 libgdbm6 libgomp1 +#6 3.883 libhwasan0 libisl23 libitm1 libjbig0 libjpeg-turbo8 libjpeg8 libksba8 +#6 3.883 libldap-2.5-0 libldap-common liblocale-gettext-perl liblsan0 libmd0 libmpc3 +#6 3.883 libmpfr6 libnghttp2-14 libnpth0 libnsl-dev libperl5.34 libpng16-16 +#6 3.883 libreadline8 librtmp1 libsasl2-2 libsasl2-modules libsasl2-modules-db +#6 3.883 libsqlite3-0 libssh-4 libstdc++-11-dev libtiff5 libtirpc-dev libtsan0 +#6 3.883 libubsan1 libwebp7 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxpm4 +#6 3.883 linux-libc-dev lto-disabled-list make manpages manpages-dev netbase patch +#6 3.884 perl perl-modules-5.34 pinentry-curses readline-common rpcsvc-proto ucf +#6 3.884 unzip xz-utils zlib1g-dev +#6 3.884 The following packages will be upgraded: +#6 3.885 gcc-12-base gpgv libc6 libgcc-s1 libstdc++6 perl-base +#6 3.940 6 upgraded, 108 newly installed, 0 to remove and 44 not upgraded. +#6 3.940 Need to get 86.4 MB of archives. +#6 3.940 After this operation, 280 MB of additional disk space will be used. +#6 3.940 Get:1 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 perl-base arm64 5.34.0-3ubuntu1.5 [1,710 kB] +#6 4.129 Get:2 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gcc-12-base arm64 12.3.0-1ubuntu1~22.04.2 [20.6 kB] +#6 4.129 Get:3 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgcc-s1 arm64 12.3.0-1ubuntu1~22.04.2 [39.7 kB] +#6 4.130 Get:4 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libstdc++6 arm64 12.3.0-1ubuntu1~22.04.2 [661 kB] +#6 4.172 Get:5 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libc6 arm64 2.35-0ubuntu3.11 [2,709 kB] +#6 4.281 Get:6 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 liblocale-gettext-perl arm64 1.07-4build3 [16.9 kB] +#6 4.281 Get:7 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 perl-modules-5.34 all 5.34.0-3ubuntu1.5 [2,977 kB] +#6 4.358 Get:8 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libgdbm6 arm64 1.23-1 [34.1 kB] +#6 4.358 Get:9 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libgdbm-compat4 arm64 1.23-1 [6,294 B] +#6 4.359 Get:10 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libperl5.34 arm64 5.34.0-3ubuntu1.5 [4,721 kB] +#6 4.485 Get:11 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 perl arm64 5.34.0-3ubuntu1.5 [232 kB] +#6 4.529 Get:12 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpgv arm64 2.2.27-3ubuntu2.4 [134 kB] +#6 4.620 Get:13 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libmd0 arm64 1.0.4-1build1 [23.8 kB] +#6 4.622 Get:14 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libbsd0 arm64 0.11.5-1 [43.7 kB] +#6 4.627 Get:15 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libexpat1 arm64 2.4.7-1ubuntu0.6 [77.8 kB] +#6 4.642 Get:16 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 readline-common all 8.1.2-1 [53.5 kB] +#6 4.648 Get:17 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libreadline8 arm64 8.1.2-1 [153 kB] +#6 4.665 Get:18 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libsqlite3-0 arm64 3.37.2-2ubuntu0.5 [636 kB] +#6 4.689 Get:19 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 netbase all 6.3 [12.9 kB] +#6 4.690 Get:20 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 ucf all 3.0043 [56.1 kB] +#6 4.692 Get:21 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libnghttp2-14 arm64 1.43.0-1ubuntu0.2 [76.0 kB] +#6 4.693 Get:22 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libpng16-16 arm64 1.6.37-3build5 [189 kB] +#6 4.748 Get:23 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxau6 arm64 1:1.0.9-1build5 [7,624 B] +#6 4.770 Get:24 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxdmcp6 arm64 1:1.1.3-0ubuntu5 [10.8 kB] +#6 4.774 Get:25 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxcb1 arm64 1.14-3ubuntu3 [49.0 kB] +#6 4.818 Get:26 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libx11-data all 2:1.7.5-1ubuntu0.3 [120 kB] +#6 4.857 Get:27 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libx11-6 arm64 2:1.7.5-1ubuntu0.3 [661 kB] +#6 4.991 Get:28 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 manpages all 5.10-1ubuntu1 [1,375 kB] +#6 5.031 Get:29 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 xz-utils arm64 5.2.5-2ubuntu1 [84.4 kB] +#6 5.032 Get:30 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 binutils-common arm64 2.38-4ubuntu2.10 [223 kB] +#6 5.038 Get:31 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libbinutils arm64 2.38-4ubuntu2.10 [824 kB] +#6 5.073 Get:32 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libctf-nobfd0 arm64 2.38-4ubuntu2.10 [109 kB] +#6 5.074 Get:33 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libctf0 arm64 2.38-4ubuntu2.10 [103 kB] +#6 5.128 Get:34 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 binutils-aarch64-linux-gnu arm64 2.38-4ubuntu2.10 [3,225 kB] +#6 5.428 Get:35 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 binutils arm64 2.38-4ubuntu2.10 [3,160 B] +#6 5.430 Get:36 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libc-dev-bin arm64 2.35-0ubuntu3.11 [19.7 kB] +#6 5.430 Get:37 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 linux-libc-dev arm64 5.15.0-161.171 [1,284 kB] +#6 5.507 Get:38 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libcrypt-dev arm64 1:4.4.27-1 [119 kB] +#6 5.511 Get:39 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 rpcsvc-proto arm64 1.4.2-0ubuntu6 [65.4 kB] +#6 5.511 Get:40 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libtirpc-dev arm64 1.3.2-2ubuntu0.1 [199 kB] +#6 5.522 Get:41 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libnsl-dev arm64 1.3.0-2build2 [72.1 kB] +#6 5.524 Get:42 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libc6-dev arm64 2.35-0ubuntu3.11 [1,548 kB] +#6 5.558 Get:43 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gcc-11-base arm64 11.4.0-1ubuntu1~22.04.2 [20.8 kB] +#6 5.558 Get:44 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libisl23 arm64 0.24-2build1 [689 kB] +#6 5.619 Get:45 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libmpfr6 arm64 4.1.0-3build3 [245 kB] +#6 5.800 Get:46 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libmpc3 arm64 1.2.1-2build1 [48.1 kB] +#6 5.807 Get:47 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 cpp-11 arm64 11.4.0-1ubuntu1~22.04.2 [9,717 kB] +#6 6.202 Get:48 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 cpp arm64 4:11.2.0-1ubuntu1 [27.7 kB] +#6 6.202 Get:49 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libcc1-0 arm64 12.3.0-1ubuntu1~22.04.2 [45.1 kB] +#6 6.202 Get:50 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgomp1 arm64 12.3.0-1ubuntu1~22.04.2 [124 kB] +#6 6.203 Get:51 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libitm1 arm64 12.3.0-1ubuntu1~22.04.2 [28.5 kB] +#6 6.203 Get:52 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libatomic1 arm64 12.3.0-1ubuntu1~22.04.2 [10.8 kB] +#6 6.203 Get:53 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libasan6 arm64 11.4.0-1ubuntu1~22.04.2 [2,236 kB] +#6 6.218 Get:54 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 liblsan0 arm64 12.3.0-1ubuntu1~22.04.2 [1,038 kB] +#6 6.225 Get:55 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libtsan0 arm64 11.4.0-1ubuntu1~22.04.2 [2,239 kB] +#6 6.330 Get:56 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libubsan1 arm64 12.3.0-1ubuntu1~22.04.2 [967 kB] +#6 6.624 Get:57 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libhwasan0 arm64 12.3.0-1ubuntu1~22.04.2 [1,120 kB] +#6 6.673 Get:58 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgcc-11-dev arm64 11.4.0-1ubuntu1~22.04.2 [1,145 kB] +#6 6.726 Get:59 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gcc-11 arm64 11.4.0-1ubuntu1~22.04.2 [19.5 MB] +#6 7.188 Get:60 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 gcc arm64 4:11.2.0-1ubuntu1 [5,128 B] +#6 7.188 Get:61 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libstdc++-11-dev arm64 11.4.0-1ubuntu1~22.04.2 [2,088 kB] +#6 7.202 Get:62 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 g++-11 arm64 11.4.0-1ubuntu1~22.04.2 [11.2 MB] +#6 7.422 Get:63 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 g++ arm64 4:11.2.0-1ubuntu1 [1,394 B] +#6 7.422 Get:64 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 make arm64 4.3-4.1build1 [177 kB] +#6 7.424 Get:65 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libdpkg-perl all 1.21.1ubuntu2.6 [237 kB] +#6 7.426 Get:66 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 patch arm64 2.7.6-7build2 [105 kB] +#6 7.472 Get:67 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 lto-disabled-list all 24 [12.5 kB] +#6 7.497 Get:68 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 dpkg-dev all 1.21.1ubuntu2.6 [922 kB] +#6 7.616 Get:69 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 build-essential arm64 12.9ubuntu3 [4,740 B] +#6 7.617 Get:70 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libbrotli1 arm64 1.0.9-2build6 [314 kB] +#6 7.625 Get:71 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libsasl2-modules-db arm64 2.1.27+dfsg2-3ubuntu1.2 [21.1 kB] +#6 7.625 Get:72 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libsasl2-2 arm64 2.1.27+dfsg2-3ubuntu1.2 [55.6 kB] +#6 7.632 Get:73 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libldap-2.5-0 arm64 2.5.19+dfsg-0ubuntu0.22.04.1 [181 kB] +#6 7.635 Get:74 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2build4 [59.2 kB] +#6 7.637 Get:75 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libssh-4 arm64 0.9.6-2ubuntu0.22.04.5 [185 kB] +#6 7.641 Get:76 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libcurl4 arm64 7.81.0-1ubuntu1.21 [284 kB] +#6 7.664 Get:77 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 curl arm64 7.81.0-1ubuntu1.21 [190 kB] +#6 7.716 Get:78 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libassuan0 arm64 2.5.5-1build1 [36.5 kB] +#6 7.769 Get:79 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpgconf arm64 2.2.27-3ubuntu2.4 [92.9 kB] +#6 7.807 Get:80 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libksba8 arm64 1.6.0-2ubuntu0.2 [117 kB] +#6 7.831 Get:81 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libnpth0 arm64 1.6-3build2 [8,156 B] +#6 7.831 Get:82 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 dirmngr arm64 2.2.27-3ubuntu2.4 [289 kB] +#6 7.859 Get:83 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libfakeroot arm64 1.28-1ubuntu1 [31.5 kB] +#6 7.861 Get:84 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 fakeroot arm64 1.28-1ubuntu1 [60.5 kB] +#6 7.864 Get:85 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 fontconfig-config all 2.13.1-4.2ubuntu5 [29.1 kB] +#6 7.865 Get:86 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gnupg-l10n all 2.2.27-3ubuntu2.4 [54.7 kB] +#6 7.867 Get:87 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gnupg-utils arm64 2.2.27-3ubuntu2.4 [304 kB] +#6 7.881 Get:88 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpg arm64 2.2.27-3ubuntu2.4 [507 kB] +#6 7.949 Get:89 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 pinentry-curses arm64 1.1.1-1build2 [33.5 kB] +#6 8.003 Get:90 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpg-agent arm64 2.2.27-3ubuntu2.4 [204 kB] +#6 8.070 Get:91 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpg-wks-client arm64 2.2.27-3ubuntu2.4 [61.4 kB] +#6 8.077 Get:92 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpg-wks-server arm64 2.2.27-3ubuntu2.4 [56.8 kB] +#6 8.084 Get:93 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpgsm arm64 2.2.27-3ubuntu2.4 [192 kB] +#6 8.100 Get:94 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gnupg all 2.2.27-3ubuntu2.4 [315 kB] +#6 8.116 Get:95 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libalgorithm-diff-perl all 1.201-1 [41.8 kB] +#6 8.117 Get:96 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libalgorithm-diff-xs-perl arm64 0.04-6build3 [11.7 kB] +#6 8.117 Get:97 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libalgorithm-merge-perl all 0.08-3 [12.0 kB] +#6 8.117 Get:98 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libfreetype6 arm64 2.11.1+dfsg-1ubuntu0.3 [382 kB] +#6 8.138 Get:99 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libfontconfig1 arm64 2.13.1-4.2ubuntu5 [135 kB] +#6 8.187 Get:100 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libjpeg-turbo8 arm64 2.1.2-0ubuntu1 [129 kB] +#6 8.284 Get:101 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libjpeg8 arm64 8c-2ubuntu10 [2,264 B] +#6 8.285 Get:102 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libdeflate0 arm64 1.10-2 [69.1 kB] +#6 8.291 Get:103 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libjbig0 arm64 2.1-3.1ubuntu0.22.04.1 [29.1 kB] +#6 8.294 Get:104 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libwebp7 arm64 1.2.2-2ubuntu0.22.04.2 [193 kB] +#6 8.322 Get:105 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libtiff5 arm64 4.3.0-6ubuntu0.12 [181 kB] +#6 8.337 Get:106 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libxpm4 arm64 1:3.5.12-1ubuntu0.22.04.2 [35.5 kB] +#6 8.339 Get:107 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgd3 arm64 2.3.0-2ubuntu2.3 [127 kB] +#6 8.344 Get:108 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libc-devtools arm64 2.35-0ubuntu3.11 [27.8 kB] +#6 8.344 Get:109 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libfile-fcntllock-perl arm64 0.22-3build7 [33.7 kB] +#6 8.345 Get:110 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libldap-common all 2.5.19+dfsg-0ubuntu0.22.04.1 [16.1 kB] +#6 8.392 Get:111 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libsasl2-modules arm64 2.1.27+dfsg2-3ubuntu1.2 [68.4 kB] +#6 8.473 Get:112 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 manpages-dev all 5.10-1ubuntu1 [2,309 kB] +#6 8.633 Get:113 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 unzip arm64 6.0-26ubuntu3.2 [171 kB] +#6 8.635 Get:114 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 zlib1g-dev arm64 1:1.2.11.dfsg-2ubuntu9.2 [163 kB] +#6 8.729 debconf: delaying package configuration, since apt-utils is not installed +#6 8.743 Fetched 86.4 MB in 5s (18.2 MB/s) +#6 8.880 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) +#6 8.883 Preparing to unpack .../perl-base_5.34.0-3ubuntu1.5_arm64.deb ... +#6 9.011 Unpacking perl-base (5.34.0-3ubuntu1.5) over (5.34.0-3ubuntu1.2) ... +#6 9.143 Setting up perl-base (5.34.0-3ubuntu1.5) ... +#6 9.225 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) +#6 9.228 Preparing to unpack .../gcc-12-base_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#6 9.241 Unpacking gcc-12-base:arm64 (12.3.0-1ubuntu1~22.04.2) over (12.3.0-1ubuntu1~22.04) ... +#6 9.327 Setting up gcc-12-base:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#6 9.422 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) +#6 9.424 Preparing to unpack .../libgcc-s1_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#6 9.466 Unpacking libgcc-s1:arm64 (12.3.0-1ubuntu1~22.04.2) over (12.3.0-1ubuntu1~22.04) ... +#6 9.608 Setting up libgcc-s1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#6 9.728 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) +#6 9.732 Preparing to unpack .../libstdc++6_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#6 9.817 Unpacking libstdc++6:arm64 (12.3.0-1ubuntu1~22.04.2) over (12.3.0-1ubuntu1~22.04) ... +#6 9.890 Setting up libstdc++6:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#6 ... -#7 [rust-builder 3/6] RUN curl https://sh.rustup.rs -sSf | bash -s -- -y -#7 0.291 info: downloading installer -#7 1.674 error: $HOME differs from euid-obtained home directory: you may be using sudo -#7 1.674 error: $HOME directory: /home/jovyan -#7 1.674 error: euid-obtained home directory: /root -#7 1.718 info: profile set to 'default' -#7 1.718 info: default host triple is aarch64-unknown-linux-gnu -#7 1.718 info: syncing channel updates for 'stable-aarch64-unknown-linux-gnu' -#7 1.990 info: latest update on 2025-10-30, rust version 1.91.0 (f8297e351 2025-10-28) -#7 1.990 info: downloading component 'cargo' -#7 2.376 info: downloading component 'clippy' -#7 2.601 info: downloading component 'rust-docs' -#7 3.273 info: downloading component 'rust-std' -#7 4.157 info: downloading component 'rustc' -#7 6.280 info: downloading component 'rustfmt' -#7 6.449 info: installing component 'cargo' -#7 7.084 info: installing component 'clippy' -#7 7.398 info: installing component 'rust-docs' -#7 9.108 info: installing component 'rust-std' -#7 10.84 info: installing component 'rustc' -#7 14.30 info: installing component 'rustfmt' -#7 14.59 info: default toolchain set to 'stable-aarch64-unknown-linux-gnu' -#7 14.59 -#7 14.59 stable-aarch64-unknown-linux-gnu installed - rustc 1.91.0 (f8297e351 2025-10-28) -#7 14.59 -#7 14.59 -#7 14.59 Rust is installed now. Great! -#7 14.59 -#7 14.59 To get started you may need to restart your current shell. -#7 14.59 This would reload your PATH environment variable to include -#7 14.59 Cargo's bin directory ($HOME/.cargo/bin). -#7 14.59 -#7 14.59 To configure your current shell, you need to source -#7 14.59 the corresponding env file under $HOME/.cargo. -#7 14.59 -#7 14.59 This is usually done by running one of the following (note the leading DOT): -#7 14.59 . "$HOME/.cargo/env" # For sh/bash/zsh/ash/dash/pdksh -#7 14.59 source "$HOME/.cargo/env.fish" # For fish -#7 14.59 source $"($nu.home-path)/.cargo/env.nu" # For nushell -#7 DONE 17.0s +#7 [stage-1 2/11] RUN apt-get update && apt-get install -y r-base libcurl4-openssl-dev libssl-dev libxml2-dev curl texlive-xetex texlive-fonts-recommended texlive-plain-generic ruby ruby-dev vim nano && apt-get clean && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* +#7 0.363 Get:1 http://ports.ubuntu.com/ubuntu-ports jammy InRelease [270 kB] +#7 0.531 Get:2 http://ports.ubuntu.com/ubuntu-ports jammy-updates InRelease [128 kB] +#7 0.564 Get:3 http://ports.ubuntu.com/ubuntu-ports jammy-backports InRelease [127 kB] +#7 0.595 Get:4 http://ports.ubuntu.com/ubuntu-ports jammy-security InRelease [129 kB] +#7 0.628 Get:5 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 Packages [1,758 kB] +#7 0.748 Get:6 http://ports.ubuntu.com/ubuntu-ports jammy/multiverse arm64 Packages [224 kB] +#7 0.802 Get:7 http://ports.ubuntu.com/ubuntu-ports jammy/restricted arm64 Packages [24.2 kB] +#7 0.802 Get:8 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 Packages [17.2 MB] +#7 1.435 Get:9 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 Packages [3,594 kB] +#7 1.535 Get:10 http://ports.ubuntu.com/ubuntu-ports jammy-updates/multiverse arm64 Packages [46.0 kB] +#7 1.536 Get:11 http://ports.ubuntu.com/ubuntu-ports jammy-updates/universe arm64 Packages [1,618 kB] +#7 1.647 Get:12 http://ports.ubuntu.com/ubuntu-ports jammy-updates/restricted arm64 Packages [5,751 kB] +#7 2.008 Get:13 http://ports.ubuntu.com/ubuntu-ports jammy-backports/main arm64 Packages [83.5 kB] +#7 2.032 Get:14 http://ports.ubuntu.com/ubuntu-ports jammy-backports/universe arm64 Packages [33.3 kB] +#7 2.032 Get:15 http://ports.ubuntu.com/ubuntu-ports jammy-security/main arm64 Packages [3,258 kB] +#7 2.132 Get:16 http://ports.ubuntu.com/ubuntu-ports jammy-security/multiverse arm64 Packages [39.5 kB] +#7 2.132 Get:17 http://ports.ubuntu.com/ubuntu-ports jammy-security/restricted arm64 Packages [5,552 kB] +#7 2.252 Get:18 http://ports.ubuntu.com/ubuntu-ports jammy-security/universe arm64 Packages [1,317 kB] +#7 2.444 Fetched 41.2 MB in 2s (18.8 MB/s) +#7 2.444 Reading package lists... +#7 3.054 Reading package lists... +#7 3.641 Building dependency tree... +#7 3.834 Reading state information... +#7 4.007 The following additional packages will be installed: +#7 4.007 adwaita-icon-theme at-spi2-core binutils binutils-aarch64-linux-gnu +#7 4.007 binutils-common build-essential bzip2-doc cpp cpp-11 dbus dbus-user-session +#7 4.007 dconf-gsettings-backend dconf-service dirmngr dmsetup dpkg-dev dvisvgm +#7 4.007 fakeroot fontconfig fontconfig-config fonts-droid-fallback fonts-lato +#7 4.007 fonts-lmodern fonts-noto-mono fonts-texgyre fonts-urw-base35 g++ g++-11 gcc +#7 4.007 gcc-11 gcc-11-base gcc-12-base gfortran gfortran-11 gir1.2-glib-2.0 gnupg +#7 4.007 gnupg-l10n gnupg-utils gpg gpg-agent gpg-wks-client gpg-wks-server gpgconf +#7 4.007 gpgsm gpgv gsettings-desktop-schemas gtk-update-icon-cache +#7 4.007 hicolor-icon-theme humanity-icon-theme icu-devtools javascript-common +#7 4.007 libalgorithm-diff-perl libalgorithm-diff-xs-perl libalgorithm-merge-perl +#7 4.007 libapache-pom-java libapparmor1 libargon2-1 libasan6 libassuan0 +#7 4.007 libatk-bridge2.0-0 libatk1.0-0 libatk1.0-data libatomic1 libatspi2.0-0 +#7 4.007 libauthen-sasl-perl libavahi-client3 libavahi-common-data libavahi-common3 +#7 4.007 libbinutils libblas-dev libblas3 libbrotli1 libbsd0 libbz2-dev libc-dev-bin +#7 4.007 libc-devtools libc6 libc6-dev libcairo-gobject2 libcairo2 libcc1-0 +#7 4.007 libclone-perl libcolord2 libcommons-logging-java libcommons-parent-java +#7 4.007 libcrypt-dev libcryptsetup12 libctf-nobfd0 libctf0 libcups2 libcurl4 +#7 4.007 libdata-dump-perl libdatrie1 libdbus-1-3 libdconf1 libdeflate0 +#7 4.007 libdevmapper1.02.1 libdpkg-perl libdrm-amdgpu1 libdrm-common libdrm-nouveau2 +#7 4.007 libdrm-radeon1 libdrm2 libedit2 libelf1 libencode-locale-perl libepoxy0 +#7 4.007 libexpat1 libfakeroot libfile-basedir-perl libfile-desktopentry-perl +#7 4.007 libfile-fcntllock-perl libfile-listing-perl libfile-mimeinfo-perl +#7 4.007 libfont-afm-perl libfontbox-java libfontconfig1 libfontenc1 libfreetype6 +#7 4.007 libfribidi0 libgcc-11-dev libgcc-s1 libgd3 libgdbm-compat4 libgdbm6 +#7 4.007 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-bin libgdk-pixbuf2.0-common +#7 4.007 libgfortran-11-dev libgfortran5 libgirepository-1.0-1 libgl1 +#7 4.007 libgl1-amber-dri libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglib2.0-data +#7 4.007 libglvnd0 libglx-mesa0 libglx0 libgmp-dev libgmpxx4ldbl libgomp1 libgpm2 +#7 4.007 libgraphite2-3 libgs9 libgs9-common libgtk-3-0 libgtk-3-bin libgtk-3-common +#7 4.007 libgtkd-3-0 libharfbuzz0b libhtml-form-perl libhtml-format-perl +#7 4.007 libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl +#7 4.007 libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl +#7 4.007 libhttp-message-perl libhttp-negotiate-perl libhwasan0 libice6 libicu-dev +#7 4.007 libicu70 libidn12 libijs-0.35 libio-html-perl libio-socket-ssl-perl +#7 4.007 libio-stringy-perl libip4tc2 libipc-system-simple-perl libisl23 libitm1 +#7 4.007 libjbig0 libjbig2dec0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 +#7 4.007 libjpeg8-dev libjs-jquery libjson-c5 libkmod2 libkpathsea6 libksba8 +#7 4.007 liblapack-dev liblapack3 liblcms2-2 libldap-2.5-0 libldap-common libllvm11 +#7 4.007 libllvm15 liblocale-gettext-perl liblsan0 liblwp-mediatypes-perl +#7 4.007 liblwp-protocol-https-perl liblzma-dev libmailtools-perl libmd0 libmpc3 +#7 4.007 libmpdec3 libmpfr6 libncurses-dev libncurses5-dev libnet-dbus-perl +#7 4.007 libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnghttp2-14 +#7 4.007 libnpth0 libnsl-dev libnss-systemd libopenjp2-7 libpam-systemd +#7 4.007 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils +#7 4.007 libpaper1 libpcre16-3 libpcre2-16-0 libpcre2-32-0 libpcre2-dev +#7 4.007 libpcre2-posix3 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpdfbox-java +#7 4.007 libperl5.34 libphobos2-ldc-shared98 libpixman-1-0 libpng-dev libpng-tools +#7 4.007 libpng16-16 libptexenc1 libpython3-stdlib libpython3.10 +#7 4.007 libpython3.10-minimal libpython3.10-stdlib libreadline-dev libreadline8 +#7 4.007 librsvg2-2 librsvg2-common librtmp1 libruby3.0 libsasl2-2 libsasl2-modules +#7 4.007 libsasl2-modules-db libsensors-config libsensors5 libsm6 libsodium23 +#7 4.007 libsqlite3-0 libssh-4 libssl3 libstdc++-11-dev libstdc++6 libsynctex2 +#7 4.007 libsystemd0 libtcl8.6 libteckit0 libtexlua53 libtext-iconv-perl libthai-data +#7 4.007 libthai0 libtie-ixhash-perl libtiff5 libtimedate-perl libtirpc-dev libtk8.6 +#7 4.007 libtry-tiny-perl libtsan0 libubsan1 liburi-perl libvte-2.91-0 +#7 4.007 libvte-2.91-common libvted-3-0 libwayland-client0 libwayland-cursor0 +#7 4.007 libwayland-egl1 libwebp7 libwoff1 libwww-perl libwww-robotrules-perl +#7 4.007 libx11-6 libx11-data libx11-protocol-perl libx11-xcb1 libxau6 libxaw7 +#7 4.007 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 +#7 4.007 libxcb-render0 libxcb-shape0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 +#7 4.007 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxft2 +#7 4.007 libxi6 libxinerama1 libxkbcommon0 libxkbfile1 libxml-parser-perl +#7 4.007 libxml-twig-perl libxml-xpathengine-perl libxml2 libxmu6 libxmuu1 libxpm4 +#7 4.007 libxrandr2 libxrender1 libxshmfence1 libxss1 libxt6 libxtst6 libxv1 +#7 4.007 libxxf86dga1 libxxf86vm1 libyaml-0-2 libzzip-0-13 linux-libc-dev lmodern +#7 4.007 lto-disabled-list make manpages manpages-dev media-types netbase +#7 4.007 networkd-dispatcher patch perl perl-base perl-modules-5.34 +#7 4.007 perl-openssl-defaults pinentry-curses pkg-config poppler-data +#7 4.007 preview-latex-style python3 python3-dbus python3-gi python3-minimal +#7 4.007 python3.10 python3.10-minimal r-base-core r-base-dev r-base-html r-cran-boot +#7 4.007 r-cran-class r-cran-cluster r-cran-codetools r-cran-foreign +#7 4.007 r-cran-kernsmooth r-cran-lattice r-cran-mass r-cran-matrix r-cran-mgcv +#7 4.007 r-cran-nlme r-cran-nnet r-cran-rpart r-cran-spatial r-cran-survival +#7 4.007 r-doc-html r-recommended rake readline-common rpcsvc-proto ruby-net-telnet +#7 4.007 ruby-rubygems ruby-webrick ruby-xmlrpc ruby3.0 ruby3.0-dev ruby3.0-doc +#7 4.008 rubygems-integration session-migration shared-mime-info systemd systemd-sysv +#7 4.008 systemd-timesyncd t1utils tcl tcl8.6 teckit tex-common tex-gyre texlive-base +#7 4.008 texlive-binaries texlive-latex-base texlive-latex-extra +#7 4.008 texlive-latex-recommended texlive-pictures tilix tilix-common tipa tk tk8.6 +#7 4.008 tzdata ubuntu-mono ucf unzip vim-common vim-runtime x11-common x11-utils +#7 4.008 x11-xserver-utils xauth xdg-user-dirs xdg-utils xfonts-encodings +#7 4.008 xfonts-utils xkb-data xxd xz-utils zip zlib1g-dev +#7 4.009 Suggested packages: +#7 4.009 binutils-doc cpp-doc gcc-11-locales pinentry-gnome3 tor debian-keyring +#7 4.009 fonts-noto fonts-freefont-otf | fonts-freefont-ttf gcc-11-doc gcc-multilib +#7 4.009 autoconf automake libtool flex bison gdb gcc-doc gfortran-doc +#7 4.009 gfortran-11-doc libcoarrays-dev parcimonie xloadimage scdaemon apache2 +#7 4.009 | lighttpd | httpd libdigest-hmac-perl libgssapi-perl liblapack-doc +#7 4.009 glibc-doc colord libavalon-framework-java libcommons-logging-java-doc +#7 4.009 libexcalibur-logkit-java liblog4j1.2-java cups-common libcurl4-doc +#7 4.009 libidn11-dev libkrb5-dev libldap2-dev librtmp-dev libssh2-1-dev git bzr +#7 4.009 libgd-tools gdbm-l10n gmp-doc libgmp10-doc libmpfr-dev gpm gvfs icu-doc +#7 4.009 liblcms2-utils libcrypt-ssleay-perl liblzma-doc ncurses-doc readline-doc +#7 4.009 librsvg2-bin libsasl2-modules-gssapi-mit | libsasl2-modules-gssapi-heimdal +#7 4.009 libsasl2-modules-ldap libsasl2-modules-otp libsasl2-modules-sql lm-sensors +#7 4.009 libssl-doc libstdc++-11-doc libsub-name-perl libbusiness-isbn-perl +#7 4.009 libauthen-ntlm-perl libunicode-map8-perl libunicode-string-perl +#7 4.009 xml-twig-tools make-doc man-browser hunspell iw | wireless-tools ed +#7 4.009 diffutils-doc perl-doc libterm-readline-gnu-perl +#7 4.009 | libterm-readline-perl-perl libtap-harness-archive-perl pinentry-doc +#7 4.009 poppler-utils ghostscript fonts-japanese-mincho | fonts-ipafont-mincho +#7 4.009 fonts-japanese-gothic | fonts-ipafont-gothic fonts-arphic-ukai +#7 4.009 fonts-arphic-uming fonts-nanum python3-doc python3-tk python3-venv +#7 4.009 python-dbus-doc python3.10-venv python3.10-doc binfmt-support elpa-ess +#7 4.009 r-doc-info | r-doc-pdf r-mathlib texlive-fonts-extra texlive-extra-utils +#7 4.009 texinfo mozilla | www-browser ri bundler systemd-container libfido2-1 +#7 4.009 libtss2-esys-3.0.2-0 libtss2-mu0 libtss2-rc0 policykit-1 tcl-tclreadline +#7 4.009 debhelper gv | postscript-viewer perl-tk xpdf | pdf-viewer xzdec +#7 4.009 texlive-fonts-recommended-doc texlive-latex-base-doc python3-pygments +#7 4.009 icc-profiles libfile-which-perl libspreadsheet-parseexcel-perl +#7 4.009 texlive-latex-extra-doc texlive-latex-recommended-doc texlive-luatex +#7 4.009 texlive-pstricks dot2tex prerex texlive-pictures-doc vprerex +#7 4.009 default-jre-headless python-nautilus tipa-doc ctags vim-doc vim-scripts +#7 4.009 mesa-utils nickle cairo-5c xorg-docs-core +#7 4.009 Recommended packages: +#7 4.009 libnss-nis libnss-nisplus +#7 4.500 The following NEW packages will be installed: +#7 4.500 adwaita-icon-theme at-spi2-core binutils binutils-aarch64-linux-gnu +#7 4.500 binutils-common build-essential bzip2-doc cpp cpp-11 curl dbus +#7 4.500 dbus-user-session dconf-gsettings-backend dconf-service dirmngr dmsetup +#7 4.500 dpkg-dev dvisvgm fakeroot fontconfig fontconfig-config fonts-droid-fallback +#7 4.500 fonts-lato fonts-lmodern fonts-noto-mono fonts-texgyre fonts-urw-base35 g++ +#7 4.500 g++-11 gcc gcc-11 gcc-11-base gfortran gfortran-11 gir1.2-glib-2.0 gnupg +#7 4.500 gnupg-l10n gnupg-utils gpg gpg-agent gpg-wks-client gpg-wks-server gpgconf +#7 4.500 gpgsm gsettings-desktop-schemas gtk-update-icon-cache hicolor-icon-theme +#7 4.500 humanity-icon-theme icu-devtools javascript-common libalgorithm-diff-perl +#7 4.500 libalgorithm-diff-xs-perl libalgorithm-merge-perl libapache-pom-java +#7 4.500 libapparmor1 libargon2-1 libasan6 libassuan0 libatk-bridge2.0-0 libatk1.0-0 +#7 4.500 libatk1.0-data libatomic1 libatspi2.0-0 libauthen-sasl-perl libavahi-client3 +#7 4.500 libavahi-common-data libavahi-common3 libbinutils libblas-dev libblas3 +#7 4.500 libbrotli1 libbsd0 libbz2-dev libc-dev-bin libc-devtools libc6-dev +#7 4.500 libcairo-gobject2 libcairo2 libcc1-0 libclone-perl libcolord2 +#7 4.500 libcommons-logging-java libcommons-parent-java libcrypt-dev libcryptsetup12 +#7 4.500 libctf-nobfd0 libctf0 libcups2 libcurl4 libcurl4-openssl-dev +#7 4.500 libdata-dump-perl libdatrie1 libdbus-1-3 libdconf1 libdeflate0 +#7 4.500 libdevmapper1.02.1 libdpkg-perl libdrm-amdgpu1 libdrm-common libdrm-nouveau2 +#7 4.500 libdrm-radeon1 libdrm2 libedit2 libelf1 libencode-locale-perl libepoxy0 +#7 4.500 libexpat1 libfakeroot libfile-basedir-perl libfile-desktopentry-perl +#7 4.500 libfile-fcntllock-perl libfile-listing-perl libfile-mimeinfo-perl +#7 4.500 libfont-afm-perl libfontbox-java libfontconfig1 libfontenc1 libfreetype6 +#7 4.500 libfribidi0 libgcc-11-dev libgd3 libgdbm-compat4 libgdbm6 +#7 4.500 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-bin libgdk-pixbuf2.0-common +#7 4.500 libgfortran-11-dev libgfortran5 libgirepository-1.0-1 libgl1 +#7 4.500 libgl1-amber-dri libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglib2.0-data +#7 4.500 libglvnd0 libglx-mesa0 libglx0 libgmp-dev libgmpxx4ldbl libgomp1 libgpm2 +#7 4.500 libgraphite2-3 libgs9 libgs9-common libgtk-3-0 libgtk-3-bin libgtk-3-common +#7 4.500 libgtkd-3-0 libharfbuzz0b libhtml-form-perl libhtml-format-perl +#7 4.500 libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl +#7 4.500 libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl +#7 4.500 libhttp-message-perl libhttp-negotiate-perl libhwasan0 libice6 libicu-dev +#7 4.500 libicu70 libidn12 libijs-0.35 libio-html-perl libio-socket-ssl-perl +#7 4.500 libio-stringy-perl libip4tc2 libipc-system-simple-perl libisl23 libitm1 +#7 4.500 libjbig0 libjbig2dec0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 +#7 4.500 libjpeg8-dev libjs-jquery libjson-c5 libkmod2 libkpathsea6 libksba8 +#7 4.500 liblapack-dev liblapack3 liblcms2-2 libldap-2.5-0 libldap-common libllvm11 +#7 4.500 libllvm15 liblocale-gettext-perl liblsan0 liblwp-mediatypes-perl +#7 4.500 liblwp-protocol-https-perl liblzma-dev libmailtools-perl libmd0 libmpc3 +#7 4.500 libmpdec3 libmpfr6 libncurses-dev libncurses5-dev libnet-dbus-perl +#7 4.500 libnet-http-perl libnet-smtp-ssl-perl libnet-ssleay-perl libnghttp2-14 +#7 4.500 libnpth0 libnsl-dev libnss-systemd libopenjp2-7 libpam-systemd +#7 4.500 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils +#7 4.500 libpaper1 libpcre16-3 libpcre2-16-0 libpcre2-32-0 libpcre2-dev +#7 4.500 libpcre2-posix3 libpcre3-dev libpcre32-3 libpcrecpp0v5 libpdfbox-java +#7 4.500 libperl5.34 libphobos2-ldc-shared98 libpixman-1-0 libpng-dev libpng-tools +#7 4.500 libpng16-16 libptexenc1 libpython3-stdlib libpython3.10 +#7 4.500 libpython3.10-minimal libpython3.10-stdlib libreadline-dev libreadline8 +#7 4.500 librsvg2-2 librsvg2-common librtmp1 libruby3.0 libsasl2-2 libsasl2-modules +#7 4.500 libsasl2-modules-db libsensors-config libsensors5 libsm6 libsodium23 +#7 4.500 libsqlite3-0 libssh-4 libssl-dev libstdc++-11-dev libsynctex2 libtcl8.6 +#7 4.500 libteckit0 libtexlua53 libtext-iconv-perl libthai-data libthai0 +#7 4.500 libtie-ixhash-perl libtiff5 libtimedate-perl libtirpc-dev libtk8.6 +#7 4.500 libtry-tiny-perl libtsan0 libubsan1 liburi-perl libvte-2.91-0 +#7 4.500 libvte-2.91-common libvted-3-0 libwayland-client0 libwayland-cursor0 +#7 4.500 libwayland-egl1 libwebp7 libwoff1 libwww-perl libwww-robotrules-perl +#7 4.500 libx11-6 libx11-data libx11-protocol-perl libx11-xcb1 libxau6 libxaw7 +#7 4.500 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 +#7 4.500 libxcb-render0 libxcb-shape0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 +#7 4.500 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxext6 libxfixes3 libxft2 +#7 4.500 libxi6 libxinerama1 libxkbcommon0 libxkbfile1 libxml-parser-perl +#7 4.500 libxml-twig-perl libxml-xpathengine-perl libxml2 libxml2-dev libxmu6 +#7 4.500 libxmuu1 libxpm4 libxrandr2 libxrender1 libxshmfence1 libxss1 libxt6 +#7 4.500 libxtst6 libxv1 libxxf86dga1 libxxf86vm1 libyaml-0-2 libzzip-0-13 +#7 4.500 linux-libc-dev lmodern lto-disabled-list make manpages manpages-dev +#7 4.500 media-types nano netbase networkd-dispatcher patch perl perl-modules-5.34 +#7 4.500 perl-openssl-defaults pinentry-curses pkg-config poppler-data +#7 4.500 preview-latex-style python3 python3-dbus python3-gi python3-minimal +#7 4.500 python3.10 python3.10-minimal r-base r-base-core r-base-dev r-base-html +#7 4.500 r-cran-boot r-cran-class r-cran-cluster r-cran-codetools r-cran-foreign +#7 4.500 r-cran-kernsmooth r-cran-lattice r-cran-mass r-cran-matrix r-cran-mgcv +#7 4.500 r-cran-nlme r-cran-nnet r-cran-rpart r-cran-spatial r-cran-survival +#7 4.500 r-doc-html r-recommended rake readline-common rpcsvc-proto ruby ruby-dev +#7 4.500 ruby-net-telnet ruby-rubygems ruby-webrick ruby-xmlrpc ruby3.0 ruby3.0-dev +#7 4.500 ruby3.0-doc rubygems-integration session-migration shared-mime-info systemd +#7 4.500 systemd-sysv systemd-timesyncd t1utils tcl tcl8.6 teckit tex-common tex-gyre +#7 4.500 texlive-base texlive-binaries texlive-fonts-recommended texlive-latex-base +#7 4.500 texlive-latex-extra texlive-latex-recommended texlive-pictures +#7 4.500 texlive-plain-generic texlive-xetex tilix tilix-common tipa tk tk8.6 tzdata +#7 4.500 ubuntu-mono ucf unzip vim vim-common vim-runtime x11-common x11-utils +#7 4.500 x11-xserver-utils xauth xdg-user-dirs xdg-utils xfonts-encodings +#7 4.500 xfonts-utils xkb-data xxd xz-utils zip zlib1g-dev +#7 4.501 The following packages will be upgraded: +#7 4.501 gcc-12-base gpgv libc6 libgcc-s1 libssl3 libstdc++6 libsystemd0 perl-base +#7 4.562 8 upgraded, 432 newly installed, 0 to remove and 42 not upgraded. +#7 4.562 Need to get 469 MB of archives. +#7 4.562 After this operation, 1,542 MB of additional disk space will be used. +#7 4.562 Get:1 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 perl-base arm64 5.34.0-3ubuntu1.5 [1,710 kB] +#7 4.752 Get:2 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libsystemd0 arm64 249.11-0ubuntu3.17 [313 kB] +#7 4.780 Get:3 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gcc-12-base arm64 12.3.0-1ubuntu1~22.04.2 [20.6 kB] +#7 4.780 Get:4 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgcc-s1 arm64 12.3.0-1ubuntu1~22.04.2 [39.7 kB] +#7 4.780 Get:5 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libstdc++6 arm64 12.3.0-1ubuntu1~22.04.2 [661 kB] +#7 4.822 Get:6 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libc6 arm64 2.35-0ubuntu3.11 [2,709 kB] +#7 4.878 Get:7 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 liblocale-gettext-perl arm64 1.07-4build3 [16.9 kB] +#7 4.878 Get:8 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libssl3 arm64 3.0.2-0ubuntu1.20 [1,765 kB] +#7 4.960 Get:9 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libpython3.10-minimal arm64 3.10.12-1~22.04.11 [813 kB] +#7 4.965 Get:10 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libexpat1 arm64 2.4.7-1ubuntu0.6 [77.8 kB] +#7 4.967 Get:11 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 python3.10-minimal arm64 3.10.12-1~22.04.11 [2,243 kB] +#7 5.054 Get:12 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 python3-minimal arm64 3.10.6-1~22.04.1 [24.3 kB] +#7 5.096 Get:13 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 media-types all 7.0.0 [25.5 kB] +#7 5.111 Get:14 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libmpdec3 arm64 2.5.1-2build2 [89.0 kB] +#7 5.149 Get:15 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 readline-common all 8.1.2-1 [53.5 kB] +#7 5.163 Get:16 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libreadline8 arm64 8.1.2-1 [153 kB] +#7 5.182 Get:17 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libsqlite3-0 arm64 3.37.2-2ubuntu0.5 [636 kB] +#7 5.217 Get:18 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libpython3.10-stdlib arm64 3.10.12-1~22.04.11 [1,846 kB] +#7 5.291 Get:19 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 python3.10 arm64 3.10.12-1~22.04.11 [508 kB] +#7 5.296 Get:20 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libpython3-stdlib arm64 3.10.6-1~22.04.1 [6,812 B] +#7 5.296 Get:21 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 python3 arm64 3.10.6-1~22.04.1 [22.8 kB] +#7 5.392 Get:22 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libapparmor1 arm64 3.0.4-2ubuntu2.4 [39.4 kB] +#7 5.459 Get:23 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libargon2-1 arm64 0~20171227-0.3 [18.6 kB] +#7 5.459 Get:24 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libdevmapper1.02.1 arm64 2:1.02.175-2.1ubuntu5 [129 kB] +#7 5.552 Get:25 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libjson-c5 arm64 0.15-3~ubuntu1.22.04.2 [32.7 kB] +#7 5.554 Get:26 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libcryptsetup12 arm64 2:2.4.3-1ubuntu1.3 [208 kB] +#7 5.567 Get:27 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libip4tc2 arm64 1.8.7-1ubuntu5.2 [19.9 kB] +#7 5.573 Get:28 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libkmod2 arm64 29-1ubuntu1 [46.4 kB] +#7 5.578 Get:29 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 systemd arm64 249.11-0ubuntu3.17 [4,416 kB] +#7 5.740 Get:30 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 systemd-sysv arm64 249.11-0ubuntu3.17 [10.5 kB] +#7 5.740 Get:31 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 fonts-droid-fallback all 1:6.0.1r16-1.1build1 [1,805 kB] +#7 5.754 Get:32 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 fonts-lato all 2.0-2.1 [2,696 kB] +#7 5.896 Get:33 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 perl-modules-5.34 all 5.34.0-3ubuntu1.5 [2,977 kB] +#7 6.351 Get:34 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libgdbm6 arm64 1.23-1 [34.1 kB] +#7 6.352 Get:35 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libgdbm-compat4 arm64 1.23-1 [6,294 B] +#7 6.352 Get:36 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libperl5.34 arm64 5.34.0-3ubuntu1.5 [4,721 kB] +#7 6.540 Get:37 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 perl arm64 5.34.0-3ubuntu1.5 [232 kB] +#7 6.547 Get:38 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 poppler-data all 0.4.11-1 [2,171 kB] +#7 6.604 Get:39 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 ucf all 3.0043 [56.1 kB] +#7 6.605 Get:40 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 tex-common all 6.17 [33.7 kB] +#7 6.606 Get:41 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpgv arm64 2.2.27-3ubuntu2.4 [134 kB] +#7 6.607 Get:42 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libdbus-1-3 arm64 1.12.20-2ubuntu4.1 [187 kB] +#7 6.610 Get:43 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 dbus arm64 1.12.20-2ubuntu4.1 [154 kB] +#7 6.657 Get:44 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 dmsetup arm64 2:1.02.175-2.1ubuntu5 [75.8 kB] +#7 6.754 Get:45 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libglib2.0-0 arm64 2.72.4-0ubuntu2.6 [1,435 kB] +#7 7.168 Get:46 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libgirepository-1.0-1 arm64 1.72.0-1 [53.5 kB] +#7 7.169 Get:47 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 gir1.2-glib-2.0 arm64 1.72.0-1 [165 kB] +#7 7.211 Get:48 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libmd0 arm64 1.0.4-1build1 [23.8 kB] +#7 7.215 Get:49 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libbsd0 arm64 0.11.5-1 [43.7 kB] +#7 7.218 Get:50 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libelf1 arm64 0.186-1ubuntu0.1 [50.8 kB] +#7 7.252 Get:51 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libfribidi0 arm64 1.0.8-2ubuntu3.1 [26.4 kB] +#7 7.252 Get:52 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libglib2.0-data all 2.72.4-0ubuntu2.6 [4,698 B] +#7 7.252 Get:53 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libicu70 arm64 70.1-2 [10.5 MB] +#7 8.986 Get:54 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libnss-systemd arm64 249.11-0ubuntu3.17 [133 kB] +#7 9.045 Get:55 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libpam-systemd arm64 249.11-0ubuntu3.17 [205 kB] +#7 9.182 Get:56 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libtext-iconv-perl arm64 1.7-7build3 [14.0 kB] +#7 9.184 Get:57 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libxml2 arm64 2.9.13+dfsg-1ubuntu0.10 [728 kB] +#7 9.257 Get:58 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libyaml-0-2 arm64 0.2.2-1build2 [51.0 kB] +#7 9.258 Get:59 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 netbase all 6.3 [12.9 kB] +#7 9.258 Get:60 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 python3-dbus arm64 1.2.18-3build1 [98.5 kB] +#7 9.259 Get:61 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 python3-gi arm64 3.42.1-0ubuntu1 [228 kB] +#7 9.266 Get:62 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 networkd-dispatcher all 2.1-2ubuntu0.22.04.2 [15.8 kB] +#7 9.272 Get:63 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 shared-mime-info arm64 2.1-2 [453 kB] +#7 9.279 Get:64 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 systemd-timesyncd arm64 249.11-0ubuntu3.17 [30.0 kB] +#7 9.280 Get:65 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 tzdata all 2025b-0ubuntu0.22.04.1 [347 kB] +#7 9.334 Get:66 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 xxd arm64 2:8.2.3995-1ubuntu2.24 [50.9 kB] +#7 9.403 Get:67 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 vim-common all 2:8.2.3995-1ubuntu2.24 [81.5 kB] +#7 9.428 Get:68 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 xdg-user-dirs arm64 0.17-2ubuntu4 [53.5 kB] +#7 9.442 Get:69 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 xkb-data all 2.33-1 [394 kB] +#7 9.489 Get:70 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libdrm-common all 2.4.113-2~ubuntu0.22.04.1 [5,450 B] +#7 9.489 Get:71 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libdrm2 arm64 2.4.113-2~ubuntu0.22.04.1 [39.1 kB] +#7 9.496 Get:72 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libedit2 arm64 3.1-20210910-1build1 [96.0 kB] +#7 9.498 Get:73 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libnghttp2-14 arm64 1.43.0-1ubuntu0.2 [76.0 kB] +#7 9.499 Get:74 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libpng16-16 arm64 1.6.37-3build5 [189 kB] +#7 9.506 Get:75 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxau6 arm64 1:1.0.9-1build5 [7,624 B] +#7 9.506 Get:76 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxdmcp6 arm64 1:1.1.3-0ubuntu5 [10.8 kB] +#7 9.557 Get:77 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxcb1 arm64 1.14-3ubuntu3 [49.0 kB] +#7 9.618 Get:78 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libx11-data all 2:1.7.5-1ubuntu0.3 [120 kB] +#7 9.647 Get:79 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libx11-6 arm64 2:1.7.5-1ubuntu0.3 [661 kB] +#7 9.706 Get:80 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxext6 arm64 2:1.3.4-1build1 [31.1 kB] +#7 9.706 Get:81 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxmuu1 arm64 2:1.1.3-3 [10.4 kB] +#7 9.707 Get:82 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 manpages all 5.10-1ubuntu1 [1,375 kB] +#7 9.760 Get:83 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 nano arm64 6.2-1ubuntu0.1 [277 kB] +#7 9.763 Get:84 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 xauth arm64 1:1.1-1build2 [26.8 kB] +#7 9.769 Get:85 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 xz-utils arm64 5.2.5-2ubuntu1 [84.4 kB] +#7 9.775 Get:86 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 hicolor-icon-theme all 0.17-2 [9,976 B] +#7 9.820 Get:87 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgdk-pixbuf2.0-common all 2.42.8+dfsg-1ubuntu0.4 [5,546 B] +#7 9.822 Get:88 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libjpeg-turbo8 arm64 2.1.2-0ubuntu1 [129 kB] +#7 9.893 Get:89 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libjpeg8 arm64 8c-2ubuntu10 [2,264 B] +#7 9.893 Get:90 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libdeflate0 arm64 1.10-2 [69.1 kB] +#7 9.916 Get:91 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libjbig0 arm64 2.1-3.1ubuntu0.22.04.1 [29.1 kB] +#7 9.917 Get:92 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libwebp7 arm64 1.2.2-2ubuntu0.22.04.2 [193 kB] +#7 9.936 Get:93 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libtiff5 arm64 4.3.0-6ubuntu0.12 [181 kB] +#7 9.949 Get:94 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgdk-pixbuf-2.0-0 arm64 2.42.8+dfsg-1ubuntu0.4 [143 kB] +#7 9.960 Get:95 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gtk-update-icon-cache arm64 3.24.33-1ubuntu2.2 [31.1 kB] +#7 9.973 Get:96 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 humanity-icon-theme all 0.6.16 [1,282 kB] +#7 10.00 Get:97 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 ubuntu-mono all 20.10-0ubuntu2 [153 kB] +#7 10.05 Get:98 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 adwaita-icon-theme all 41.0-1ubuntu1 [3,444 kB] +#7 ... -#8 [rust-builder 4/6] RUN . /home/jovyan/.cargo/env && cargo install csvlens -#8 0.135 Updating crates.io index -#8 0.844 Downloading crates ... -#8 1.045 Downloaded csvlens v0.14.0 -#8 1.110 Installing csvlens v0.14.0 -#8 1.121 Updating crates.io index -#8 2.654 Locking 222 packages to latest compatible versions -#8 2.656 Adding arrow v56.2.0 (available: v57.0.0) -#8 2.660 Adding crossterm v0.28.1 (available: v0.29.0) -#8 2.666 Adding qsv-sniffer v0.11.0 (available: v0.12.2) -#8 2.675 Adding tui-input v0.13.0 (available: v0.14.0) -#8 2.675 Adding unicode-width v0.2.0 (available: v0.2.2) -#8 2.678 Downloading crates ... -#8 2.774 Downloaded clap_lex v0.7.6 -#8 2.775 Downloaded const-random v0.1.18 -#8 2.776 Downloaded anstyle-parse v0.2.7 -#8 2.778 Downloaded anstream v0.6.21 -#8 2.803 Downloaded crunchy v0.2.4 -#8 2.803 Downloaded const-random-macro v0.1.16 -#8 2.805 Downloaded either v1.15.0 -#8 2.807 Downloaded quote v1.0.41 -#8 2.809 Downloaded anstyle-query v1.1.4 -#8 2.816 Downloaded ansi-to-tui v7.0.0 -#8 2.835 Downloaded anstyle v1.0.13 -#8 2.837 Downloaded is_terminal_polyfill v1.70.2 -#8 2.838 Downloaded equivalent v1.0.2 -#8 2.844 Downloaded darling_core v0.20.11 -#8 2.848 Downloaded ident_case v1.0.1 -#8 2.849 Downloaded fixedbitset v0.4.2 -#8 2.850 Downloaded darling_macro v0.20.11 -#8 2.852 Downloaded atoi v2.0.0 -#8 2.853 Downloaded autocfg v1.5.0 -#8 2.855 Downloaded arrow-csv v56.2.0 -#8 2.864 Downloaded shlex v1.3.0 -#8 2.867 Downloaded tiny-keccak v2.0.2 -#8 2.869 Downloaded num-traits v0.2.19 -#8 2.871 Downloaded num-integer v0.1.46 -#8 2.872 Downloaded getrandom v0.2.16 -#8 2.874 Downloaded fastrand v2.3.0 -#8 2.875 Downloaded os_pipe v1.2.3 -#8 2.876 Downloaded arboard v3.6.1 -#8 2.878 Downloaded thiserror v2.0.17 -#8 2.882 Downloaded num v0.4.3 -#8 2.883 Downloaded foldhash v0.1.5 -#8 2.883 Downloaded csv-core v0.1.13 -#8 2.885 Downloaded darling v0.20.11 -#8 2.887 Downloaded lock_api v0.4.14 -#8 2.888 Downloaded downcast-rs v1.2.1 -#8 2.889 Downloaded num-complex v0.4.6 -#8 2.890 Downloaded clap_derive v4.5.49 -#8 2.892 Downloaded bytecount v0.6.9 -#8 2.893 Downloaded arrow-data v56.2.0 -#8 2.895 Downloaded arrow-ord v56.2.0 -#8 2.897 Downloaded allocator-api2 v0.2.21 -#8 2.899 Downloaded arrow-string v56.2.0 -#8 2.900 Downloaded arrow-row v56.2.0 -#8 2.901 Downloaded num-iter v0.1.45 -#8 2.902 Downloaded num-rational v0.4.2 -#8 2.903 Downloaded find-msvc-tools v0.1.4 -#8 2.904 Downloaded log v0.4.28 -#8 2.906 Downloaded clap v4.5.51 -#8 2.910 Downloaded ahash v0.8.12 -#8 2.912 Downloaded iana-time-zone v0.1.64 -#8 2.914 Downloaded lexical-parse-integer v1.0.6 -#8 2.915 Downloaded arrow-arith v56.2.0 -#8 2.916 Downloaded parking_lot_core v0.9.12 -#8 2.918 Downloaded arrow-schema v56.2.0 -#8 2.920 Downloaded getrandom v0.3.4 -#8 2.922 Downloaded fast-float2 v0.2.3 -#8 2.923 Downloaded lexical-core v1.0.6 -#8 2.924 Downloaded base64 v0.22.1 -#8 2.927 Downloaded anyhow v1.0.100 -#8 2.929 Downloaded arrow v56.2.0 -#8 2.932 Downloaded lexical-write-integer v1.0.6 -#8 2.934 Downloaded compact_str v0.8.1 -#8 2.936 Downloaded arrow-buffer v56.2.0 -#8 2.938 Downloaded arrow-select v56.2.0 -#8 2.940 Downloaded half v2.7.1 -#8 2.942 Downloaded bitflags v2.10.0 -#8 2.944 Downloaded once_cell v1.21.3 -#8 2.946 Downloaded bytes v1.10.1 -#8 2.948 Downloaded static_assertions v1.1.0 -#8 2.949 Downloaded arrow-cast v56.2.0 -#8 2.952 Downloaded lru v0.12.5 -#8 2.952 Downloaded itoa v1.0.15 -#8 2.953 Downloaded instability v0.3.9 -#8 2.954 Downloaded indoc v2.0.7 -#8 2.955 Downloaded cc v1.2.44 -#8 2.958 Downloaded indexmap v2.12.0 -#8 2.960 Downloaded heck v0.5.0 -#8 2.961 Downloaded gethostname v1.1.0 -#8 2.962 Downloaded fnv v1.0.7 -#8 2.962 Downloaded filedescriptor v0.8.3 -#8 2.963 Downloaded errno v0.3.14 -#8 2.964 Downloaded num-bigint v0.4.6 -#8 2.967 Downloaded tree_magic_mini v3.2.0 -#8 2.968 Downloaded lexical-write-float v1.0.6 -#8 2.970 Downloaded memchr v2.7.6 -#8 2.973 Downloaded lexical-util v1.0.7 -#8 2.976 Downloaded terminal-trx v0.2.5 -#8 2.977 Downloaded minimal-lexical v0.2.1 -#8 2.980 Downloaded strum v0.26.3 -#8 2.980 Downloaded hashbrown v0.16.0 -#8 2.984 Downloaded mio v1.1.0 -#8 2.987 Downloaded hashbrown v0.15.5 -#8 2.991 Downloaded libm v0.2.15 -#8 2.997 Downloaded clap_builder v4.5.51 -#8 3.001 Downloaded aho-corasick v1.1.4 -#8 3.005 Downloaded lexical-parse-float v1.0.6 -#8 3.009 Downloaded chrono v0.4.42 -#8 3.014 Downloaded crossterm v0.28.1 -#8 3.018 Downloaded arrow-array v56.2.0 -#8 3.023 Downloaded nom v7.1.3 -#8 3.026 Downloaded itertools v0.13.0 -#8 3.030 Downloaded colorchoice v1.0.4 -#8 3.031 Downloaded cfg-if v1.0.4 -#8 3.032 Downloaded castaway v0.2.4 -#8 3.033 Downloaded cassowary v0.3.0 -#8 3.033 Downloaded thiserror-impl v2.0.17 -#8 3.037 Downloaded thiserror-impl v1.0.69 -#8 3.037 Downloaded sorted-vec v0.8.10 -#8 3.049 Downloaded signal-hook-mio v0.2.5 -#8 3.070 Downloaded strsim v0.11.1 -#8 3.071 Downloaded scopeguard v1.2.0 -#8 3.081 Downloaded tui-input v0.13.0 -#8 3.082 Downloaded signal-hook-registry v1.4.6 -#8 3.091 Downloaded percent-encoding v2.3.2 -#8 3.094 Downloaded libc v0.2.177 -#8 3.113 Downloaded thiserror v1.0.69 -#8 3.116 Downloaded qsv-dateparser v0.13.0 -#8 3.117 Downloaded terminal_size v0.4.3 -#8 3.118 Downloaded serde_core v1.0.228 -#8 3.120 Downloaded csv v1.4.0 -#8 3.137 Downloaded rustversion v1.0.22 -#8 3.139 Downloaded paste v1.0.15 -#8 3.140 Downloaded qsv-sniffer v0.11.0 -#8 3.141 Downloaded pkg-config v0.3.32 -#8 3.147 Downloaded utf8parse v0.2.2 -#8 3.165 Downloaded xterm-color v1.0.1 -#8 3.165 Downloaded version_check v0.9.5 -#8 3.175 Downloaded unicode-truncate v1.1.0 -#8 3.182 Downloaded wayland-sys v0.31.7 -#8 3.187 Downloaded tabwriter v1.4.1 -#8 3.191 Downloaded terminal-colorsaurus v1.0.1 -#8 3.205 Downloaded linux-raw-sys v0.4.15 -#8 3.243 Downloaded tempfile v3.23.0 -#8 3.245 Downloaded strum_macros v0.26.4 -#8 3.246 Downloaded smallvec v1.15.1 -#8 3.248 Downloaded simdutf8 v0.1.5 -#8 3.250 Downloaded linux-raw-sys v0.11.0 -#8 3.295 Downloaded wl-clipboard-rs v0.9.2 -#8 3.297 Downloaded parking_lot v0.12.5 -#8 3.298 Downloaded wayland-protocols-wlr v0.3.9 -#8 3.300 Downloaded unicode-ident v1.0.22 -#8 3.301 Downloaded ryu v1.0.20 -#8 3.327 Downloaded proc-macro2 v1.0.103 -#8 3.344 Downloaded wayland-scanner v0.31.7 -#8 3.367 Downloaded signal-hook v0.3.18 -#8 3.395 Downloaded wayland-client v0.31.11 -#8 3.438 Downloaded zerocopy-derive v0.8.27 -#8 3.443 Downloaded wayland-backend v0.3.11 -#8 3.532 Downloaded unicode-segmentation v1.12.0 -#8 3.633 Downloaded regex v1.12.2 -#8 3.646 Downloaded wayland-protocols v0.32.9 -#8 3.725 Downloaded quick-xml v0.37.5 -#8 3.763 Downloaded unicode-width v0.2.0 -#8 3.797 Downloaded x11rb v0.13.2 -#8 3.844 Downloaded zerocopy v0.8.27 -#8 3.869 Downloaded unicode-width v0.1.14 -#8 3.896 Downloaded syn v2.0.108 -#8 3.941 Downloaded regex-syntax v0.8.8 -#8 3.962 Downloaded rustix v1.1.2 -#8 3.980 Downloaded rustix v0.38.44 -#8 4.024 Downloaded x11rb-protocol v0.13.2 -#8 4.051 Downloaded regex-automata v0.4.13 -#8 4.063 Downloaded ratatui v0.29.0 -#8 4.078 Downloaded petgraph v0.6.5 -#8 4.121 Compiling proc-macro2 v1.0.103 -#8 4.121 Compiling quote v1.0.41 -#8 4.121 Compiling unicode-ident v1.0.22 -#8 4.121 Compiling libc v0.2.177 -#8 4.121 Compiling cfg-if v1.0.4 -#8 4.121 Compiling autocfg v1.5.0 -#8 4.122 Compiling libm v0.2.15 -#8 4.124 Compiling bitflags v2.10.0 -#8 4.125 Compiling memchr v2.7.6 -#8 4.125 Compiling getrandom v0.3.4 -#8 4.125 Compiling zerocopy v0.8.27 -#8 4.125 Compiling hashbrown v0.16.0 -#8 4.125 Compiling once_cell v1.21.3 -#8 4.126 Compiling rustix v1.1.2 -#8 4.128 Compiling linux-raw-sys v0.11.0 -#8 4.128 Compiling smallvec v1.15.1 -#8 4.146 Compiling iana-time-zone v0.1.64 -#8 4.161 Compiling version_check v0.9.5 -#8 4.236 Compiling bytes v1.10.1 -#8 4.242 Compiling equivalent v1.0.2 -#8 4.271 Compiling arrow-schema v56.2.0 -#8 4.272 Compiling pkg-config v0.3.32 -#8 4.278 Compiling log v0.4.28 -#8 4.308 Compiling num-traits v0.2.19 -#8 4.310 Compiling ahash v0.8.12 -#8 4.322 Compiling shlex v1.3.0 -#8 4.345 Compiling find-msvc-tools v0.1.4 -#8 4.398 Compiling ryu v1.0.20 -#8 4.398 Compiling rustversion v1.0.22 -#8 4.411 Compiling cc v1.2.44 -#8 4.465 Compiling rustix v0.38.44 -#8 4.471 Compiling parking_lot_core v0.9.12 -#8 4.517 Compiling itoa v1.0.15 -#8 4.551 Compiling lexical-util v1.0.7 -#8 4.579 Compiling aho-corasick v1.1.4 -#8 4.615 Compiling wayland-sys v0.31.7 -#8 4.625 Compiling regex-syntax v0.8.8 -#8 4.666 Compiling linux-raw-sys v0.4.15 -#8 4.688 Compiling scopeguard v1.2.0 -#8 4.725 Compiling heck v0.5.0 -#8 4.733 Compiling syn v2.0.108 -#8 4.767 Compiling thiserror v1.0.69 -#8 4.786 Compiling fnv v1.0.7 -#8 4.791 Compiling ident_case v1.0.1 -#8 4.814 Compiling strsim v0.11.1 -#8 4.869 Compiling signal-hook v0.3.18 -#8 4.927 Compiling mio v1.1.0 -#8 5.014 Compiling signal-hook-registry v1.4.6 -#8 5.044 Compiling lock_api v0.4.14 -#8 5.066 Compiling allocator-api2 v0.2.21 -#8 5.089 Compiling quick-xml v0.37.5 -#8 5.139 Compiling downcast-rs v1.2.1 -#8 5.161 Compiling foldhash v0.1.5 -#8 5.162 Compiling wayland-client v0.31.11 -#8 5.190 Compiling serde_core v1.0.228 -#8 5.291 Compiling parking_lot v0.12.5 -#8 5.357 Compiling num-integer v0.1.46 -#8 5.390 Compiling num-complex v0.4.6 -#8 5.486 Compiling chrono v0.4.42 -#8 5.533 Compiling num-bigint v0.4.6 -#8 5.595 Compiling num-iter v0.1.45 -#8 5.621 Compiling wayland-backend v0.3.11 -#8 5.659 Compiling hashbrown v0.15.5 -#8 5.729 Compiling wayland-scanner v0.31.7 -#8 5.729 Compiling lexical-parse-integer v1.0.6 -#8 5.783 Compiling lexical-write-integer v1.0.6 -#8 5.824 Compiling either v1.15.0 -#8 5.862 Compiling minimal-lexical v0.2.1 -#8 5.863 Compiling instability v0.3.9 -#8 5.920 Compiling unicode-width v0.2.0 -#8 5.984 Compiling regex-automata v0.4.13 -#8 5.996 Compiling paste v1.0.15 -#8 6.108 Compiling nom v7.1.3 -#8 6.124 Compiling lexical-write-float v1.0.6 -#8 6.161 Compiling itertools v0.13.0 -#8 6.204 Compiling lexical-parse-float v1.0.6 -#8 6.296 Compiling signal-hook-mio v0.2.5 -#8 6.421 Compiling castaway v0.2.4 -#8 6.500 Compiling indexmap v2.12.0 -#8 6.555 Compiling csv-core v0.1.13 -#8 6.701 Compiling num-rational v0.4.2 -#8 7.096 Compiling num v0.4.3 -#8 7.131 Compiling static_assertions v1.1.0 -#8 7.155 Compiling unicode-width v0.1.14 -#8 7.272 Compiling darling_core v0.20.11 -#8 7.336 Compiling utf8parse v0.2.2 -#8 7.338 Compiling unicode-segmentation v1.12.0 -#8 7.400 Compiling thiserror v2.0.17 -#8 7.634 Compiling fixedbitset v0.4.2 -#8 7.849 Compiling anyhow v1.0.100 -#8 7.938 Compiling indoc v2.0.7 -#8 7.948 Compiling petgraph v0.6.5 -#8 8.000 Compiling unicode-truncate v1.1.0 -#8 8.078 Compiling anstyle-parse v0.2.7 -#8 8.092 Compiling compact_str v0.8.1 -#8 8.159 Compiling lexical-core v1.0.6 -#8 8.232 Compiling lru v0.12.5 -#8 8.239 Compiling atoi v2.0.0 -#8 8.296 Compiling csv v1.4.0 -#8 8.319 Compiling anstyle-query v1.1.4 -#8 8.356 Compiling regex v1.12.2 -#8 8.365 Compiling colorchoice v1.0.4 -#8 8.411 Compiling is_terminal_polyfill v1.70.2 -#8 8.434 Compiling base64 v0.22.1 -#8 8.631 Compiling anstyle v1.0.13 -#8 8.808 Compiling zerocopy-derive v0.8.27 -#8 8.977 Compiling thiserror-impl v1.0.69 -#8 9.246 Compiling strum_macros v0.26.4 -#8 9.326 Compiling thiserror-impl v2.0.17 -#8 9.338 Compiling darling_macro v0.20.11 -#8 9.507 Compiling fastrand v2.3.0 -#8 9.611 Compiling cassowary v0.3.0 -#8 9.629 Compiling tree_magic_mini v3.2.0 -#8 9.732 Compiling tempfile v3.23.0 -#8 9.740 Compiling anstream v0.6.21 -#8 9.829 Compiling gethostname v1.1.0 -#8 9.866 Compiling terminal_size v0.4.3 -#8 9.941 Compiling wayland-protocols v0.32.9 -#8 10.07 Compiling darling v0.20.11 -#8 10.22 Compiling os_pipe v1.2.3 -#8 10.30 Compiling filedescriptor v0.8.3 -#8 10.30 Compiling fast-float2 v0.2.3 -#8 10.34 Compiling clap_lex v0.7.6 -#8 10.36 Compiling simdutf8 v0.1.5 -#8 10.48 Compiling crossterm v0.28.1 -#8 10.48 Compiling x11rb-protocol v0.13.2 -#8 10.61 Compiling qsv-dateparser v0.13.0 -#8 10.66 Compiling clap_derive v4.5.49 -#8 10.70 Compiling tabwriter v1.4.1 -#8 10.86 Compiling clap_builder v4.5.51 -#8 10.99 Compiling strum v0.26.3 -#8 11.04 Compiling terminal-trx v0.2.5 -#8 11.08 Compiling ratatui v0.29.0 -#8 11.11 Compiling bytecount v0.6.9 -#8 11.26 Compiling xterm-color v1.0.1 -#8 11.30 Compiling percent-encoding v2.3.2 -#8 11.40 Compiling terminal-colorsaurus v1.0.1 -#8 11.49 Compiling qsv-sniffer v0.11.0 -#8 11.53 Compiling sorted-vec v0.8.10 -#8 11.82 Compiling half v2.7.1 -#8 12.15 Compiling arrow-buffer v56.2.0 -#8 12.61 Compiling arrow-data v56.2.0 -#8 13.33 Compiling arrow-array v56.2.0 -#8 13.48 Compiling wayland-protocols-wlr v0.3.9 -#8 13.51 Compiling x11rb v0.13.2 -#8 13.63 Compiling clap v4.5.51 -#8 13.69 Compiling ansi-to-tui v7.0.0 -#8 13.78 Compiling tui-input v0.13.0 -#8 14.61 Compiling wl-clipboard-rs v0.9.2 -#8 14.97 Compiling arboard v3.6.1 -#8 15.83 Compiling arrow-select v56.2.0 -#8 16.10 Compiling arrow-arith v56.2.0 -#8 16.47 Compiling arrow-row v56.2.0 -#8 18.01 Compiling arrow-cast v56.2.0 -#8 18.02 Compiling arrow-ord v56.2.0 -#8 18.06 Compiling arrow-string v56.2.0 -#8 21.54 Compiling arrow-csv v56.2.0 -#8 24.04 Compiling arrow v56.2.0 -#8 24.17 Compiling csvlens v0.14.0 -#8 40.54 Finished `release` profile [optimized] target(s) in 40.41s -#8 40.58 Installing /home/jovyan/.cargo/bin/csvlens -#8 40.58 Installed package `csvlens v0.14.0` (executable `csvlens`) -#8 DONE 41.0s +#6 [rust-builder 2/6] RUN apt-get update && apt-get install -y curl build-essential zlib1g-dev unzip && apt-get clean && rm -rf /var/lib/apt/lists/* +#6 10.03 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) +#6 10.03 Preparing to unpack .../libc6_2.35-0ubuntu3.11_arm64.deb ... +#6 10.10 Unpacking libc6:arm64 (2.35-0ubuntu3.11) over (2.35-0ubuntu3.4) ... +#6 10.26 Setting up libc6:arm64 (2.35-0ubuntu3.11) ... +#6 11.43 Selecting previously unselected package liblocale-gettext-perl. +#6 11.43 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) +#6 11.43 Preparing to unpack .../0-liblocale-gettext-perl_1.07-4build3_arm64.deb ... +#6 11.44 Unpacking liblocale-gettext-perl (1.07-4build3) ... +#6 11.46 Selecting previously unselected package perl-modules-5.34. +#6 11.46 Preparing to unpack .../1-perl-modules-5.34_5.34.0-3ubuntu1.5_all.deb ... +#6 11.47 Unpacking perl-modules-5.34 (5.34.0-3ubuntu1.5) ... +#6 11.61 Selecting previously unselected package libgdbm6:arm64. +#6 11.61 Preparing to unpack .../2-libgdbm6_1.23-1_arm64.deb ... +#6 11.62 Unpacking libgdbm6:arm64 (1.23-1) ... +#6 11.64 Selecting previously unselected package libgdbm-compat4:arm64. +#6 11.64 Preparing to unpack .../3-libgdbm-compat4_1.23-1_arm64.deb ... +#6 11.64 Unpacking libgdbm-compat4:arm64 (1.23-1) ... +#6 11.73 Selecting previously unselected package libperl5.34:arm64. +#6 11.73 Preparing to unpack .../4-libperl5.34_5.34.0-3ubuntu1.5_arm64.deb ... +#6 11.75 Unpacking libperl5.34:arm64 (5.34.0-3ubuntu1.5) ... +#6 11.90 Selecting previously unselected package perl. +#6 11.90 Preparing to unpack .../5-perl_5.34.0-3ubuntu1.5_arm64.deb ... +#6 11.91 Unpacking perl (5.34.0-3ubuntu1.5) ... +#6 12.02 Preparing to unpack .../6-gpgv_2.2.27-3ubuntu2.4_arm64.deb ... +#6 12.03 Unpacking gpgv (2.2.27-3ubuntu2.4) over (2.2.27-3ubuntu2.1) ... +#6 12.14 Setting up gpgv (2.2.27-3ubuntu2.4) ... +#6 12.24 Selecting previously unselected package libmd0:arm64. +#6 12.24 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 7866 files and directories currently installed.) +#6 12.24 Preparing to unpack .../000-libmd0_1.0.4-1build1_arm64.deb ... +#6 12.24 Unpacking libmd0:arm64 (1.0.4-1build1) ... +#6 12.32 Selecting previously unselected package libbsd0:arm64. +#6 12.32 Preparing to unpack .../001-libbsd0_0.11.5-1_arm64.deb ... +#6 12.35 Unpacking libbsd0:arm64 (0.11.5-1) ... +#6 12.37 Selecting previously unselected package libexpat1:arm64. +#6 12.38 Preparing to unpack .../002-libexpat1_2.4.7-1ubuntu0.6_arm64.deb ... +#6 12.40 Unpacking libexpat1:arm64 (2.4.7-1ubuntu0.6) ... +#6 12.48 Selecting previously unselected package readline-common. +#6 12.48 Preparing to unpack .../003-readline-common_8.1.2-1_all.deb ... +#6 12.48 Unpacking readline-common (8.1.2-1) ... +#6 12.57 Selecting previously unselected package libreadline8:arm64. +#6 12.57 Preparing to unpack .../004-libreadline8_8.1.2-1_arm64.deb ... +#6 12.57 Unpacking libreadline8:arm64 (8.1.2-1) ... +#6 12.60 Selecting previously unselected package libsqlite3-0:arm64. +#6 12.60 Preparing to unpack .../005-libsqlite3-0_3.37.2-2ubuntu0.5_arm64.deb ... +#6 12.60 Unpacking libsqlite3-0:arm64 (3.37.2-2ubuntu0.5) ... +#6 12.70 Selecting previously unselected package netbase. +#6 12.70 Preparing to unpack .../006-netbase_6.3_all.deb ... +#6 12.70 Unpacking netbase (6.3) ... +#6 12.80 Selecting previously unselected package ucf. +#6 12.80 Preparing to unpack .../007-ucf_3.0043_all.deb ... +#6 12.81 Moving old data out of the way +#6 12.81 Unpacking ucf (3.0043) ... +#6 12.90 Selecting previously unselected package libnghttp2-14:arm64. +#6 12.90 Preparing to unpack .../008-libnghttp2-14_1.43.0-1ubuntu0.2_arm64.deb ... +#6 12.91 Unpacking libnghttp2-14:arm64 (1.43.0-1ubuntu0.2) ... +#6 12.93 Selecting previously unselected package libpng16-16:arm64. +#6 12.94 Preparing to unpack .../009-libpng16-16_1.6.37-3build5_arm64.deb ... +#6 12.94 Unpacking libpng16-16:arm64 (1.6.37-3build5) ... +#6 13.03 Selecting previously unselected package libxau6:arm64. +#6 13.04 Preparing to unpack .../010-libxau6_1%3a1.0.9-1build5_arm64.deb ... +#6 13.04 Unpacking libxau6:arm64 (1:1.0.9-1build5) ... +#6 13.12 Selecting previously unselected package libxdmcp6:arm64. +#6 13.12 Preparing to unpack .../011-libxdmcp6_1%3a1.1.3-0ubuntu5_arm64.deb ... +#6 13.13 Unpacking libxdmcp6:arm64 (1:1.1.3-0ubuntu5) ... +#6 13.16 Selecting previously unselected package libxcb1:arm64. +#6 13.16 Preparing to unpack .../012-libxcb1_1.14-3ubuntu3_arm64.deb ... +#6 13.17 Unpacking libxcb1:arm64 (1.14-3ubuntu3) ... +#6 13.22 Selecting previously unselected package libx11-data. +#6 13.22 Preparing to unpack .../013-libx11-data_2%3a1.7.5-1ubuntu0.3_all.deb ... +#6 13.24 Unpacking libx11-data (2:1.7.5-1ubuntu0.3) ... +#6 13.28 Selecting previously unselected package libx11-6:arm64. +#6 13.28 Preparing to unpack .../014-libx11-6_2%3a1.7.5-1ubuntu0.3_arm64.deb ... +#6 13.29 Unpacking libx11-6:arm64 (2:1.7.5-1ubuntu0.3) ... +#6 13.32 Selecting previously unselected package manpages. +#6 13.32 Preparing to unpack .../015-manpages_5.10-1ubuntu1_all.deb ... +#6 13.32 Unpacking manpages (5.10-1ubuntu1) ... +#6 13.40 Selecting previously unselected package xz-utils. +#6 13.40 Preparing to unpack .../016-xz-utils_5.2.5-2ubuntu1_arm64.deb ... +#6 13.40 Unpacking xz-utils (5.2.5-2ubuntu1) ... +#6 13.48 Selecting previously unselected package binutils-common:arm64. +#6 13.48 Preparing to unpack .../017-binutils-common_2.38-4ubuntu2.10_arm64.deb ... +#6 13.50 Unpacking binutils-common:arm64 (2.38-4ubuntu2.10) ... +#6 13.53 Selecting previously unselected package libbinutils:arm64. +#6 13.53 Preparing to unpack .../018-libbinutils_2.38-4ubuntu2.10_arm64.deb ... +#6 13.55 Unpacking libbinutils:arm64 (2.38-4ubuntu2.10) ... +#6 13.62 Selecting previously unselected package libctf-nobfd0:arm64. +#6 13.62 Preparing to unpack .../019-libctf-nobfd0_2.38-4ubuntu2.10_arm64.deb ... +#6 13.62 Unpacking libctf-nobfd0:arm64 (2.38-4ubuntu2.10) ... +#6 13.71 Selecting previously unselected package libctf0:arm64. +#6 13.71 Preparing to unpack .../020-libctf0_2.38-4ubuntu2.10_arm64.deb ... +#6 13.71 Unpacking libctf0:arm64 (2.38-4ubuntu2.10) ... +#6 13.73 Selecting previously unselected package binutils-aarch64-linux-gnu. +#6 13.74 Preparing to unpack .../021-binutils-aarch64-linux-gnu_2.38-4ubuntu2.10_arm64.deb ... +#6 13.74 Unpacking binutils-aarch64-linux-gnu (2.38-4ubuntu2.10) ... +#6 13.82 Selecting previously unselected package binutils. +#6 13.82 Preparing to unpack .../022-binutils_2.38-4ubuntu2.10_arm64.deb ... +#6 13.83 Unpacking binutils (2.38-4ubuntu2.10) ... +#6 13.84 Selecting previously unselected package libc-dev-bin. +#6 13.84 Preparing to unpack .../023-libc-dev-bin_2.35-0ubuntu3.11_arm64.deb ... +#6 13.85 Unpacking libc-dev-bin (2.35-0ubuntu3.11) ... +#6 13.86 Selecting previously unselected package linux-libc-dev:arm64. +#6 13.86 Preparing to unpack .../024-linux-libc-dev_5.15.0-161.171_arm64.deb ... +#6 13.87 Unpacking linux-libc-dev:arm64 (5.15.0-161.171) ... +#6 14.00 Selecting previously unselected package libcrypt-dev:arm64. +#6 14.00 Preparing to unpack .../025-libcrypt-dev_1%3a4.4.27-1_arm64.deb ... +#6 14.00 Unpacking libcrypt-dev:arm64 (1:4.4.27-1) ... +#6 14.03 Selecting previously unselected package rpcsvc-proto. +#6 14.03 Preparing to unpack .../026-rpcsvc-proto_1.4.2-0ubuntu6_arm64.deb ... +#6 14.05 Unpacking rpcsvc-proto (1.4.2-0ubuntu6) ... +#6 14.11 Selecting previously unselected package libtirpc-dev:arm64. +#6 14.11 Preparing to unpack .../027-libtirpc-dev_1.3.2-2ubuntu0.1_arm64.deb ... +#6 14.12 Unpacking libtirpc-dev:arm64 (1.3.2-2ubuntu0.1) ... +#6 14.21 Selecting previously unselected package libnsl-dev:arm64. +#6 14.21 Preparing to unpack .../028-libnsl-dev_1.3.0-2build2_arm64.deb ... +#6 14.21 Unpacking libnsl-dev:arm64 (1.3.0-2build2) ... +#6 14.25 Selecting previously unselected package libc6-dev:arm64. +#6 14.25 Preparing to unpack .../029-libc6-dev_2.35-0ubuntu3.11_arm64.deb ... +#6 14.25 Unpacking libc6-dev:arm64 (2.35-0ubuntu3.11) ... +#6 14.34 Selecting previously unselected package gcc-11-base:arm64. +#6 14.34 Preparing to unpack .../030-gcc-11-base_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#6 14.34 Unpacking gcc-11-base:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#6 14.37 Selecting previously unselected package libisl23:arm64. +#6 14.37 Preparing to unpack .../031-libisl23_0.24-2build1_arm64.deb ... +#6 14.37 Unpacking libisl23:arm64 (0.24-2build1) ... +#6 14.48 Selecting previously unselected package libmpfr6:arm64. +#6 14.48 Preparing to unpack .../032-libmpfr6_4.1.0-3build3_arm64.deb ... +#6 14.48 Unpacking libmpfr6:arm64 (4.1.0-3build3) ... +#6 14.51 Selecting previously unselected package libmpc3:arm64. +#6 14.51 Preparing to unpack .../033-libmpc3_1.2.1-2build1_arm64.deb ... +#6 14.52 Unpacking libmpc3:arm64 (1.2.1-2build1) ... +#6 14.59 Selecting previously unselected package cpp-11. +#6 14.60 Preparing to unpack .../034-cpp-11_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#6 14.60 Unpacking cpp-11 (11.4.0-1ubuntu1~22.04.2) ... +#6 14.73 Selecting previously unselected package cpp. +#6 14.73 Preparing to unpack .../035-cpp_4%3a11.2.0-1ubuntu1_arm64.deb ... +#6 14.73 Unpacking cpp (4:11.2.0-1ubuntu1) ... +#6 14.76 Selecting previously unselected package libcc1-0:arm64. +#6 14.76 Preparing to unpack .../036-libcc1-0_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#6 14.76 Unpacking libcc1-0:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#6 14.79 Selecting previously unselected package libgomp1:arm64. +#6 14.79 Preparing to unpack .../037-libgomp1_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#6 14.79 Unpacking libgomp1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#6 14.81 Selecting previously unselected package libitm1:arm64. +#6 14.81 Preparing to unpack .../038-libitm1_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#6 14.82 Unpacking libitm1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#6 14.93 Selecting previously unselected package libatomic1:arm64. +#6 14.93 Preparing to unpack .../039-libatomic1_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#6 14.93 Unpacking libatomic1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#6 15.01 Selecting previously unselected package libasan6:arm64. +#6 15.01 Preparing to unpack .../040-libasan6_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#6 15.01 Unpacking libasan6:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#6 15.06 Selecting previously unselected package liblsan0:arm64. +#6 15.06 Preparing to unpack .../041-liblsan0_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#6 15.06 Unpacking liblsan0:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#6 15.14 Selecting previously unselected package libtsan0:arm64. +#6 15.14 Preparing to unpack .../042-libtsan0_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#6 15.14 Unpacking libtsan0:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#6 15.19 Selecting previously unselected package libubsan1:arm64. +#6 15.19 Preparing to unpack .../043-libubsan1_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#6 15.19 Unpacking libubsan1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#6 15.22 Selecting previously unselected package libhwasan0:arm64. +#6 15.22 Preparing to unpack .../044-libhwasan0_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#6 15.22 Unpacking libhwasan0:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#6 15.25 Selecting previously unselected package libgcc-11-dev:arm64. +#6 15.25 Preparing to unpack .../045-libgcc-11-dev_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#6 15.25 Unpacking libgcc-11-dev:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#6 15.30 Selecting previously unselected package gcc-11. +#6 15.30 Preparing to unpack .../046-gcc-11_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#6 15.30 Unpacking gcc-11 (11.4.0-1ubuntu1~22.04.2) ... +#6 15.52 Selecting previously unselected package gcc. +#6 15.52 Preparing to unpack .../047-gcc_4%3a11.2.0-1ubuntu1_arm64.deb ... +#6 15.53 Unpacking gcc (4:11.2.0-1ubuntu1) ... +#6 15.56 Selecting previously unselected package libstdc++-11-dev:arm64. +#6 15.56 Preparing to unpack .../048-libstdc++-11-dev_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#6 15.58 Unpacking libstdc++-11-dev:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#6 15.69 Selecting previously unselected package g++-11. +#6 15.69 Preparing to unpack .../049-g++-11_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#6 15.69 Unpacking g++-11 (11.4.0-1ubuntu1~22.04.2) ... +#6 15.86 Selecting previously unselected package g++. +#6 15.86 Preparing to unpack .../050-g++_4%3a11.2.0-1ubuntu1_arm64.deb ... +#6 15.89 Unpacking g++ (4:11.2.0-1ubuntu1) ... +#6 15.93 Selecting previously unselected package make. +#6 15.93 Preparing to unpack .../051-make_4.3-4.1build1_arm64.deb ... +#6 15.93 Unpacking make (4.3-4.1build1) ... +#6 15.95 Selecting previously unselected package libdpkg-perl. +#6 15.95 Preparing to unpack .../052-libdpkg-perl_1.21.1ubuntu2.6_all.deb ... +#6 15.96 Unpacking libdpkg-perl (1.21.1ubuntu2.6) ... +#6 16.02 Selecting previously unselected package patch. +#6 16.02 Preparing to unpack .../053-patch_2.7.6-7build2_arm64.deb ... +#6 16.02 Unpacking patch (2.7.6-7build2) ... +#6 16.04 Selecting previously unselected package lto-disabled-list. +#6 16.04 Preparing to unpack .../054-lto-disabled-list_24_all.deb ... +#6 16.04 Unpacking lto-disabled-list (24) ... +#6 16.06 Selecting previously unselected package dpkg-dev. +#6 16.06 Preparing to unpack .../055-dpkg-dev_1.21.1ubuntu2.6_all.deb ... +#6 16.06 Unpacking dpkg-dev (1.21.1ubuntu2.6) ... +#6 16.13 Selecting previously unselected package build-essential. +#6 16.13 Preparing to unpack .../056-build-essential_12.9ubuntu3_arm64.deb ... +#6 16.13 Unpacking build-essential (12.9ubuntu3) ... +#6 16.15 Selecting previously unselected package libbrotli1:arm64. +#6 16.15 Preparing to unpack .../057-libbrotli1_1.0.9-2build6_arm64.deb ... +#6 16.15 Unpacking libbrotli1:arm64 (1.0.9-2build6) ... +#6 16.17 Selecting previously unselected package libsasl2-modules-db:arm64. +#6 16.17 Preparing to unpack .../058-libsasl2-modules-db_2.1.27+dfsg2-3ubuntu1.2_arm64.deb ... +#6 16.17 Unpacking libsasl2-modules-db:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... +#6 16.19 Selecting previously unselected package libsasl2-2:arm64. +#6 16.19 Preparing to unpack .../059-libsasl2-2_2.1.27+dfsg2-3ubuntu1.2_arm64.deb ... +#6 16.19 Unpacking libsasl2-2:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... +#6 16.21 Selecting previously unselected package libldap-2.5-0:arm64. +#6 16.21 Preparing to unpack .../060-libldap-2.5-0_2.5.19+dfsg-0ubuntu0.22.04.1_arm64.deb ... +#6 16.21 Unpacking libldap-2.5-0:arm64 (2.5.19+dfsg-0ubuntu0.22.04.1) ... +#6 16.23 Selecting previously unselected package librtmp1:arm64. +#6 16.23 Preparing to unpack .../061-librtmp1_2.4+20151223.gitfa8646d.1-2build4_arm64.deb ... +#6 16.23 Unpacking librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2build4) ... +#6 16.25 Selecting previously unselected package libssh-4:arm64. +#6 16.25 Preparing to unpack .../062-libssh-4_0.9.6-2ubuntu0.22.04.5_arm64.deb ... +#6 16.25 Unpacking libssh-4:arm64 (0.9.6-2ubuntu0.22.04.5) ... +#6 16.27 Selecting previously unselected package libcurl4:arm64. +#6 16.27 Preparing to unpack .../063-libcurl4_7.81.0-1ubuntu1.21_arm64.deb ... +#6 16.27 Unpacking libcurl4:arm64 (7.81.0-1ubuntu1.21) ... +#6 16.32 Selecting previously unselected package curl. +#6 16.33 Preparing to unpack .../064-curl_7.81.0-1ubuntu1.21_arm64.deb ... +#6 16.34 Unpacking curl (7.81.0-1ubuntu1.21) ... +#6 16.36 Selecting previously unselected package libassuan0:arm64. +#6 16.36 Preparing to unpack .../065-libassuan0_2.5.5-1build1_arm64.deb ... +#6 16.36 Unpacking libassuan0:arm64 (2.5.5-1build1) ... +#6 16.43 Selecting previously unselected package gpgconf. +#6 16.43 Preparing to unpack .../066-gpgconf_2.2.27-3ubuntu2.4_arm64.deb ... +#6 16.43 Unpacking gpgconf (2.2.27-3ubuntu2.4) ... +#6 16.45 Selecting previously unselected package libksba8:arm64. +#6 16.45 Preparing to unpack .../067-libksba8_1.6.0-2ubuntu0.2_arm64.deb ... +#6 16.45 Unpacking libksba8:arm64 (1.6.0-2ubuntu0.2) ... +#6 16.48 Selecting previously unselected package libnpth0:arm64. +#6 16.48 Preparing to unpack .../068-libnpth0_1.6-3build2_arm64.deb ... +#6 16.48 Unpacking libnpth0:arm64 (1.6-3build2) ... +#6 16.55 Selecting previously unselected package dirmngr. +#6 16.55 Preparing to unpack .../069-dirmngr_2.2.27-3ubuntu2.4_arm64.deb ... +#6 16.57 Unpacking dirmngr (2.2.27-3ubuntu2.4) ... +#6 16.59 Selecting previously unselected package libfakeroot:arm64. +#6 16.59 Preparing to unpack .../070-libfakeroot_1.28-1ubuntu1_arm64.deb ... +#6 16.59 Unpacking libfakeroot:arm64 (1.28-1ubuntu1) ... +#6 16.61 Selecting previously unselected package fakeroot. +#6 16.61 Preparing to unpack .../071-fakeroot_1.28-1ubuntu1_arm64.deb ... +#6 16.61 Unpacking fakeroot (1.28-1ubuntu1) ... +#6 16.63 Selecting previously unselected package fontconfig-config. +#6 16.63 Preparing to unpack .../072-fontconfig-config_2.13.1-4.2ubuntu5_all.deb ... +#6 16.63 Unpacking fontconfig-config (2.13.1-4.2ubuntu5) ... +#6 16.65 Selecting previously unselected package gnupg-l10n. +#6 16.65 Preparing to unpack .../073-gnupg-l10n_2.2.27-3ubuntu2.4_all.deb ... +#6 16.65 Unpacking gnupg-l10n (2.2.27-3ubuntu2.4) ... +#6 16.67 Selecting previously unselected package gnupg-utils. +#6 16.67 Preparing to unpack .../074-gnupg-utils_2.2.27-3ubuntu2.4_arm64.deb ... +#6 16.67 Unpacking gnupg-utils (2.2.27-3ubuntu2.4) ... +#6 16.68 Selecting previously unselected package gpg. +#6 16.68 Preparing to unpack .../075-gpg_2.2.27-3ubuntu2.4_arm64.deb ... +#6 16.69 Unpacking gpg (2.2.27-3ubuntu2.4) ... +#6 16.71 Selecting previously unselected package pinentry-curses. +#6 16.71 Preparing to unpack .../076-pinentry-curses_1.1.1-1build2_arm64.deb ... +#6 16.71 Unpacking pinentry-curses (1.1.1-1build2) ... +#6 16.73 Selecting previously unselected package gpg-agent. +#6 16.73 Preparing to unpack .../077-gpg-agent_2.2.27-3ubuntu2.4_arm64.deb ... +#6 16.73 Unpacking gpg-agent (2.2.27-3ubuntu2.4) ... +#6 16.75 Selecting previously unselected package gpg-wks-client. +#6 16.75 Preparing to unpack .../078-gpg-wks-client_2.2.27-3ubuntu2.4_arm64.deb ... +#6 16.76 Unpacking gpg-wks-client (2.2.27-3ubuntu2.4) ... +#6 16.81 Selecting previously unselected package gpg-wks-server. +#6 16.81 Preparing to unpack .../079-gpg-wks-server_2.2.27-3ubuntu2.4_arm64.deb ... +#6 16.81 Unpacking gpg-wks-server (2.2.27-3ubuntu2.4) ... +#6 16.85 Selecting previously unselected package gpgsm. +#6 16.85 Preparing to unpack .../080-gpgsm_2.2.27-3ubuntu2.4_arm64.deb ... +#6 16.87 Unpacking gpgsm (2.2.27-3ubuntu2.4) ... +#6 16.91 Selecting previously unselected package gnupg. +#6 16.91 Preparing to unpack .../081-gnupg_2.2.27-3ubuntu2.4_all.deb ... +#6 16.91 Unpacking gnupg (2.2.27-3ubuntu2.4) ... +#6 16.94 Selecting previously unselected package libalgorithm-diff-perl. +#6 16.94 Preparing to unpack .../082-libalgorithm-diff-perl_1.201-1_all.deb ... +#6 16.96 Unpacking libalgorithm-diff-perl (1.201-1) ... +#6 17.02 Selecting previously unselected package libalgorithm-diff-xs-perl. +#6 17.02 Preparing to unpack .../083-libalgorithm-diff-xs-perl_0.04-6build3_arm64.deb ... +#6 17.02 Unpacking libalgorithm-diff-xs-perl (0.04-6build3) ... +#6 17.06 Selecting previously unselected package libalgorithm-merge-perl. +#6 17.06 Preparing to unpack .../084-libalgorithm-merge-perl_0.08-3_all.deb ... +#6 17.08 Unpacking libalgorithm-merge-perl (0.08-3) ... +#6 17.11 Selecting previously unselected package libfreetype6:arm64. +#6 17.11 Preparing to unpack .../085-libfreetype6_2.11.1+dfsg-1ubuntu0.3_arm64.deb ... +#6 17.11 Unpacking libfreetype6:arm64 (2.11.1+dfsg-1ubuntu0.3) ... +#6 17.14 Selecting previously unselected package libfontconfig1:arm64. +#6 17.14 Preparing to unpack .../086-libfontconfig1_2.13.1-4.2ubuntu5_arm64.deb ... +#6 17.14 Unpacking libfontconfig1:arm64 (2.13.1-4.2ubuntu5) ... +#6 17.16 Selecting previously unselected package libjpeg-turbo8:arm64. +#6 17.16 Preparing to unpack .../087-libjpeg-turbo8_2.1.2-0ubuntu1_arm64.deb ... +#6 17.16 Unpacking libjpeg-turbo8:arm64 (2.1.2-0ubuntu1) ... +#6 17.23 Selecting previously unselected package libjpeg8:arm64. +#6 17.23 Preparing to unpack .../088-libjpeg8_8c-2ubuntu10_arm64.deb ... +#6 17.23 Unpacking libjpeg8:arm64 (8c-2ubuntu10) ... +#6 17.25 Selecting previously unselected package libdeflate0:arm64. +#6 17.25 Preparing to unpack .../089-libdeflate0_1.10-2_arm64.deb ... +#6 17.25 Unpacking libdeflate0:arm64 (1.10-2) ... +#6 17.27 Selecting previously unselected package libjbig0:arm64. +#6 17.27 Preparing to unpack .../090-libjbig0_2.1-3.1ubuntu0.22.04.1_arm64.deb ... +#6 17.28 Unpacking libjbig0:arm64 (2.1-3.1ubuntu0.22.04.1) ... +#6 17.34 Selecting previously unselected package libwebp7:arm64. +#6 17.34 Preparing to unpack .../091-libwebp7_1.2.2-2ubuntu0.22.04.2_arm64.deb ... +#6 17.34 Unpacking libwebp7:arm64 (1.2.2-2ubuntu0.22.04.2) ... +#6 17.39 Selecting previously unselected package libtiff5:arm64. +#6 17.40 Preparing to unpack .../092-libtiff5_4.3.0-6ubuntu0.12_arm64.deb ... +#6 17.41 Unpacking libtiff5:arm64 (4.3.0-6ubuntu0.12) ... +#6 17.43 Selecting previously unselected package libxpm4:arm64. +#6 17.43 Preparing to unpack .../093-libxpm4_1%3a3.5.12-1ubuntu0.22.04.2_arm64.deb ... +#6 17.43 Unpacking libxpm4:arm64 (1:3.5.12-1ubuntu0.22.04.2) ... +#6 17.45 Selecting previously unselected package libgd3:arm64. +#6 17.45 Preparing to unpack .../094-libgd3_2.3.0-2ubuntu2.3_arm64.deb ... +#6 17.45 Unpacking libgd3:arm64 (2.3.0-2ubuntu2.3) ... +#6 17.47 Selecting previously unselected package libc-devtools. +#6 17.47 Preparing to unpack .../095-libc-devtools_2.35-0ubuntu3.11_arm64.deb ... +#6 17.47 Unpacking libc-devtools (2.35-0ubuntu3.11) ... +#6 17.54 Selecting previously unselected package libfile-fcntllock-perl. +#6 17.54 Preparing to unpack .../096-libfile-fcntllock-perl_0.22-3build7_arm64.deb ... +#6 17.55 Unpacking libfile-fcntllock-perl (0.22-3build7) ... +#6 17.57 Selecting previously unselected package libldap-common. +#6 17.57 Preparing to unpack .../097-libldap-common_2.5.19+dfsg-0ubuntu0.22.04.1_all.deb ... +#6 17.57 Unpacking libldap-common (2.5.19+dfsg-0ubuntu0.22.04.1) ... +#6 17.64 Selecting previously unselected package libsasl2-modules:arm64. +#6 17.64 Preparing to unpack .../098-libsasl2-modules_2.1.27+dfsg2-3ubuntu1.2_arm64.deb ... +#6 17.64 Unpacking libsasl2-modules:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... +#6 17.66 Selecting previously unselected package manpages-dev. +#6 17.66 Preparing to unpack .../099-manpages-dev_5.10-1ubuntu1_all.deb ... +#6 17.66 Unpacking manpages-dev (5.10-1ubuntu1) ... +#6 17.85 Selecting previously unselected package unzip. +#6 17.85 Preparing to unpack .../100-unzip_6.0-26ubuntu3.2_arm64.deb ... +#6 17.86 Unpacking unzip (6.0-26ubuntu3.2) ... +#6 17.87 Selecting previously unselected package zlib1g-dev:arm64. +#6 17.87 Preparing to unpack .../101-zlib1g-dev_1%3a1.2.11.dfsg-2ubuntu9.2_arm64.deb ... +#6 17.88 Unpacking zlib1g-dev:arm64 (1:1.2.11.dfsg-2ubuntu9.2) ... +#6 17.90 Setting up libksba8:arm64 (1.6.0-2ubuntu0.2) ... +#6 17.91 Setting up libexpat1:arm64 (2.4.7-1ubuntu0.6) ... +#6 17.93 Setting up gcc-11-base:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#6 17.97 Setting up libxau6:arm64 (1:1.0.9-1build5) ... +#6 17.97 Setting up lto-disabled-list (24) ... +#6 17.98 Setting up manpages (5.10-1ubuntu1) ... +#6 17.99 Setting up unzip (6.0-26ubuntu3.2) ... +#6 18.00 Setting up libbrotli1:arm64 (1.0.9-2build6) ... +#6 18.00 Setting up libsqlite3-0:arm64 (3.37.2-2ubuntu0.5) ... +#6 18.01 Setting up libsasl2-modules:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... +#6 18.03 Setting up binutils-common:arm64 (2.38-4ubuntu2.10) ... +#6 18.08 Setting up libnghttp2-14:arm64 (1.43.0-1ubuntu0.2) ... +#6 18.09 Setting up libdeflate0:arm64 (1.10-2) ... +#6 18.09 Setting up linux-libc-dev:arm64 (5.15.0-161.171) ... +#6 18.10 Setting up libctf-nobfd0:arm64 (2.38-4ubuntu2.10) ... +#6 18.11 Setting up libnpth0:arm64 (1.6-3build2) ... +#6 18.11 Setting up libassuan0:arm64 (2.5.5-1build1) ... +#6 18.12 Setting up libgomp1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#6 18.12 Setting up perl-modules-5.34 (5.34.0-3ubuntu1.5) ... +#6 18.13 Setting up libldap-common (2.5.19+dfsg-0ubuntu0.22.04.1) ... +#6 18.14 Setting up libjbig0:arm64 (2.1-3.1ubuntu0.22.04.1) ... +#6 18.15 Setting up libfakeroot:arm64 (1.28-1ubuntu1) ... +#6 18.16 Setting up libasan6:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#6 18.16 Setting up libsasl2-modules-db:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... +#6 18.17 Setting up fakeroot (1.28-1ubuntu1) ... +#6 18.17 update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode +#6 18.17 update-alternatives: warning: skip creation of /usr/share/man/man1/fakeroot.1.gz because associated file /usr/share/man/man1/fakeroot-sysv.1.gz (of link group fakeroot) doesn't exist +#6 18.17 update-alternatives: warning: skip creation of /usr/share/man/man1/faked.1.gz because associated file /usr/share/man/man1/faked-sysv.1.gz (of link group fakeroot) doesn't exist +#6 18.17 update-alternatives: warning: skip creation of /usr/share/man/es/man1/fakeroot.1.gz because associated file /usr/share/man/es/man1/fakeroot-sysv.1.gz (of link group fakeroot) doesn't exist +#6 18.17 update-alternatives: warning: skip creation of /usr/share/man/es/man1/faked.1.gz because associated file /usr/share/man/es/man1/faked-sysv.1.gz (of link group fakeroot) doesn't exist +#6 18.17 update-alternatives: warning: skip creation of /usr/share/man/fr/man1/fakeroot.1.gz because associated file /usr/share/man/fr/man1/fakeroot-sysv.1.gz (of link group fakeroot) doesn't exist +#6 18.17 update-alternatives: warning: skip creation of /usr/share/man/fr/man1/faked.1.gz because associated file /usr/share/man/fr/man1/faked-sysv.1.gz (of link group fakeroot) doesn't exist +#6 18.17 update-alternatives: warning: skip creation of /usr/share/man/sv/man1/fakeroot.1.gz because associated file /usr/share/man/sv/man1/fakeroot-sysv.1.gz (of link group fakeroot) doesn't exist +#6 18.17 update-alternatives: warning: skip creation of /usr/share/man/sv/man1/faked.1.gz because associated file /usr/share/man/sv/man1/faked-sysv.1.gz (of link group fakeroot) doesn't exist +#6 18.18 Setting up libtirpc-dev:arm64 (1.3.2-2ubuntu0.1) ... +#6 18.19 Setting up rpcsvc-proto (1.4.2-0ubuntu6) ... +#6 18.20 Setting up libx11-data (2:1.7.5-1ubuntu0.3) ... +#6 18.20 Setting up make (4.3-4.1build1) ... +#6 18.21 Setting up libmpfr6:arm64 (4.1.0-3build3) ... +#6 18.22 Setting up gnupg-l10n (2.2.27-3ubuntu2.4) ... +#6 18.22 Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2build4) ... +#6 18.23 Setting up xz-utils (5.2.5-2ubuntu1) ... +#6 18.24 update-alternatives: using /usr/bin/xz to provide /usr/bin/lzma (lzma) in auto mode +#6 18.24 update-alternatives: warning: skip creation of /usr/share/man/man1/lzma.1.gz because associated file /usr/share/man/man1/xz.1.gz (of link group lzma) doesn't exist +#6 18.24 update-alternatives: warning: skip creation of /usr/share/man/man1/unlzma.1.gz because associated file /usr/share/man/man1/unxz.1.gz (of link group lzma) doesn't exist +#6 18.24 update-alternatives: warning: skip creation of /usr/share/man/man1/lzcat.1.gz because associated file /usr/share/man/man1/xzcat.1.gz (of link group lzma) doesn't exist +#6 18.24 update-alternatives: warning: skip creation of /usr/share/man/man1/lzmore.1.gz because associated file /usr/share/man/man1/xzmore.1.gz (of link group lzma) doesn't exist +#6 18.24 update-alternatives: warning: skip creation of /usr/share/man/man1/lzless.1.gz because associated file /usr/share/man/man1/xzless.1.gz (of link group lzma) doesn't exist +#6 18.24 update-alternatives: warning: skip creation of /usr/share/man/man1/lzdiff.1.gz because associated file /usr/share/man/man1/xzdiff.1.gz (of link group lzma) doesn't exist +#6 18.24 update-alternatives: warning: skip creation of /usr/share/man/man1/lzcmp.1.gz because associated file /usr/share/man/man1/xzcmp.1.gz (of link group lzma) doesn't exist +#6 18.24 update-alternatives: warning: skip creation of /usr/share/man/man1/lzgrep.1.gz because associated file /usr/share/man/man1/xzgrep.1.gz (of link group lzma) doesn't exist +#6 18.24 update-alternatives: warning: skip creation of /usr/share/man/man1/lzegrep.1.gz because associated file /usr/share/man/man1/xzegrep.1.gz (of link group lzma) doesn't exist +#6 18.24 update-alternatives: warning: skip creation of /usr/share/man/man1/lzfgrep.1.gz because associated file /usr/share/man/man1/xzfgrep.1.gz (of link group lzma) doesn't exist +#6 18.24 Setting up libpng16-16:arm64 (1.6.37-3build5) ... +#6 18.28 Setting up libmpc3:arm64 (1.2.1-2build1) ... +#6 18.30 Setting up libatomic1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#6 18.31 Setting up patch (2.7.6-7build2) ... +#6 18.31 Setting up ucf (3.0043) ... +#6 18.38 Setting up libjpeg-turbo8:arm64 (2.1.2-0ubuntu1) ... +#6 18.39 Setting up libsasl2-2:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... +#6 18.40 Setting up libssh-4:arm64 (0.9.6-2ubuntu0.22.04.5) ... +#6 18.40 Setting up libwebp7:arm64 (1.2.2-2ubuntu0.22.04.2) ... +#6 18.41 Setting up libubsan1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#6 18.42 Setting up libmd0:arm64 (1.0.4-1build1) ... +#6 18.43 Setting up libnsl-dev:arm64 (1.3.0-2build2) ... +#6 18.43 Setting up libhwasan0:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#6 18.44 Setting up libcrypt-dev:arm64 (1:4.4.27-1) ... +#6 18.45 Setting up netbase (6.3) ... +#6 18.54 Setting up libbinutils:arm64 (2.38-4ubuntu2.10) ... +#6 18.58 Setting up libisl23:arm64 (0.24-2build1) ... +#6 18.62 Setting up libc-dev-bin (2.35-0ubuntu3.11) ... +#6 18.63 Setting up libbsd0:arm64 (0.11.5-1) ... +#6 18.64 Setting up readline-common (8.1.2-1) ... +#6 18.65 Setting up libcc1-0:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#6 18.66 Setting up liblocale-gettext-perl (1.07-4build3) ... +#6 18.67 Setting up liblsan0:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#6 18.68 Setting up libitm1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#6 18.69 Setting up libgdbm6:arm64 (1.23-1) ... +#6 18.69 Setting up libtsan0:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#6 18.70 Setting up libctf0:arm64 (2.38-4ubuntu2.10) ... +#6 18.71 Setting up libjpeg8:arm64 (8c-2ubuntu10) ... +#6 18.72 Setting up pinentry-curses (1.1.1-1build2) ... +#6 18.72 Setting up cpp-11 (11.4.0-1ubuntu1~22.04.2) ... +#6 18.73 Setting up manpages-dev (5.10-1ubuntu1) ... +#6 18.74 Setting up libxdmcp6:arm64 (1:1.1.3-0ubuntu5) ... +#6 18.74 Setting up libxcb1:arm64 (1.14-3ubuntu3) ... +#6 18.75 Setting up fontconfig-config (2.13.1-4.2ubuntu5) ... +#6 18.91 Setting up libreadline8:arm64 (8.1.2-1) ... +#6 18.95 Setting up binutils-aarch64-linux-gnu (2.38-4ubuntu2.10) ... +#6 18.98 Setting up binutils (2.38-4ubuntu2.10) ... +#6 18.99 Setting up libldap-2.5-0:arm64 (2.5.19+dfsg-0ubuntu0.22.04.1) ... +#6 18.99 Setting up libfreetype6:arm64 (2.11.1+dfsg-1ubuntu0.3) ... +#6 19.00 Setting up libgdbm-compat4:arm64 (1.23-1) ... +#6 19.01 Setting up libgcc-11-dev:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#6 19.02 Setting up gcc-11 (11.4.0-1ubuntu1~22.04.2) ... +#6 19.02 Setting up cpp (4:11.2.0-1ubuntu1) ... +#6 19.03 Setting up gpgconf (2.2.27-3ubuntu2.4) ... +#6 19.04 Setting up libcurl4:arm64 (7.81.0-1ubuntu1.21) ... +#6 19.05 Setting up libc6-dev:arm64 (2.35-0ubuntu3.11) ... +#6 19.08 Setting up libx11-6:arm64 (2:1.7.5-1ubuntu0.3) ... +#6 19.11 Setting up libtiff5:arm64 (4.3.0-6ubuntu0.12) ... +#6 19.12 Setting up curl (7.81.0-1ubuntu1.21) ... +#6 19.13 Setting up libfontconfig1:arm64 (2.13.1-4.2ubuntu5) ... +#6 19.17 Setting up gpg (2.2.27-3ubuntu2.4) ... +#6 19.20 Setting up gnupg-utils (2.2.27-3ubuntu2.4) ... +#6 19.21 Setting up libperl5.34:arm64 (5.34.0-3ubuntu1.5) ... +#6 19.21 Setting up gpg-agent (2.2.27-3ubuntu2.4) ... +#6 19.40 Setting up libxpm4:arm64 (1:3.5.12-1ubuntu0.22.04.2) ... +#6 19.41 Setting up gpgsm (2.2.27-3ubuntu2.4) ... +#6 19.41 Setting up gcc (4:11.2.0-1ubuntu1) ... +#6 19.43 Setting up dirmngr (2.2.27-3ubuntu2.4) ... +#6 19.48 Setting up perl (5.34.0-3ubuntu1.5) ... +#6 19.49 Setting up libgd3:arm64 (2.3.0-2ubuntu2.3) ... +#6 19.50 Setting up libdpkg-perl (1.21.1ubuntu2.6) ... +#6 19.50 Setting up libstdc++-11-dev:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#6 19.51 Setting up gpg-wks-server (2.2.27-3ubuntu2.4) ... +#6 19.51 Setting up zlib1g-dev:arm64 (1:1.2.11.dfsg-2ubuntu9.2) ... +#6 19.52 Setting up libc-devtools (2.35-0ubuntu3.11) ... +#6 19.56 Setting up gpg-wks-client (2.2.27-3ubuntu2.4) ... +#6 19.59 Setting up g++-11 (11.4.0-1ubuntu1~22.04.2) ... +#6 19.60 Setting up libfile-fcntllock-perl (0.22-3build7) ... +#6 19.60 Setting up libalgorithm-diff-perl (1.201-1) ... +#6 19.61 Setting up dpkg-dev (1.21.1ubuntu2.6) ... +#6 19.62 Setting up g++ (4:11.2.0-1ubuntu1) ... +#6 19.63 update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode +#6 19.64 update-alternatives: warning: skip creation of /usr/share/man/man1/c++.1.gz because associated file /usr/share/man/man1/g++.1.gz (of link group c++) doesn't exist +#6 19.67 Setting up gnupg (2.2.27-3ubuntu2.4) ... +#6 19.69 Setting up build-essential (12.9ubuntu3) ... +#6 19.70 Setting up libalgorithm-diff-xs-perl (0.04-6build3) ... +#6 19.71 Setting up libalgorithm-merge-perl (0.08-3) ... +#6 19.71 Processing triggers for libc-bin (2.35-0ubuntu3.4) ... +#6 DONE 20.1s -#9 [rust-builder 5/6] RUN TEMP=. curl -L https://raw.githubusercontent.com/metabarcoding/obitools4/master/install_obitools.sh | bash -s -- --install-dir /home/jovyan/obitools-build && cp /home/jovyan/obitools-build/bin/* /usr/local/bin -#9 0.128 % Total % Received % Xferd Average Speed Time Time Time Current -#9 0.128 Dload Upload Total Spent Left Speed -#9 0.128 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 3569 100 3569 0 0 14480 0 --:--:-- --:--:-- --:--:-- 14449 -#9 0.382 WORK_DIR=obitools4.E8Qdcx -#9 0.382 ~/obitools4.E8Qdcx ~ -#9 0.382 INSTALL_DIR=/home/jovyan/obitools-build -#9 0.382 OBITOOLS_PREFIX= -#9 0.388 % Total % Received % Xferd Average Speed Time Time Time Current -#9 0.388 Dload Upload Total Spent Left Speed -#9 0.388 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 20 2551k 20 533k 0 0 630k 0 0:00:04 --:--:-- 0:00:04 630k 100 2551k 100 2551k 0 0 2092k 0 0:00:01 0:00:01 --:--:-- 2092k -#9 1.613 % Total % Received % Xferd Average Speed Time Time Time Current -#9 1.613 Dload Upload Total Spent Left Speed -#9 1.613 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 75 100 75 0 0 296 0 --:--:-- --:--:-- --:--:-- 297 -#9 1.870 Install GO from : https://dl.google.com/go/go1.25.3.linux-arm64.tar.gz -#9 1.874 % Total % Received % Xferd Average Speed Time Time Time Current -#9 1.875 Dload Upload Total Spent Left Speed -#9 1.875 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 7 54.6M 7 4207k 0 0 11.0M 0 0:00:04 --:--:-- 0:00:04 11.0M 60 54.6M 60 32.8M 0 0 23.7M 0 0:00:02 0:00:01 0:00:01 23.7M 100 54.6M 100 54.6M 0 0 25.2M 0 0:00:02 0:00:02 --:--:-- 25.2M -#9 4.088 % Total % Received % Xferd Average Speed Time Time Time Current -#9 4.088 Dload Upload Total Spent Left Speed -#9 4.088 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 -#9 6.015 100 555k 0 555k 0 0 288k 0 --:--:-- 0:00:01 --:--:-- 288k 100 555k 0 555k 0 0 189k 0 --:--:-- 0:00:02 --:--:-- 0 100 1460k 0 1460k 0 0 464k 0 --:--:-- 0:00:03 --:--:-- 740k 100 5729k 0 5729k 0 0 1379k 0 --:--:-- 0:00:04 --:--:-- 2321k 100 9289k 0 9289k 0 0 1805k 0 --:--:-- 0:00:05 --:--:-- 2712k 100 11.7M 0 11.7M 0 0 1961k 0 --:--:-- 0:00:06 --:--:-- 2724k 100 14.6M 0 14.6M 0 0 2090k 0 --:--:-- 0:00:07 --:--:-- 3408k 100 17.9M 0 17.9M 0 0 2256k 0 --:--:-- 0:00:08 --:--:-- 3385k 100 21.7M 0 21.7M 0 0 2435k 0 --:--:-- 0:00:09 --:--:-- 3313k 100 25.5M 0 25.5M 0 0 2571k 0 --:--:-- 0:00:10 --:--:-- 3358k 100 28.4M 0 28.4M 0 0 2617k 0 --:--:-- 0:00:11 --:--:-- 3424k 100 32.4M 0 32.4M 0 0 2733k 0 --:--:-- 0:00:12 --:--:-- 3654k 100 36.5M 0 36.5M 0 0 2849k 0 --:--:-- 0:00:13 --:--:-- 3814k 100 40.6M 0 40.6M 0 0 2943k 0 --:--:-- 0:00:14 --:--:-- 3871k 100 44.3M 0 44.3M 0 0 2997k 0 --:--:-- 0:00:15 --:--:-- 3862k 100 48.1M 0 48.1M 0 0 3055k 0 --:--:-- 0:00:16 --:--:-- 4030k 100 51.3M 0 51.3M 0 0 3064k 0 --:--:-- 0:00:17 --:--:-- 3868k 100 54.8M 0 54.8M 0 0 3094k 0 --:--:-- 0:00:18 --:--:-- 3740k 100 59.1M 0 59.1M 0 0 3162k 0 --:--:-- 0:00:19 --:--:-- 3783k 100 62.3M 0 62.3M 0 0 3167k 0 --:--:-- 0:00:20 --:--:-- 3683k 100 65.6M 0 65.6M 0 0 3177k 0 --:--:-- 0:00:21 --:--:-- 3572k 100 69.5M 0 69.5M 0 0 3215k 0 --:--:-- 0:00:22 --:--:-- 3731k 100 72.7M 0 72.7M 0 0 3219k 0 --:--:-- 0:00:23 --:--:-- 3674k 100 76.1M 0 76.1M 0 0 3231k 0 --:--:-- 0:00:24 --:--:-- 3495k 100 79.3M 0 79.3M 0 0 3229k 0 --:--:-- 0:00:25 --:--:-- 3476k 100 82.3M 0 82.3M 0 0 3223k 0 --:--:-- 0:00:26 --:--:-- 3417k 100 85.9M 0 85.9M 0 0 3240k 0 --:--:-- 0:00:27 --:--:-- 3352k 100 90.0M 0 90.0M 0 0 3273k 0 --:--:-- 0:00:28 --:--:-- 3519k 100 93.5M 0 93.5M 0 0 3286k 0 --:--:-- 0:00:29 --:--:-- 3556k 100 97.3M 0 97.3M 0 0 3308k 0 --:--:-- 0:00:30 --:--:-- 3705k 100 101M 0 101M 0 0 3321k 0 --:--:-- 0:00:31 --:--:-- 3834k 100 104M 0 104M 0 0 3343k 0 --:--:-- 0:00:32 --:--:-- 3902k 100 108M 0 108M 0 0 3340k 0 --:--:-- 0:00:33 --:--:-- 3718k 100 111M 0 111M 0 0 3335k 0 --:--:-- 0:00:34 --:--:-- 3620k 100 114M 0 114M 0 0 3327k 0 --:--:-- 0:00:35 --:--:-- 3442k 100 117M 0 117M 0 0 3319k 0 --:--:-- 0:00:36 --:--:-- 3304k 100 120M 0 120M 0 0 3324k 0 --:--:-- 0:00:37 --:--:-- 3206k 100 124M 0 124M 0 0 3332k 0 --:--:-- 0:00:38 --:--:-- 3279k 100 127M 0 127M 0 0 3346k 0 --:--:-- 0:00:39 --:--:-- 3419k 100 131M 0 131M 0 0 3366k 0 --:--:-- 0:00:40 --:--:-- 3642k 100 135M 0 135M 0 0 3372k 0 --:--:-- 0:00:41 --:--:-- 3760k 100 138M 0 138M 0 0 3354k 0 --:--:-- 0:00:42 --:--:-- 3573k 100 141M 0 141M 0 0 3348k 0 --:--:-- 0:00:43 --:--:-- 3473k 100 144M 0 144M 0 0 3340k 0 --:--:-- 0:00:44 --:--:-- 3291k 100 146M 0 146M 0 0 3326k 0 --:--:-- 0:00:45 --:--:-- 3008k 100 149M 0 149M 0 0 3325k 0 --:--:-- 0:00:46 --:--:-- 2938k 100 153M 0 153M 0 0 3338k 0 --:--:-- 0:00:47 --:--:-- 3201k 100 158M 0 158M 0 0 3365k 0 --:--:-- 0:00:48 --:--:-- 3511k 100 163M 0 163M 0 0 3402k 0 --:--:-- 0:00:49 --:--:-- 3948k 100 167M 0 167M 0 0 3429k 0 --:--:-- 0:00:50 --:--:-- 4356k 100 170M 0 170M 0 0 3422k 0 --:--:-- 0:00:51 --:--:-- 4319k 100 173M 0 173M 0 0 3415k 0 --:--:-- 0:00:52 --:--:-- 4140k 100 177M 0 177M 0 0 3413k 0 --:--:-- 0:00:53 --:--:-- 3873k 100 181M 0 181M 0 0 3428k 0 --:--:-- 0:00:54 --:--:-- 3691k 100 185M 0 185M 0 0 3444k 0 --:--:-- 0:00:55 --:--:-- 3594k 100 188M 0 188M 0 0 3430k 0 --:--:-- 0:00:56 --:--:-- 3506k 100 191M 0 191M 0 0 3421k 0 --:--:-- 0:00:57 --:--:-- 3491k 100 193M 0 193M 0 0 3404k 0 --:--:-- 0:00:58 --:--:-- 3312k 100 196M 0 196M 0 0 3397k 0 --:--:-- 0:00:59 --:--:-- 3063k 100 199M 0 199M 0 0 3403k 0 --:--:-- 0:01:00 --:--:-- 2954k 100 203M 0 203M 0 0 3412k 0 --:--:-- 0:01:01 --:--:-- 3217k 100 207M 0 207M 0 0 3419k 0 --:--:-- 0:01:02 --:--:-- 3388k 100 211M 0 211M 0 0 3429k 0 --:--:-- 0:01:03 --:--:-- 3711k 100 214M 0 214M 0 0 3429k 0 --:--:-- 0:01:04 --:--:-- 3803k 100 218M 0 218M 0 0 3435k 0 --:--:-- 0:01:05 --:--:-- 3818k 100 221M 0 221M 0 0 3423k 0 --:--:-- 0:01:06 --:--:-- 3555k 100 224M 0 224M 0 0 3423k 0 --:--:-- 0:01:07 --:--:-- 3472k 100 228M 0 228M 0 0 3428k 0 --:--:-- 0:01:08 --:--:-- 3421k 100 231M 0 231M 0 0 3422k 0 --:--:-- 0:01:09 --:--:-- 3336k 100 234M 0 234M 0 0 3417k 0 --:--:-- 0:01:10 --:--:-- 3185k 100 237M 0 237M 0 0 3420k 0 --:--:-- 0:01:11 --:--:-- 3381k 100 240M 0 240M 0 0 3417k 0 --:--:-- 0:01:12 --:--:-- 3341k 100 243M 0 243M 0 0 3414k 0 --:--:-- 0:01:13 --:--:-- 3227k 100 247M 0 247M 0 0 3417k 0 --:--:-- 0:01:14 --:--:-- 3343k 100 250M 0 250M 0 0 3420k 0 --:--:-- 0:01:14 --:--:-- 3463k -#9 79.04 Archive: master.zip -#9 79.04 5e12ed5400e7c7b3422730fbaa6620dd8eb1fbd4 -#9 79.04 creating: obitools4-master/ -#9 79.04 creating: obitools4-master/.github/ -#9 79.04 creating: obitools4-master/.github/workflows/ -#9 79.04 inflating: obitools4-master/.github/workflows/obitest.yml -#9 79.04 inflating: obitools4-master/.gitignore -#9 79.04 inflating: obitools4-master/.gitlab-ci.yml -#9 79.04 inflating: obitools4-master/LICENCE-CECILL-2.1.txt -#9 79.04 inflating: obitools4-master/Makefile -#9 79.04 inflating: obitools4-master/README.md -#9 79.04 inflating: obitools4-master/Release-notes.md -#9 79.04 creating: obitools4-master/cmd/ -#9 79.04 creating: obitools4-master/cmd/obitools/ -#9 79.04 creating: obitools4-master/cmd/obitools/obiannotate/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obiannotate/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obiclean/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obiclean/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obicleandb/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obicleandb/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obicomplement/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obicomplement/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obiconsensus/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obiconsensus/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obiconvert/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obiconvert/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obicount/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obicount/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obicsv/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obicsv/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obidemerge/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obidemerge/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obidistribute/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obidistribute/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obigrep/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obigrep/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obijoin/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obijoin/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obikmermatch/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obikmermatch/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obikmersimcount/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obikmersimcount/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obilandmark/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obilandmark/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obimatrix/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obimatrix/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obimicrosat/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obimicrosat/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obimultiplex/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obimultiplex/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obipairing/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obipairing/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obipcr/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obipcr/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obireffamidx/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obireffamidx/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obirefidx/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obirefidx/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obiscript/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obiscript/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obisplit/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obisplit/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obisummary/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obisummary/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obitag/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obitag/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obitagpcr/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obitagpcr/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obitaxonomy/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obitaxonomy/main.go -#9 79.04 creating: obitools4-master/cmd/obitools/obiuniq/ -#9 79.04 inflating: obitools4-master/cmd/obitools/obiuniq/main.go -#9 79.05 creating: obitools4-master/cmd/test/ -#9 79.05 inflating: obitools4-master/cmd/test/main.go -#9 79.05 inflating: obitools4-master/devnotes.md -#9 79.05 creating: obitools4-master/doc/ -#9 79.05 extracting: obitools4-master/doc/.gitignore -#9 79.05 inflating: obitools4-master/doc/Makefile -#9 79.05 creating: obitools4-master/doc/book/ -#9 79.05 extracting: obitools4-master/doc/book/.gitignore -#9 79.05 creating: obitools4-master/doc/book/.ipynb_checkpoints/ -#9 79.05 inflating: obitools4-master/doc/book/.ipynb_checkpoints/Untitled-checkpoint.ipynb -#9 79.05 inflating: obitools4-master/doc/book/Makefile -#9 79.05 inflating: obitools4-master/doc/book/OBITools-V4.tex -#9 79.05 inflating: obitools4-master/doc/book/Probabilitymetrics.png -#9 79.05 inflating: obitools4-master/doc/book/Untitled.ipynb -#9 79.05 creating: obitools4-master/doc/book/_freeze/ -#9 79.05 creating: obitools4-master/doc/book/_freeze/comm_computation/ -#9 79.05 creating: obitools4-master/doc/book/_freeze/comm_computation/execute-results/ -#9 79.05 inflating: obitools4-master/doc/book/_freeze/comm_computation/execute-results/epub.json -#9 79.05 inflating: obitools4-master/doc/book/_freeze/comm_computation/execute-results/html.json -#9 79.05 inflating: obitools4-master/doc/book/_freeze/comm_computation/execute-results/tex.json -#9 79.05 creating: obitools4-master/doc/book/_freeze/comm_computation/figure-epub/ -#9 79.05 inflating: obitools4-master/doc/book/_freeze/comm_computation/figure-epub/unnamed-chunk-1-1.png -#9 79.05 creating: obitools4-master/doc/book/_freeze/comm_computation/figure-html/ -#9 79.05 inflating: obitools4-master/doc/book/_freeze/comm_computation/figure-html/unnamed-chunk-1-1.png -#9 79.05 creating: obitools4-master/doc/book/_freeze/comm_computation/figure-pdf/ -#9 79.05 inflating: obitools4-master/doc/book/_freeze/comm_computation/figure-pdf/unnamed-chunk-1-1.pdf -#9 79.05 creating: obitools4-master/doc/book/_freeze/commands/ -#9 79.05 creating: obitools4-master/doc/book/_freeze/commands/execute-results/ -#9 79.05 inflating: obitools4-master/doc/book/_freeze/commands/execute-results/epub.json -#9 79.05 inflating: obitools4-master/doc/book/_freeze/commands/execute-results/html.json -#9 79.05 inflating: obitools4-master/doc/book/_freeze/commands/execute-results/tex.json -#9 79.05 creating: obitools4-master/doc/book/_freeze/commands/figure-epub/ -#9 79.05 inflating: obitools4-master/doc/book/_freeze/commands/figure-epub/unnamed-chunk-1-1.png -#9 79.05 creating: obitools4-master/doc/book/_freeze/commands/figure-html/ -#9 79.05 inflating: obitools4-master/doc/book/_freeze/commands/figure-html/unnamed-chunk-1-1.png -#9 79.05 creating: obitools4-master/doc/book/_freeze/commands/figure-pdf/ -#9 79.05 inflating: obitools4-master/doc/book/_freeze/commands/figure-pdf/unnamed-chunk-1-1.pdf -#9 79.05 creating: obitools4-master/doc/book/_freeze/formats/ -#9 79.05 creating: obitools4-master/doc/book/_freeze/formats/execute-results/ -#9 79.06 inflating: obitools4-master/doc/book/_freeze/formats/execute-results/epub.json -#9 79.06 inflating: obitools4-master/doc/book/_freeze/formats/execute-results/html.json -#9 79.06 inflating: obitools4-master/doc/book/_freeze/formats/execute-results/tex.json -#9 79.06 creating: obitools4-master/doc/book/_freeze/index/ -#9 79.06 creating: obitools4-master/doc/book/_freeze/index/execute-results/ -#9 79.06 inflating: obitools4-master/doc/book/_freeze/index/execute-results/epub.json -#9 79.06 inflating: obitools4-master/doc/book/_freeze/index/execute-results/html.json -#9 79.06 inflating: obitools4-master/doc/book/_freeze/index/execute-results/tex.json -#9 79.06 creating: obitools4-master/doc/book/_freeze/installation/ -#9 79.06 creating: obitools4-master/doc/book/_freeze/installation/execute-results/ -#9 79.06 inflating: obitools4-master/doc/book/_freeze/installation/execute-results/epub.json -#9 79.06 inflating: obitools4-master/doc/book/_freeze/installation/execute-results/html.json -#9 79.06 inflating: obitools4-master/doc/book/_freeze/installation/execute-results/tex.json -#9 79.06 creating: obitools4-master/doc/book/_freeze/site_libs/ -#9 79.06 creating: obitools4-master/doc/book/_freeze/site_libs/clipboard/ -#9 79.06 inflating: obitools4-master/doc/book/_freeze/site_libs/clipboard/clipboard.min.js -#9 79.06 creating: obitools4-master/doc/book/_freeze/tutorial/ -#9 79.06 creating: obitools4-master/doc/book/_freeze/tutorial/execute-results/ -#9 79.06 inflating: obitools4-master/doc/book/_freeze/tutorial/execute-results/epub.json -#9 79.06 inflating: obitools4-master/doc/book/_freeze/tutorial/execute-results/html.json -#9 79.06 inflating: obitools4-master/doc/book/_freeze/tutorial/execute-results/tex.json -#9 79.06 creating: obitools4-master/doc/book/_freeze/tutorial/figure-epub/ -#9 79.06 inflating: obitools4-master/doc/book/_freeze/tutorial/figure-epub/unnamed-chunk-10-1.png -#9 79.06 inflating: obitools4-master/doc/book/_freeze/tutorial/figure-epub/unnamed-chunk-9-1.png -#9 79.06 creating: obitools4-master/doc/book/_freeze/tutorial/figure-html/ -#9 79.06 inflating: obitools4-master/doc/book/_freeze/tutorial/figure-html/unnamed-chunk-10-1.png -#9 79.06 inflating: obitools4-master/doc/book/_freeze/tutorial/figure-html/unnamed-chunk-9-1.png -#9 79.06 creating: obitools4-master/doc/book/_freeze/tutorial/figure-pdf/ -#9 79.06 inflating: obitools4-master/doc/book/_freeze/tutorial/figure-pdf/unnamed-chunk-10-1.pdf -#9 79.06 inflating: obitools4-master/doc/book/_freeze/tutorial/figure-pdf/unnamed-chunk-9-1.pdf -#9 79.06 inflating: obitools4-master/doc/book/_quarto.yml -#9 79.06 inflating: obitools4-master/doc/book/annexes.qmd -#9 79.06 inflating: obitools4-master/doc/book/comm_annotation.qmd -#9 79.06 inflating: obitools4-master/doc/book/comm_computation.qmd -#9 79.06 inflating: obitools4-master/doc/book/comm_metabarcode_design.qmd -#9 79.06 inflating: obitools4-master/doc/book/comm_reformat.qmd -#9 79.06 inflating: obitools4-master/doc/book/comm_sampling.qmd -#9 79.06 inflating: obitools4-master/doc/book/comm_utilities.qmd -#9 79.06 extracting: obitools4-master/doc/book/commands.qmd -#9 79.06 creating: obitools4-master/doc/book/commands_files/ -#9 79.06 creating: obitools4-master/doc/book/commands_files/figure-epub/ -#9 79.06 inflating: obitools4-master/doc/book/commands_files/figure-epub/unnamed-chunk-1-1.png -#9 79.06 creating: obitools4-master/doc/book/commands_files/figure-html/ -#9 79.06 inflating: obitools4-master/doc/book/commands_files/figure-html/unnamed-chunk-1-1.png -#9 79.06 inflating: obitools4-master/doc/book/common_options.qmd -#9 79.06 extracting: obitools4-master/doc/book/epub.css -#9 79.06 inflating: obitools4-master/doc/book/expressions.qmd -#9 79.06 inflating: obitools4-master/doc/book/formats.qmd -#9 79.06 inflating: obitools4-master/doc/book/index.qmd -#9 79.06 inflating: obitools4-master/doc/book/installation.qmd -#9 79.06 inflating: obitools4-master/doc/book/intro.qmd -#9 79.06 inflating: obitools4-master/doc/book/inupt.qmd -#9 79.06 inflating: obitools4-master/doc/book/library.qmd -#9 79.06 inflating: obitools4-master/doc/book/output.qmd -#9 79.06 inflating: obitools4-master/doc/book/references.qmd -#9 79.06 inflating: obitools4-master/doc/book/summary.qmd -#9 79.06 inflating: obitools4-master/doc/book/tutorial.qmd -#9 79.06 creating: obitools4-master/doc/book/tutorial_files/ -#9 79.06 creating: obitools4-master/doc/book/tutorial_files/figure-epub/ -#9 79.06 inflating: obitools4-master/doc/book/tutorial_files/figure-epub/unnamed-chunk-10-1.png -#9 79.06 inflating: obitools4-master/doc/book/tutorial_files/figure-epub/unnamed-chunk-9-1.png -#9 79.06 creating: obitools4-master/doc/book/tutorial_files/figure-html/ -#9 79.06 inflating: obitools4-master/doc/book/tutorial_files/figure-html/unnamed-chunk-10-1.png -#9 79.06 inflating: obitools4-master/doc/book/tutorial_files/figure-html/unnamed-chunk-9-1.png -#9 79.06 creating: obitools4-master/doc/book/wolf_data/ -#9 79.06 inflating: obitools4-master/doc/book/wolf_data/download_gb.sh -#9 79.06 inflating: obitools4-master/doc/book/wolf_data/download_gb_order.sh -#9 79.06 inflating: obitools4-master/doc/book/wolf_data/sort_gb_order.sh -#9 79.06 inflating: obitools4-master/doc/book/wolf_data/taxdump.tar.gz -#9 79.54 inflating: obitools4-master/doc/book/wolf_data/wolf_diet_ngsfilter.csv -#9 79.54 inflating: obitools4-master/doc/book/wolf_data/wolf_diet_ngsfilter.txt -#9 79.54 extracting: obitools4-master/doc/book/wolf_diet.tgz -#9 79.88 creating: obitools4-master/doc/build/ -#9 79.88 creating: obitools4-master/doc/build/_book/ -#9 79.88 inflating: obitools4-master/doc/build/_book/OBITools-V4.epub -#9 79.88 inflating: obitools4-master/doc/build/_book/OBITools-V4.pdf -#9 79.88 inflating: obitools4-master/doc/build/_book/Probabilitymetrics.png -#9 79.88 inflating: obitools4-master/doc/build/_book/annexes.html -#9 79.88 inflating: obitools4-master/doc/build/_book/comm_annotation.html -#9 79.88 inflating: obitools4-master/doc/build/_book/comm_computation.html -#9 79.88 creating: obitools4-master/doc/build/_book/comm_computation_files/ -#9 79.88 creating: obitools4-master/doc/build/_book/comm_computation_files/figure-epub/ -#9 79.88 inflating: obitools4-master/doc/build/_book/comm_computation_files/figure-epub/unnamed-chunk-1-1.png -#9 79.88 creating: obitools4-master/doc/build/_book/comm_computation_files/figure-html/ -#9 79.88 inflating: obitools4-master/doc/build/_book/comm_computation_files/figure-html/unnamed-chunk-1-1.png -#9 79.88 creating: obitools4-master/doc/build/_book/comm_computation_files/figure-pdf/ -#9 79.88 inflating: obitools4-master/doc/build/_book/comm_computation_files/figure-pdf/unnamed-chunk-1-1.pdf -#9 79.89 inflating: obitools4-master/doc/build/_book/comm_metabarcode_design.html -#9 79.89 inflating: obitools4-master/doc/build/_book/comm_reformat.html -#9 79.89 inflating: obitools4-master/doc/build/_book/comm_sampling.html -#9 79.89 inflating: obitools4-master/doc/build/_book/comm_utilities.html -#9 79.89 inflating: obitools4-master/doc/build/_book/commands.html -#9 79.89 creating: obitools4-master/doc/build/_book/commands_files/ -#9 79.89 creating: obitools4-master/doc/build/_book/commands_files/figure-epub/ -#9 79.89 inflating: obitools4-master/doc/build/_book/commands_files/figure-epub/unnamed-chunk-1-1.png -#9 79.89 creating: obitools4-master/doc/build/_book/commands_files/figure-html/ -#9 79.89 inflating: obitools4-master/doc/build/_book/commands_files/figure-html/unnamed-chunk-1-1.png -#9 79.89 creating: obitools4-master/doc/build/_book/commands_files/figure-pdf/ -#9 79.89 inflating: obitools4-master/doc/build/_book/commands_files/figure-pdf/unnamed-chunk-1-1.pdf -#9 79.89 inflating: obitools4-master/doc/build/_book/common_options.html -#9 79.89 inflating: obitools4-master/doc/build/_book/expressions.html -#9 79.89 inflating: obitools4-master/doc/build/_book/formats.html -#9 79.89 inflating: obitools4-master/doc/build/_book/index.html -#9 79.89 inflating: obitools4-master/doc/build/_book/installation.html -#9 79.89 inflating: obitools4-master/doc/build/_book/intro.html -#9 79.89 inflating: obitools4-master/doc/build/_book/inupt.html -#9 79.89 inflating: obitools4-master/doc/build/_book/library.html -#9 79.89 inflating: obitools4-master/doc/build/_book/output.html -#9 79.89 inflating: obitools4-master/doc/build/_book/references.html -#9 79.89 inflating: obitools4-master/doc/build/_book/search.json -#9 79.89 creating: obitools4-master/doc/build/_book/site_libs/ -#9 79.89 creating: obitools4-master/doc/build/_book/site_libs/clipboard/ -#9 79.89 inflating: obitools4-master/doc/build/_book/site_libs/clipboard/clipboard.min.js -#9 79.89 inflating: obitools4-master/doc/build/_book/tutorial.html -#9 79.89 creating: obitools4-master/doc/build/_book/tutorial_files/ -#9 79.89 creating: obitools4-master/doc/build/_book/tutorial_files/figure-epub/ -#9 79.89 inflating: obitools4-master/doc/build/_book/tutorial_files/figure-epub/unnamed-chunk-10-1.png -#9 79.89 inflating: obitools4-master/doc/build/_book/tutorial_files/figure-epub/unnamed-chunk-9-1.png -#9 79.89 creating: obitools4-master/doc/build/_book/tutorial_files/figure-html/ -#9 79.89 inflating: obitools4-master/doc/build/_book/tutorial_files/figure-html/unnamed-chunk-10-1.png -#9 79.89 inflating: obitools4-master/doc/build/_book/tutorial_files/figure-html/unnamed-chunk-9-1.png -#9 79.89 creating: obitools4-master/doc/build/_book/tutorial_files/figure-pdf/ -#9 79.89 inflating: obitools4-master/doc/build/_book/tutorial_files/figure-pdf/unnamed-chunk-10-1.pdf -#9 79.89 inflating: obitools4-master/doc/build/_book/tutorial_files/figure-pdf/unnamed-chunk-9-1.pdf -#9 79.89 inflating: obitools4-master/doc/build/_book/utilities.html -#9 79.89 extracting: obitools4-master/doc/build/_book/wolf_diet.tgz -#9 80.21 creating: obitools4-master/doc/build/_man/ -#9 80.21 creating: obitools4-master/doc/build/_man/man1/ -#9 80.21 inflating: obitools4-master/doc/build/_man/man1/obigrep.man -#9 80.21 creating: obitools4-master/doc/commands_files/ -#9 80.21 creating: obitools4-master/doc/commands_files/figure-epub/ -#9 80.21 inflating: obitools4-master/doc/commands_files/figure-epub/unnamed-chunk-1-1.png -#9 80.21 creating: obitools4-master/doc/commands_files/figure-pdf/ -#9 80.21 inflating: obitools4-master/doc/commands_files/figure-pdf/unnamed-chunk-1-1.pdf -#9 80.21 inflating: obitools4-master/doc/cover.png -#9 80.21 creating: obitools4-master/doc/lib/ -#9 80.21 inflating: obitools4-master/doc/lib/book.bib -#9 80.21 creating: obitools4-master/doc/lib/descriptions/ -#9 80.21 inflating: obitools4-master/doc/lib/descriptions/_obigrep.qmd -#9 80.21 creating: obitools4-master/doc/lib/options/ -#9 80.21 inflating: obitools4-master/doc/lib/options/_input.qmd -#9 80.21 inflating: obitools4-master/doc/lib/options/_output.qmd -#9 80.21 inflating: obitools4-master/doc/lib/options/_system.qmd -#9 80.21 creating: obitools4-master/doc/lib/options/input/ -#9 80.21 inflating: obitools4-master/doc/lib/options/input/_ecopcr.qmd -#9 80.21 inflating: obitools4-master/doc/lib/options/input/_embl.qmd -#9 80.21 inflating: obitools4-master/doc/lib/options/input/_genbank.qmd -#9 80.21 creating: obitools4-master/doc/lib/options/output/ -#9 80.21 inflating: obitools4-master/doc/lib/options/output/_compress.qmd -#9 80.21 inflating: obitools4-master/doc/lib/options/output/_out.qmd -#9 80.21 creating: obitools4-master/doc/lib/options/selection/ -#9 80.21 inflating: obitools4-master/doc/lib/options/selection/_max-count.qmd -#9 80.21 inflating: obitools4-master/doc/lib/options/selection/_max-length.qmd -#9 80.21 inflating: obitools4-master/doc/lib/options/selection/_min-count.qmd -#9 80.21 inflating: obitools4-master/doc/lib/options/selection/_min-length.qmd -#9 80.21 inflating: obitools4-master/doc/lib/options/selection/_sequence.qmd -#9 80.21 creating: obitools4-master/doc/lib/options/system/ -#9 80.21 extracting: obitools4-master/doc/lib/options/system/_debug.qmd -#9 80.21 extracting: obitools4-master/doc/lib/options/system/_help.qmd -#9 80.21 inflating: obitools4-master/doc/lib/options/system/_max-cpu.qmd -#9 80.21 extracting: obitools4-master/doc/lib/options/system/_no-progressbar.qmd -#9 80.21 extracting: obitools4-master/doc/lib/options/system/_workers.qmd -#9 80.21 creating: obitools4-master/doc/man/ -#9 80.21 inflating: obitools4-master/doc/man/Makefile -#9 80.21 inflating: obitools4-master/doc/man/obigrep.qmd -#9 80.21 inflating: obitools4-master/doc/man/test.md -#9 80.21 creating: obitools4-master/ecoprimers/ -#9 80.21 creating: obitools4-master/git-hooks/ -#9 80.21 inflating: obitools4-master/git-hooks/pre-push -#9 80.21 inflating: obitools4-master/go.mod -#9 80.21 inflating: obitools4-master/go.sum -#9 80.21 extracting: obitools4-master/go.work -#9 80.21 inflating: obitools4-master/go.work.sum -#9 80.21 inflating: obitools4-master/install_obitools.sh -#9 80.21 creating: obitools4-master/obitests/ -#9 80.21 creating: obitools4-master/obitests/obitools/ -#9 80.21 creating: obitools4-master/obitests/obitools/obiannotate/ -#9 80.21 inflating: obitools4-master/obitests/obitools/obiannotate/test.sh -#9 80.21 creating: obitools4-master/obitests/obitools/obiclean/ -#9 80.21 inflating: obitools4-master/obitests/obitools/obiclean/test.sh -#9 80.21 creating: obitools4-master/obitests/obitools/obicleandb/ -#9 80.21 inflating: obitools4-master/obitests/obitools/obicleandb/test.sh -#9 80.21 creating: obitools4-master/obitests/obitools/obicomplement/ -#9 80.21 inflating: obitools4-master/obitests/obitools/obicomplement/test.sh -#9 80.21 creating: obitools4-master/obitests/obitools/obiconsensus/ -#9 80.21 inflating: obitools4-master/obitests/obitools/obiconsensus/test.sh -#9 80.21 creating: obitools4-master/obitests/obitools/obiconvert/ -#9 80.21 inflating: obitools4-master/obitests/obitools/obiconvert/gbpln1088.4Mb.fasta.gz -#9 80.22 inflating: obitools4-master/obitests/obitools/obiconvert/test.sh -#9 80.22 creating: obitools4-master/obitests/obitools/obicount/ -#9 80.22 inflating: obitools4-master/obitests/obitools/obicount/test.sh -#9 80.22 extracting: obitools4-master/obitests/obitools/obicount/wolf_F.csv.gz -#9 80.22 extracting: obitools4-master/obitests/obitools/obicount/wolf_F.fasta.gz -#9 80.22 extracting: obitools4-master/obitests/obitools/obicount/wolf_F.fastq.gz -#9 80.23 creating: obitools4-master/obitests/obitools/obicsv/ -#9 80.23 inflating: obitools4-master/obitests/obitools/obicsv/test.sh -#9 80.23 creating: obitools4-master/obitests/obitools/obidemerge/ -#9 80.23 inflating: obitools4-master/obitests/obitools/obidemerge/test.sh -#9 80.23 creating: obitools4-master/obitests/obitools/obidistribute/ -#9 80.23 inflating: obitools4-master/obitests/obitools/obidistribute/test.sh -#9 80.23 creating: obitools4-master/obitests/obitools/obigrep/ -#9 80.23 inflating: obitools4-master/obitests/obitools/obigrep/test.sh -#9 80.23 creating: obitools4-master/obitests/obitools/obijoin/ -#9 80.23 inflating: obitools4-master/obitests/obitools/obijoin/test.sh -#9 80.23 creating: obitools4-master/obitests/obitools/obikmermatch/ -#9 80.23 inflating: obitools4-master/obitests/obitools/obikmermatch/test.sh -#9 80.23 creating: obitools4-master/obitests/obitools/obikmersimcount/ -#9 80.23 inflating: obitools4-master/obitests/obitools/obikmersimcount/test.sh -#9 80.23 creating: obitools4-master/obitests/obitools/obilandmark/ -#9 80.23 inflating: obitools4-master/obitests/obitools/obilandmark/test.sh -#9 80.23 creating: obitools4-master/obitests/obitools/obimatrix/ -#9 80.23 inflating: obitools4-master/obitests/obitools/obimatrix/test.sh -#9 80.23 creating: obitools4-master/obitests/obitools/obimicrosat/ -#9 80.24 inflating: obitools4-master/obitests/obitools/obimicrosat/test.sh -#9 80.24 creating: obitools4-master/obitests/obitools/obimultiplex/ -#9 80.24 inflating: obitools4-master/obitests/obitools/obimultiplex/test.sh -#9 80.24 creating: obitools4-master/obitests/obitools/obipairing/ -#9 80.24 inflating: obitools4-master/obitests/obitools/obipairing/test.sh -#9 80.24 extracting: obitools4-master/obitests/obitools/obipairing/wolf_F.fastq.gz -#9 80.25 extracting: obitools4-master/obitests/obitools/obipairing/wolf_R.fastq.gz -#9 80.26 extracting: obitools4-master/obitests/obitools/obipairing/wolf_paired_alignment.csv.gz -#9 80.26 extracting: obitools4-master/obitests/obitools/obipairing/wolf_paired_join.csv.gz -#9 80.26 creating: obitools4-master/obitests/obitools/obipcr/ -#9 80.26 inflating: obitools4-master/obitests/obitools/obipcr/test.sh -#9 80.26 creating: obitools4-master/obitests/obitools/obirefidx/ -#9 80.26 inflating: obitools4-master/obitests/obitools/obirefidx/test.sh -#9 80.26 creating: obitools4-master/obitests/obitools/obiscript/ -#9 80.26 inflating: obitools4-master/obitests/obitools/obiscript/test.sh -#9 80.26 creating: obitools4-master/obitests/obitools/obisplit/ -#9 80.26 inflating: obitools4-master/obitests/obitools/obisplit/test.sh -#9 80.26 creating: obitools4-master/obitests/obitools/obisummary/ -#9 80.26 inflating: obitools4-master/obitests/obitools/obisummary/some_uniq_seq.fasta -#9 80.26 inflating: obitools4-master/obitests/obitools/obisummary/some_uniq_seq.json -#9 80.26 inflating: obitools4-master/obitests/obitools/obisummary/some_uniq_seq.yaml -#9 80.26 inflating: obitools4-master/obitests/obitools/obisummary/test.sh -#9 80.26 creating: obitools4-master/obitests/obitools/obitag/ -#9 80.26 inflating: obitools4-master/obitests/obitools/obitag/test.sh -#9 80.26 creating: obitools4-master/obitests/obitools/obitagpcr/ -#9 80.26 inflating: obitools4-master/obitests/obitools/obitagpcr/test.sh -#9 80.26 creating: obitools4-master/obitests/obitools/obitaxonomy/ -#9 80.26 inflating: obitools4-master/obitests/obitools/obitaxonomy/test.sh -#9 80.26 creating: obitools4-master/obitests/obitools/obiuniq/ -#9 80.26 inflating: obitools4-master/obitests/obitools/obiuniq/test.sh -#9 80.26 creating: obitools4-master/obitools4/ -#9 80.26 inflating: obitools4-master/obitools4/Dockerfile -#9 80.26 creating: obitools4-master/pkg/ -#9 80.26 creating: obitools4-master/pkg/obialign/ -#9 80.26 inflating: obitools4-master/pkg/obialign/alignment.go -#9 80.26 inflating: obitools4-master/pkg/obialign/backtracking.go -#9 80.26 inflating: obitools4-master/pkg/obialign/dnamatrix.go -#9 80.26 inflating: obitools4-master/pkg/obialign/fastlcs.go -#9 80.26 inflating: obitools4-master/pkg/obialign/fastlcsegf.go -#9 80.26 inflating: obitools4-master/pkg/obialign/fourbitsencode.go -#9 80.26 inflating: obitools4-master/pkg/obialign/is_d0_or_d1.go -#9 80.26 inflating: obitools4-master/pkg/obialign/locatepattern.go -#9 80.26 inflating: obitools4-master/pkg/obialign/pairedendalign.go -#9 80.26 inflating: obitools4-master/pkg/obialign/readalign.go -#9 80.26 creating: obitools4-master/pkg/obiapat/ -#9 80.26 creating: obitools4-master/pkg/obiapat/abiapat/ -#9 80.26 creating: obitools4-master/pkg/obiapat/abiapat/CODES/ -#9 80.26 inflating: obitools4-master/pkg/obiapat/abiapat/CODES/dft_code.h -#9 80.26 inflating: obitools4-master/pkg/obiapat/abiapat/CODES/dna_code.h -#9 80.26 inflating: obitools4-master/pkg/obiapat/abiapat/CODES/prot_code.h -#9 80.26 inflating: obitools4-master/pkg/obiapat/abiapat/Makefile -#9 80.26 inflating: obitools4-master/pkg/obiapat/apat.h -#9 80.26 inflating: obitools4-master/pkg/obiapat/apat_mem.h -#9 80.26 inflating: obitools4-master/pkg/obiapat/apat_parse.c -#9 80.26 inflating: obitools4-master/pkg/obiapat/apat_search.c -#9 80.26 inflating: obitools4-master/pkg/obiapat/ecoMalloc.c -#9 80.26 inflating: obitools4-master/pkg/obiapat/libstki.c -#9 80.26 inflating: obitools4-master/pkg/obiapat/libstki.h -#9 80.26 inflating: obitools4-master/pkg/obiapat/obiapat.c -#9 80.26 inflating: obitools4-master/pkg/obiapat/obiapat.h -#9 80.26 inflating: obitools4-master/pkg/obiapat/pattern.go -#9 80.26 inflating: obitools4-master/pkg/obiapat/pattern_test.go -#9 80.26 inflating: obitools4-master/pkg/obiapat/pcr.go -#9 80.26 inflating: obitools4-master/pkg/obiapat/predicat.go -#9 80.26 creating: obitools4-master/pkg/obichunk/ -#9 80.26 inflating: obitools4-master/pkg/obichunk/chunk.go -#9 80.26 inflating: obitools4-master/pkg/obichunk/chunk_on_disk.go -#9 80.26 inflating: obitools4-master/pkg/obichunk/chunks_on_memory.go -#9 80.26 inflating: obitools4-master/pkg/obichunk/options.go -#9 80.26 inflating: obitools4-master/pkg/obichunk/subchunks.go -#9 80.26 inflating: obitools4-master/pkg/obichunk/unique.go -#9 80.26 creating: obitools4-master/pkg/obicorazick/ -#9 80.26 inflating: obitools4-master/pkg/obicorazick/worker.go -#9 80.26 creating: obitools4-master/pkg/obidefault/ -#9 80.26 inflating: obitools4-master/pkg/obidefault/batch.go -#9 80.26 inflating: obitools4-master/pkg/obidefault/compressed.go -#9 80.26 inflating: obitools4-master/pkg/obidefault/logger.go -#9 80.26 inflating: obitools4-master/pkg/obidefault/quality.go -#9 80.26 inflating: obitools4-master/pkg/obidefault/taxonomy.go -#9 80.26 inflating: obitools4-master/pkg/obidefault/workers.go -#9 80.26 creating: obitools4-master/pkg/obiformats/ -#9 80.26 inflating: obitools4-master/pkg/obiformats/batch_of_files_reader.go -#9 80.26 inflating: obitools4-master/pkg/obiformats/batch_reader_type.go -#9 80.26 inflating: obitools4-master/pkg/obiformats/csv_read.go -#9 80.26 inflating: obitools4-master/pkg/obiformats/csv_writer.go -#9 80.26 inflating: obitools4-master/pkg/obiformats/csviterator.go -#9 80.26 inflating: obitools4-master/pkg/obiformats/csvtaxdump_read.go -#9 80.26 inflating: obitools4-master/pkg/obiformats/dispatcher.go -#9 80.26 inflating: obitools4-master/pkg/obiformats/ecopcr_read.go -#9 80.26 inflating: obitools4-master/pkg/obiformats/embl_read.go -#9 80.26 inflating: obitools4-master/pkg/obiformats/empty_file.go -#9 80.26 inflating: obitools4-master/pkg/obiformats/fastaseq_read.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/fastqseq_read.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/fastqseq_write_generic.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/fastseq_header.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/fastseq_interface.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/fastseq_json_header.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/fastseq_obi_header.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/fastseq_read.c -#9 80.27 inflating: obitools4-master/pkg/obiformats/fastseq_read.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/fastseq_read.h -#9 80.27 inflating: obitools4-master/pkg/obiformats/fastseq_write_fasta.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/fastseq_write_fastq.go -#9 80.27 extracting: obitools4-master/pkg/obiformats/fastseq_write_with_index.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/file_chunk_read.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/file_chunk_write.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/genbank_read.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/json_writer.go -#9 80.27 creating: obitools4-master/pkg/obiformats/kseq/ -#9 80.27 inflating: obitools4-master/pkg/obiformats/kseq/Makefile -#9 80.27 inflating: obitools4-master/pkg/obiformats/kseq/kseq.h -#9 80.27 inflating: obitools4-master/pkg/obiformats/kseq/kseq_test -#9 80.27 inflating: obitools4-master/pkg/obiformats/kseq/kseq_test.c -#9 80.27 inflating: obitools4-master/pkg/obiformats/kseq/test.seq -#9 80.27 inflating: obitools4-master/pkg/obiformats/ncbitaxdump_read.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/ncbitaxdump_readtar.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/newick_write.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/ngsfilter_read.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/options.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/taxonomy_read.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/universal_read.go -#9 80.27 inflating: obitools4-master/pkg/obiformats/universal_write.go -#9 80.27 creating: obitools4-master/pkg/obifp/ -#9 80.27 inflating: obitools4-master/pkg/obifp/uint128.go -#9 80.27 inflating: obitools4-master/pkg/obifp/uint128_test.go -#9 80.27 inflating: obitools4-master/pkg/obifp/uint256.go -#9 80.27 inflating: obitools4-master/pkg/obifp/uint64.go -#9 80.27 inflating: obitools4-master/pkg/obifp/unint.go -#9 80.27 creating: obitools4-master/pkg/obigraph/ -#9 80.27 inflating: obitools4-master/pkg/obigraph/graph.go -#9 80.27 inflating: obitools4-master/pkg/obigraph/graphbuffer.go -#9 80.27 creating: obitools4-master/pkg/obiiter/ -#9 80.27 inflating: obitools4-master/pkg/obiiter/batch.go -#9 80.27 inflating: obitools4-master/pkg/obiiter/batchiterator.go -#9 80.27 inflating: obitools4-master/pkg/obiiter/distribute.go -#9 80.27 inflating: obitools4-master/pkg/obiiter/extract_taxonomy.go -#9 80.27 inflating: obitools4-master/pkg/obiiter/fragment.go -#9 80.27 inflating: obitools4-master/pkg/obiiter/limitmemory.go -#9 80.27 inflating: obitools4-master/pkg/obiiter/merge.go -#9 80.27 inflating: obitools4-master/pkg/obiiter/numbering.go -#9 80.27 inflating: obitools4-master/pkg/obiiter/paired.go -#9 80.27 inflating: obitools4-master/pkg/obiiter/pipe.go -#9 80.27 inflating: obitools4-master/pkg/obiiter/sequence_workers.go -#9 80.27 inflating: obitools4-master/pkg/obiiter/speed.go -#9 80.27 inflating: obitools4-master/pkg/obiiter/workers.go -#9 80.27 creating: obitools4-master/pkg/obiitercsv/ -#9 80.27 inflating: obitools4-master/pkg/obiitercsv/csv.go -#9 80.27 creating: obitools4-master/pkg/obikmer/ -#9 80.27 inflating: obitools4-master/pkg/obikmer/counting.go -#9 80.27 inflating: obitools4-master/pkg/obikmer/debruijn.go -#9 80.27 inflating: obitools4-master/pkg/obikmer/encodefourmer.go -#9 80.27 inflating: obitools4-master/pkg/obikmer/kmermap.go -#9 80.27 creating: obitools4-master/pkg/obilog/ -#9 80.27 inflating: obitools4-master/pkg/obilog/warning.go -#9 80.27 creating: obitools4-master/pkg/obilua/ -#9 80.27 inflating: obitools4-master/pkg/obilua/lua.go -#9 80.27 inflating: obitools4-master/pkg/obilua/lua_obicontext.go -#9 80.27 inflating: obitools4-master/pkg/obilua/lua_push_interface.go -#9 80.27 inflating: obitools4-master/pkg/obilua/lua_table.go -#9 80.27 inflating: obitools4-master/pkg/obilua/mutex.go -#9 80.27 inflating: obitools4-master/pkg/obilua/obilib.go -#9 80.27 inflating: obitools4-master/pkg/obilua/obiseq.go -#9 80.27 inflating: obitools4-master/pkg/obilua/obiseqslice.go -#9 80.27 inflating: obitools4-master/pkg/obilua/obitaxon.go -#9 80.27 inflating: obitools4-master/pkg/obilua/obitaxonomy.go -#9 80.27 creating: obitools4-master/pkg/obingslibrary/ -#9 80.27 inflating: obitools4-master/pkg/obingslibrary/marker.go -#9 80.27 inflating: obitools4-master/pkg/obingslibrary/match.go -#9 80.27 inflating: obitools4-master/pkg/obingslibrary/multimatch.go -#9 80.27 inflating: obitools4-master/pkg/obingslibrary/ngslibrary.go -#9 80.27 inflating: obitools4-master/pkg/obingslibrary/worker.go -#9 80.27 creating: obitools4-master/pkg/obioptions/ -#9 80.27 inflating: obitools4-master/pkg/obioptions/options.go -#9 80.27 inflating: obitools4-master/pkg/obioptions/version.go -#9 80.27 creating: obitools4-master/pkg/obiphylo/ -#9 80.27 inflating: obitools4-master/pkg/obiphylo/tree.go -#9 80.27 creating: obitools4-master/pkg/obiseq/ -#9 80.27 inflating: obitools4-master/pkg/obiseq/attributes.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/biosequence.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/biosequence_test.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/biosequenceslice.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/class.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/compare.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/eval.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/iupac_nog.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/join.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/language.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/merge.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/paired_reads.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/pool.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/predicate.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/revcomp.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/revcomp_test.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/subseq.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/subseq_test.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/taxonomy_classifier.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/taxonomy_lca.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/taxonomy_methods.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/taxonomy_predicate.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/taxonomy_workers.go -#9 80.27 inflating: obitools4-master/pkg/obiseq/worker.go -#9 80.27 creating: obitools4-master/pkg/obistats/ -#9 80.27 inflating: obitools4-master/pkg/obistats/algo.go -#9 80.27 inflating: obitools4-master/pkg/obistats/beta.go -#9 80.27 inflating: obitools4-master/pkg/obistats/betabinom.go -#9 80.27 inflating: obitools4-master/pkg/obistats/data.go -#9 80.27 inflating: obitools4-master/pkg/obistats/delta.go -#9 80.27 inflating: obitools4-master/pkg/obistats/kmeans.go -#9 80.27 inflating: obitools4-master/pkg/obistats/kolmogorovbeta.go -#9 80.27 inflating: obitools4-master/pkg/obistats/mannwhitney.go -#9 80.27 inflating: obitools4-master/pkg/obistats/mathx.go -#9 80.27 inflating: obitools4-master/pkg/obistats/minmax.go -#9 80.27 inflating: obitools4-master/pkg/obistats/normaldist.go -#9 80.27 inflating: obitools4-master/pkg/obistats/random.go -#9 80.27 inflating: obitools4-master/pkg/obistats/sample.go -#9 80.27 inflating: obitools4-master/pkg/obistats/scaler.go -#9 80.27 inflating: obitools4-master/pkg/obistats/sort.go -#9 80.27 inflating: obitools4-master/pkg/obistats/stats.go -#9 80.27 inflating: obitools4-master/pkg/obistats/table.go -#9 80.27 inflating: obitools4-master/pkg/obistats/tdist.go -#9 80.27 inflating: obitools4-master/pkg/obistats/ttest.go -#9 80.27 inflating: obitools4-master/pkg/obistats/udist.go -#9 80.27 inflating: obitools4-master/pkg/obistats/utils.go -#9 80.27 creating: obitools4-master/pkg/obisuffix/ -#9 80.27 inflating: obitools4-master/pkg/obisuffix/suffix_array.go -#9 80.27 creating: obitools4-master/pkg/obitable/ -#9 80.27 inflating: obitools4-master/pkg/obitable/table.go -#9 80.27 creating: obitools4-master/pkg/obitax/ -#9 80.27 inflating: obitools4-master/pkg/obitax/default_taxonomy.go -#9 80.27 inflating: obitools4-master/pkg/obitax/filter_on_name.go -#9 80.27 inflating: obitools4-master/pkg/obitax/filter_on_rank.go -#9 80.27 inflating: obitools4-master/pkg/obitax/filter_on_subclade_of.go -#9 80.27 inflating: obitools4-master/pkg/obitax/inner.go -#9 80.27 inflating: obitools4-master/pkg/obitax/issuubcladeof.go -#9 80.27 inflating: obitools4-master/pkg/obitax/iterator.go -#9 80.27 inflating: obitools4-master/pkg/obitax/lca.go -#9 80.27 inflating: obitools4-master/pkg/obitax/string_parser.go -#9 80.27 inflating: obitools4-master/pkg/obitax/taxid.go -#9 80.27 inflating: obitools4-master/pkg/obitax/taxon.go -#9 80.27 inflating: obitools4-master/pkg/obitax/taxonnode.go -#9 80.27 inflating: obitools4-master/pkg/obitax/taxonomy.go -#9 80.27 inflating: obitools4-master/pkg/obitax/taxonset.go -#9 80.27 inflating: obitools4-master/pkg/obitax/taxonslice.go -#9 80.27 creating: obitools4-master/pkg/obitools/ -#9 80.27 creating: obitools4-master/pkg/obitools/obiannotate/ -#9 80.27 inflating: obitools4-master/pkg/obitools/obiannotate/obiannotate.go -#9 80.27 inflating: obitools4-master/pkg/obitools/obiannotate/options.go -#9 80.27 creating: obitools4-master/pkg/obitools/obiclean/ -#9 80.27 inflating: obitools4-master/pkg/obitools/obiclean/chimera.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obiclean/graph.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obiclean/obiclean.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obiclean/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obicleandb/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obicleandb/obicleandb.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obicleandb/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obiclust/ -#9 80.28 extracting: obitools4-master/pkg/obitools/obiclust/obiclust.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obiclust/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obiconsensus/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obiconsensus/obiconsensus.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obiconsensus/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obiconvert/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obiconvert/options.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obiconvert/sequence_reader.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obiconvert/sequence_writer.go -#9 80.28 creating: obitools4-master/pkg/obitools/obicount/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obicount/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obicsv/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obicsv/csvoption.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obicsv/obicsv.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obicsv/options.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obicsv/sequence.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obicsv/writer.go -#9 80.28 creating: obitools4-master/pkg/obitools/obidemerge/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obidemerge/demerge.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obidemerge/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obidistribute/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obidistribute/distribute.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obidistribute/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obigrep/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obigrep/grep.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obigrep/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obijoin/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obijoin/join.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obijoin/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obikmersim/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obikmersim/obikmersim.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obikmersim/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obilandmark/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obilandmark/obilandmark.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obilandmark/options.go -#9 80.28 extracting: obitools4-master/pkg/obitools/obilandmark/taxostat.go -#9 80.28 creating: obitools4-master/pkg/obitools/obimatrix/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obimatrix/obimatrix.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obimatrix/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obimicrosat/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obimicrosat/microsat.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obimicrosat/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obimultiplex/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obimultiplex/demultiplex.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obimultiplex/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obipairing/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obipairing/options.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obipairing/pairing.go -#9 80.28 creating: obitools4-master/pkg/obitools/obipcr/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obipcr/options.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obipcr/pcr.go -#9 80.28 creating: obitools4-master/pkg/obitools/obirefidx/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obirefidx/famlilyindexing.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obirefidx/geomindexing.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obirefidx/obirefidx.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obirefidx/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obiscript/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obiscript/obiscript.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obiscript/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obisplit/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obisplit/obisplit.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obisplit/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obisummary/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obisummary/obisummary.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obisummary/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obitag/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obitag/obigeomtag.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obitag/obitag.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obitag/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obitagpcr/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obitagpcr/options.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obitagpcr/pcrtag.go -#9 80.28 creating: obitools4-master/pkg/obitools/obitaxonomy/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obitaxonomy/obitaxonomy.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obitaxonomy/options.go -#9 80.28 creating: obitools4-master/pkg/obitools/obiuniq/ -#9 80.28 inflating: obitools4-master/pkg/obitools/obiuniq/options.go -#9 80.28 inflating: obitools4-master/pkg/obitools/obiuniq/unique.go -#9 80.28 creating: obitools4-master/pkg/obiutils/ -#9 80.28 inflating: obitools4-master/pkg/obiutils/abs.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/abs_test.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/array.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/array_test.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/bytes.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/bytes_test.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/cast_interface.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/counter.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/download.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/goutils.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/gzipfile.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/mimetypes.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/minmax.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/path.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/path_test.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/pipe.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/ranks.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/set.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/set_test.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/slices.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/strings.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/tar.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/unsafe.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/xopen.go -#9 80.28 inflating: obitools4-master/pkg/obiutils/xopen_test.go -#9 80.28 creating: obitools4-master/public/ -#9 80.28 extracting: obitools4-master/public/.gitkeep -#9 80.28 inflating: obitools4-master/public/OBITools-V4.pdf -#9 80.28 inflating: obitools4-master/public/annexes.html -#9 80.28 inflating: obitools4-master/public/commands.html -#9 80.28 creating: obitools4-master/public/commands_files/ -#9 80.28 creating: obitools4-master/public/commands_files/figure-html/ -#9 80.28 inflating: obitools4-master/public/commands_files/figure-html/unnamed-chunk-1-1.png -#9 80.28 inflating: obitools4-master/public/index.html -#9 80.28 inflating: obitools4-master/public/intro.html -#9 80.28 inflating: obitools4-master/public/library.html -#9 80.28 inflating: obitools4-master/public/references.html -#9 80.28 inflating: obitools4-master/public/search.json -#9 80.28 creating: obitools4-master/public/site_libs/ -#9 80.28 creating: obitools4-master/public/site_libs/bootstrap/ -#9 80.28 inflating: obitools4-master/public/site_libs/bootstrap/bootstrap-icons.css -#9 80.28 inflating: obitools4-master/public/site_libs/bootstrap/bootstrap-icons.woff -#9 80.29 inflating: obitools4-master/public/site_libs/bootstrap/bootstrap.min.css -#9 80.29 inflating: obitools4-master/public/site_libs/bootstrap/bootstrap.min.js -#9 80.29 creating: obitools4-master/public/site_libs/clipboard/ -#9 80.29 inflating: obitools4-master/public/site_libs/clipboard/clipboard.min.js -#9 80.29 creating: obitools4-master/public/site_libs/quarto-html/ -#9 80.29 inflating: obitools4-master/public/site_libs/quarto-html/anchor.min.js -#9 80.29 inflating: obitools4-master/public/site_libs/quarto-html/popper.min.js -#9 80.29 inflating: obitools4-master/public/site_libs/quarto-html/quarto-syntax-highlighting.css -#9 80.29 inflating: obitools4-master/public/site_libs/quarto-html/quarto.js -#9 80.29 inflating: obitools4-master/public/site_libs/quarto-html/tippy.css -#9 80.29 inflating: obitools4-master/public/site_libs/quarto-html/tippy.umd.min.js -#9 80.29 creating: obitools4-master/public/site_libs/quarto-nav/ -#9 80.29 inflating: obitools4-master/public/site_libs/quarto-nav/headroom.min.js -#9 80.29 inflating: obitools4-master/public/site_libs/quarto-nav/quarto-nav.js -#9 80.29 creating: obitools4-master/public/site_libs/quarto-search/ -#9 80.29 inflating: obitools4-master/public/site_libs/quarto-search/autocomplete.umd.js -#9 80.29 inflating: obitools4-master/public/site_libs/quarto-search/fuse.min.js -#9 80.29 inflating: obitools4-master/public/site_libs/quarto-search/quarto-search.js -#9 80.29 inflating: obitools4-master/public/tutorial.html -#9 80.29 creating: obitools4-master/public/tutorial_files/ -#9 80.29 creating: obitools4-master/public/tutorial_files/figure-html/ -#9 80.29 inflating: obitools4-master/public/tutorial_files/figure-html/unnamed-chunk-10-1.png -#9 80.29 inflating: obitools4-master/public/tutorial_files/figure-html/unnamed-chunk-9-1.png -#9 80.29 extracting: obitools4-master/public/wolf_diet.tgz -#9 80.60 creating: obitools4-master/sample/ -#9 80.60 inflating: obitools4-master/sample/AY189646 -#9 80.60 inflating: obitools4-master/sample/FJ465692 -#9 80.60 extracting: obitools4-master/sample/wolf_F.fastq.gz -#9 80.61 extracting: obitools4-master/sample/wolf_R.fastq.gz -#9 80.62 inflating: obitools4-master/sample/wolf_diet_ngsfilter.txt -#9 80.62 Install OBITOOLS from : https://github.com/metabarcoding/obitools4/archive/refs/heads/master.zip -#9 80.63 installing pre-push... -#9 80.63 mkdir -p build -#9 80.63 - Building obitool obiannotate...Done. -#9 99.38 - Building obitool obiclean...Done. -#9 100.8 - Building obitool obicleandb...Done. -#9 102.0 - Building obitool obicomplement...Done. -#9 103.1 - Building obitool obiconsensus...Done. -#9 104.3 - Building obitool obiconvert...Done. -#9 105.4 - Building obitool obicount...Done. -#9 106.6 - Building obitool obicsv...Done. -#9 107.7 - Building obitool obidemerge...Done. -#9 108.9 - Building obitool obidistribute...Done. -#9 110.0 - Building obitool obigrep...Done. -#9 111.1 - Building obitool obijoin...Done. -#9 112.3 - Building obitool obikmermatch...Done. -#9 113.5 - Building obitool obikmersimcount...Done. -#9 114.6 - Building obitool obilandmark...Done. -#9 115.8 - Building obitool obimatrix...Done. -#9 116.9 - Building obitool obimicrosat...Done. -#9 118.6 - Building obitool obimultiplex...Done. -#9 119.7 - Building obitool obipairing...Done. -#9 120.8 - Building obitool obipcr...Done. -#9 122.0 - Building obitool obireffamidx...Done. -#9 123.2 - Building obitool obirefidx...Done. -#9 124.3 - Building obitool obiscript...Done. -#9 126.2 - Building obitool obisplit...Done. -#9 127.4 - Building obitool obisummary...Done. -#9 128.9 - Building obitool obitag...Done. -#9 130.0 - Building obitool obitagpcr...Done. -#9 131.2 - Building obitool obitaxonomy...Done. -#9 132.3 - Building obitool obiuniq...Done. -#9 134.0 ~ -#9 DONE 135.2s +#7 [stage-1 2/11] RUN apt-get update && apt-get install -y r-base libcurl4-openssl-dev libssl-dev libxml2-dev curl texlive-xetex texlive-fonts-recommended texlive-plain-generic ruby ruby-dev vim nano && apt-get clean && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* +#7 10.28 Get:99 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxi6 arm64 2:1.8-1build1 [31.6 kB] +#7 10.28 Get:100 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libatspi2.0-0 arm64 2.44.0-3 [78.8 kB] +#7 10.33 Get:101 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 x11-common all 1:7.7+23ubuntu2 [23.4 kB] +#7 10.33 Get:102 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxtst6 arm64 2:1.2.3-1build4 [13.3 kB] +#7 10.33 Get:103 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 dbus-user-session arm64 1.12.20-2ubuntu4.1 [9,442 B] +#7 10.33 Get:104 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libdconf1 arm64 0.40.0-3ubuntu0.1 [40.2 kB] +#7 10.33 Get:105 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 dconf-service arm64 0.40.0-3ubuntu0.1 [27.0 kB] +#7 10.34 Get:106 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 dconf-gsettings-backend arm64 0.40.0-3ubuntu0.1 [22.2 kB] +#7 10.38 Get:107 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 session-migration arm64 0.3.6 [9,512 B] +#7 10.38 Get:108 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 gsettings-desktop-schemas all 42.0-1ubuntu1 [31.1 kB] +#7 10.41 Get:109 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 at-spi2-core arm64 2.44.0-3 [53.1 kB] +#7 10.44 Get:110 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 binutils-common arm64 2.38-4ubuntu2.10 [223 kB] +#7 10.48 Get:111 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libbinutils arm64 2.38-4ubuntu2.10 [824 kB] +#7 10.52 Get:112 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libctf-nobfd0 arm64 2.38-4ubuntu2.10 [109 kB] +#7 10.52 Get:113 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libctf0 arm64 2.38-4ubuntu2.10 [103 kB] +#7 10.53 Get:114 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 binutils-aarch64-linux-gnu arm64 2.38-4ubuntu2.10 [3,225 kB] +#7 10.63 Get:115 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 binutils arm64 2.38-4ubuntu2.10 [3,160 B] +#7 10.63 Get:116 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libc-dev-bin arm64 2.35-0ubuntu3.11 [19.7 kB] +#7 10.63 Get:117 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 linux-libc-dev arm64 5.15.0-161.171 [1,284 kB] +#7 11.07 Get:118 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libcrypt-dev arm64 1:4.4.27-1 [119 kB] +#7 11.16 Get:119 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 rpcsvc-proto arm64 1.4.2-0ubuntu6 [65.4 kB] +#7 11.17 Get:120 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libtirpc-dev arm64 1.3.2-2ubuntu0.1 [199 kB] +#7 11.20 Get:121 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libnsl-dev arm64 1.3.0-2build2 [72.1 kB] +#7 11.21 Get:122 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libc6-dev arm64 2.35-0ubuntu3.11 [1,548 kB] +#7 11.29 Get:123 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gcc-11-base arm64 11.4.0-1ubuntu1~22.04.2 [20.8 kB] +#7 11.29 Get:124 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libisl23 arm64 0.24-2build1 [689 kB] +#7 11.30 Get:125 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libmpfr6 arm64 4.1.0-3build3 [245 kB] +#7 11.31 Get:126 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libmpc3 arm64 1.2.1-2build1 [48.1 kB] +#7 11.31 Get:127 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 cpp-11 arm64 11.4.0-1ubuntu1~22.04.2 [9,717 kB] +#7 11.52 Get:128 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 cpp arm64 4:11.2.0-1ubuntu1 [27.7 kB] +#7 11.57 Get:129 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libcc1-0 arm64 12.3.0-1ubuntu1~22.04.2 [45.1 kB] +#7 11.63 Get:130 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgomp1 arm64 12.3.0-1ubuntu1~22.04.2 [124 kB] +#7 11.67 Get:131 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libitm1 arm64 12.3.0-1ubuntu1~22.04.2 [28.5 kB] +#7 11.71 Get:132 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libatomic1 arm64 12.3.0-1ubuntu1~22.04.2 [10.8 kB] +#7 11.71 Get:133 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libasan6 arm64 11.4.0-1ubuntu1~22.04.2 [2,236 kB] +#7 11.78 Get:134 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 liblsan0 arm64 12.3.0-1ubuntu1~22.04.2 [1,038 kB] +#7 11.84 Get:135 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libtsan0 arm64 11.4.0-1ubuntu1~22.04.2 [2,239 kB] +#7 11.85 Get:136 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libubsan1 arm64 12.3.0-1ubuntu1~22.04.2 [967 kB] +#7 11.85 Get:137 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libhwasan0 arm64 12.3.0-1ubuntu1~22.04.2 [1,120 kB] +#7 11.95 Get:138 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgcc-11-dev arm64 11.4.0-1ubuntu1~22.04.2 [1,145 kB] +#7 11.96 Get:139 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gcc-11 arm64 11.4.0-1ubuntu1~22.04.2 [19.5 MB] +#7 12.36 Get:140 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 gcc arm64 4:11.2.0-1ubuntu1 [5,128 B] +#7 12.38 Get:141 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libstdc++-11-dev arm64 11.4.0-1ubuntu1~22.04.2 [2,088 kB] +#7 12.56 Get:142 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 g++-11 arm64 11.4.0-1ubuntu1~22.04.2 [11.2 MB] +#7 12.80 Get:143 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 g++ arm64 4:11.2.0-1ubuntu1 [1,394 B] +#7 12.81 Get:144 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 make arm64 4.3-4.1build1 [177 kB] +#7 12.82 Get:145 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libdpkg-perl all 1.21.1ubuntu2.6 [237 kB] +#7 12.83 Get:146 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 patch arm64 2.7.6-7build2 [105 kB] +#7 12.83 Get:147 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 lto-disabled-list all 24 [12.5 kB] +#7 12.84 Get:148 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 dpkg-dev all 1.21.1ubuntu2.6 [922 kB] +#7 12.85 Get:149 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 build-essential arm64 12.9ubuntu3 [4,740 B] +#7 12.85 Get:150 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 bzip2-doc all 1.0.8-5build1 [500 kB] +#7 12.92 Get:151 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libbrotli1 arm64 1.0.9-2build6 [314 kB] +#7 13.05 Get:152 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libsasl2-modules-db arm64 2.1.27+dfsg2-3ubuntu1.2 [21.1 kB] +#7 13.05 Get:153 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libsasl2-2 arm64 2.1.27+dfsg2-3ubuntu1.2 [55.6 kB] +#7 13.05 Get:154 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libldap-2.5-0 arm64 2.5.19+dfsg-0ubuntu0.22.04.1 [181 kB] +#7 13.08 Get:155 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2build4 [59.2 kB] +#7 13.09 Get:156 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libssh-4 arm64 0.9.6-2ubuntu0.22.04.5 [185 kB] +#7 13.10 Get:157 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libcurl4 arm64 7.81.0-1ubuntu1.21 [284 kB] +#7 13.10 Get:158 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 curl arm64 7.81.0-1ubuntu1.21 [190 kB] +#7 13.12 Get:159 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libassuan0 arm64 2.5.5-1build1 [36.5 kB] +#7 13.12 Get:160 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpgconf arm64 2.2.27-3ubuntu2.4 [92.9 kB] +#7 13.12 Get:161 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libksba8 arm64 1.6.0-2ubuntu0.2 [117 kB] +#7 13.17 Get:162 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libnpth0 arm64 1.6-3build2 [8,156 B] +#7 13.19 Get:163 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 dirmngr arm64 2.2.27-3ubuntu2.4 [289 kB] +#7 13.28 Get:164 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libfreetype6 arm64 2.11.1+dfsg-1ubuntu0.3 [382 kB] +#7 13.30 Get:165 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 fonts-urw-base35 all 20200910-1 [6,367 kB] +#7 13.45 Get:166 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgs9-common all 9.55.0~dfsg1-0ubuntu5.13 [753 kB] +#7 13.51 Get:167 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libavahi-common-data arm64 0.8-5ubuntu5.2 [23.8 kB] +#7 13.51 Get:168 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libavahi-common3 arm64 0.8-5ubuntu5.2 [23.4 kB] +#7 13.51 Get:169 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libavahi-client3 arm64 0.8-5ubuntu5.2 [27.4 kB] +#7 13.51 Get:170 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libcups2 arm64 2.4.1op1-1ubuntu4.12 [267 kB] +#7 13.51 Get:171 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 fonts-texgyre all 20180621-3.1 [10.2 MB] +#7 13.69 Get:172 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 fontconfig-config all 2.13.1-4.2ubuntu5 [29.1 kB] +#7 13.73 Get:173 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libfontconfig1 arm64 2.13.1-4.2ubuntu5 [135 kB] +#7 13.82 Get:174 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libidn12 arm64 1.38-4ubuntu1 [60.1 kB] +#7 13.83 Get:175 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libijs-0.35 arm64 0.35-15build2 [16.1 kB] +#7 13.83 Get:176 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libjbig2dec0 arm64 0.19-3build2 [63.0 kB] +#7 13.84 Get:177 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libopenjp2-7 arm64 2.4.0-6ubuntu0.4 [155 kB] +#7 13.86 Get:178 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libpaper1 arm64 1.1.28build2 [13.6 kB] +#7 13.86 Get:179 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgs9 arm64 9.55.0~dfsg1-0ubuntu5.13 [4,948 kB] +#7 14.31 Get:180 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libkpathsea6 arm64 2021.20210626.59705-1ubuntu0.2 [59.8 kB] +#7 14.32 Get:181 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libwoff1 arm64 1.0.2-1build4 [43.7 kB] +#7 14.32 Get:182 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 dvisvgm arm64 2.13.1-1 [1,169 kB] +#7 14.37 Get:183 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libfakeroot arm64 1.28-1ubuntu1 [31.5 kB] +#7 14.41 Get:184 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 fakeroot arm64 1.28-1ubuntu1 [60.5 kB] +#7 14.48 Get:185 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 fontconfig arm64 2.13.1-4.2ubuntu5 [183 kB] +#7 14.53 Get:186 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 fonts-lmodern all 2.004.5-6.1 [4,532 kB] +#7 14.67 Get:187 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 fonts-noto-mono all 20201225-1build1 [397 kB] +#7 14.71 Get:188 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgfortran5 arm64 12.3.0-1ubuntu1~22.04.2 [417 kB] +#7 14.72 Get:189 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgfortran-11-dev arm64 11.4.0-1ubuntu1~22.04.2 [466 kB] +#7 14.73 Get:190 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gfortran-11 arm64 11.4.0-1ubuntu1~22.04.2 [11.0 MB] +#7 15.00 Get:191 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 gfortran arm64 4:11.2.0-1ubuntu1 [1,168 B] +#7 15.00 Get:192 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gnupg-l10n all 2.2.27-3ubuntu2.4 [54.7 kB] +#7 15.01 Get:193 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gnupg-utils arm64 2.2.27-3ubuntu2.4 [304 kB] +#7 15.01 Get:194 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpg arm64 2.2.27-3ubuntu2.4 [507 kB] +#7 15.05 Get:195 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 pinentry-curses arm64 1.1.1-1build2 [33.5 kB] +#7 15.10 Get:196 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpg-agent arm64 2.2.27-3ubuntu2.4 [204 kB] +#7 15.16 Get:197 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpg-wks-client arm64 2.2.27-3ubuntu2.4 [61.4 kB] +#7 15.17 Get:198 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpg-wks-server arm64 2.2.27-3ubuntu2.4 [56.8 kB] +#7 15.18 Get:199 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gpgsm arm64 2.2.27-3ubuntu2.4 [192 kB] +#7 15.19 Get:200 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 gnupg all 2.2.27-3ubuntu2.4 [315 kB] +#7 15.21 Get:201 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 icu-devtools arm64 70.1-2 [193 kB] +#7 15.22 Get:202 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 javascript-common all 11+nmu1 [5,936 B] +#7 15.22 Get:203 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libalgorithm-diff-perl all 1.201-1 [41.8 kB] +#7 15.22 Get:204 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libalgorithm-diff-xs-perl arm64 0.04-6build3 [11.7 kB] +#7 15.26 Get:205 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libalgorithm-merge-perl all 0.08-3 [12.0 kB] +#7 15.26 Get:206 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 libapache-pom-java all 18-1 [4,720 B] +#7 15.28 Get:207 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libatk1.0-data all 2.36.0-3build1 [2,824 B] +#7 15.28 Get:208 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libatk1.0-0 arm64 2.36.0-3build1 [51.0 kB] +#7 15.32 Get:209 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libatk-bridge2.0-0 arm64 2.38.0-3 [65.7 kB] +#7 15.35 Get:210 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libblas3 arm64 3.10.0-2ubuntu1 [141 kB] +#7 15.39 Get:211 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libblas-dev arm64 3.10.0-2ubuntu1 [110 kB] +#7 15.40 Get:212 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libbz2-dev arm64 1.0.8-5build1 [34.5 kB] +#7 15.40 Get:213 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libxpm4 arm64 1:3.5.12-1ubuntu0.22.04.2 [35.5 kB] +#7 15.41 Get:214 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgd3 arm64 2.3.0-2ubuntu2.3 [127 kB] +#7 15.42 Get:215 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libc-devtools arm64 2.35-0ubuntu3.11 [27.8 kB] +#7 15.47 Get:216 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libpixman-1-0 arm64 0.40.0-1ubuntu0.22.04.1 [160 kB] +#7 15.58 Get:217 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxcb-render0 arm64 1.14-3ubuntu3 [16.2 kB] +#7 15.58 Get:218 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxcb-shm0 arm64 1.14-3ubuntu3 [5,848 B] +#7 15.58 Get:219 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxrender1 arm64 1:0.9.10-1build4 [18.8 kB] +#7 15.58 Get:220 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libcairo2 arm64 1.16.0-5ubuntu2 [613 kB] +#7 15.63 Get:221 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libcairo-gobject2 arm64 1.16.0-5ubuntu2 [19.4 kB] +#7 15.63 Get:222 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libclone-perl arm64 0.45-1build3 [10.8 kB] +#7 15.63 Get:223 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 liblcms2-2 arm64 2.12~rc1-2build2 [157 kB] +#7 15.64 Get:224 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libcolord2 arm64 1.4.6-1 [152 kB] +#7 15.64 Get:225 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 libcommons-parent-java all 43-1 [10.8 kB] +#7 15.64 Get:226 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 libcommons-logging-java all 1.2-2 [60.3 kB] +#7 15.69 Get:227 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libcurl4-openssl-dev arm64 7.81.0-1ubuntu1.21 [392 kB] +#7 15.83 Get:228 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libdata-dump-perl all 1.25-1 [25.9 kB] +#7 15.83 Get:229 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libdatrie1 arm64 0.2.13-2 [19.8 kB] +#7 15.83 Get:230 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libdrm-amdgpu1 arm64 2.4.113-2~ubuntu0.22.04.1 [19.8 kB] +#7 15.83 Get:231 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libdrm-nouveau2 arm64 2.4.113-2~ubuntu0.22.04.1 [17.5 kB] +#7 15.83 Get:232 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libdrm-radeon1 arm64 2.4.113-2~ubuntu0.22.04.1 [21.2 kB] +#7 15.83 Get:233 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libencode-locale-perl all 1.05-1.1 [11.8 kB] +#7 15.83 Get:234 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libepoxy0 arm64 1.5.10-1 [247 kB] +#7 15.86 Get:235 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libipc-system-simple-perl all 1.30-1 [23.2 kB] +#7 15.86 Get:236 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libfile-basedir-perl all 0.09-1 [15.7 kB] +#7 15.87 Get:237 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 liburi-perl all 5.10-1 [78.8 kB] +#7 15.91 Get:238 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libfile-desktopentry-perl all 0.22-2 [17.8 kB] +#7 15.95 Get:239 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libfile-fcntllock-perl arm64 0.22-3build7 [33.7 kB] +#7 15.98 Get:240 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libtimedate-perl all 2.3300-2 [34.0 kB] +#7 16.00 Get:241 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libhttp-date-perl all 6.05-1 [9,920 B] +#7 16.00 Get:242 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libfile-listing-perl all 6.14-1 [11.2 kB] +#7 16.00 Get:243 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libfile-mimeinfo-perl all 0.31-1 [43.5 kB] +#7 16.01 Get:244 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libfont-afm-perl all 1.20-3 [13.6 kB] +#7 16.01 Get:245 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libfontenc1 arm64 1:1.1.4-1build3 [14.1 kB] +#7 16.01 Get:246 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgdk-pixbuf2.0-bin arm64 2.42.8+dfsg-1ubuntu0.4 [14.1 kB] +#7 16.01 Get:247 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libglapi-mesa arm64 23.2.1-1ubuntu3.1~22.04.3 [52.2 kB] +#7 16.02 Get:248 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgl1-amber-dri arm64 21.3.9-0ubuntu1~22.04.1 [1,850 kB] +#7 16.14 Get:249 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libllvm15 arm64 1:15.0.7-0ubuntu0.22.04.3 [24.2 MB] +#7 16.85 Get:250 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libsensors-config all 1:3.6.0-7ubuntu1 [5,274 B] +#7 16.85 Get:251 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libsensors5 arm64 1:3.6.0-7ubuntu1 [26.1 kB] +#7 16.85 Get:252 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxcb-dri3-0 arm64 1.14-3ubuntu3 [6,922 B] +#7 16.85 Get:253 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgl1-mesa-dri arm64 23.2.1-1ubuntu3.1~22.04.3 [8,091 kB] +#7 17.13 Get:254 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libx11-xcb1 arm64 2:1.7.5-1ubuntu0.3 [7,822 B] +#7 17.13 Get:255 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxcb-dri2-0 arm64 1.14-3ubuntu3 [7,242 B] +#7 17.13 Get:256 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxcb-glx0 arm64 1.14-3ubuntu3 [26.1 kB] +#7 17.17 Get:257 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxcb-present0 arm64 1.14-3ubuntu3 [5,724 B] +#7 17.17 Get:258 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxcb-randr0 arm64 1.14-3ubuntu3 [18.4 kB] +#7 17.20 Get:259 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxcb-sync1 arm64 1.14-3ubuntu3 [9,312 B] +#7 17.20 Get:260 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxcb-xfixes0 arm64 1.14-3ubuntu3 [10.0 kB] +#7 17.21 Get:261 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxfixes3 arm64 1:6.0.0-1 [11.4 kB] +#7 17.22 Get:262 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxshmfence1 arm64 1.3-1build4 [5,444 B] +#7 17.22 Get:263 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxxf86vm1 arm64 1:1.1.4-1build3 [10.3 kB] +#7 17.23 Get:264 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libglx-mesa0 arm64 23.2.1-1ubuntu3.1~22.04.3 [165 kB] +#7 17.26 Get:265 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libgmpxx4ldbl arm64 2:6.2.1+dfsg-3ubuntu1 [9,524 B] +#7 17.26 Get:266 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libgmp-dev arm64 2:6.2.1+dfsg-3ubuntu1 [329 kB] +#7 17.29 Get:267 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libgpm2 arm64 1.20.7-10build1 [15.5 kB] +#7 17.33 Get:268 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libgraphite2-3 arm64 1.3.14-1build2 [68.9 kB] +#7 17.41 Get:269 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libharfbuzz0b arm64 2.7.4-1ubuntu3.2 [353 kB] +#7 17.47 Get:270 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libthai-data all 0.1.29-1build1 [162 kB] +#7 17.48 Get:271 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libthai0 arm64 0.1.29-1build1 [18.4 kB] +#7 17.49 Get:272 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libpango-1.0-0 arm64 1.50.6+ds-2ubuntu1 [225 kB] +#7 17.51 Get:273 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libpangoft2-1.0-0 arm64 1.50.6+ds-2ubuntu1 [52.0 kB] +#7 17.51 Get:274 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libpangocairo-1.0-0 arm64 1.50.6+ds-2ubuntu1 [37.8 kB] +#7 17.51 Get:275 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libwayland-client0 arm64 1.20.0-1ubuntu0.1 [25.4 kB] +#7 17.56 Get:276 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libwayland-cursor0 arm64 1.20.0-1ubuntu0.1 [10.5 kB] +#7 17.56 Get:277 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libwayland-egl1 arm64 1.20.0-1ubuntu0.1 [5,516 B] +#7 17.58 Get:278 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxcomposite1 arm64 1:0.4.5-1build2 [7,080 B] +#7 17.59 Get:279 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxcursor1 arm64 1:1.2.0-2build4 [20.9 kB] +#7 17.61 Get:280 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxdamage1 arm64 1:1.1.5-2build2 [6,950 B] +#7 17.61 Get:281 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxinerama1 arm64 2:1.1.4-3 [7,056 B] +#7 17.61 Get:282 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxkbcommon0 arm64 1.4.0-1 [122 kB] +#7 17.65 Get:283 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxrandr2 arm64 2:1.5.2-1build1 [19.6 kB] +#7 17.65 Get:284 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgtk-3-common all 3.24.33-1ubuntu2.2 [239 kB] +#7 17.68 Get:285 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgtk-3-0 arm64 3.24.33-1ubuntu2.2 [2,990 kB] +#7 17.78 Get:286 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libgtk-3-bin arm64 3.24.33-1ubuntu2.2 [69.1 kB] +#7 17.82 Get:287 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 librsvg2-2 arm64 2.52.5+dfsg-3ubuntu0.2 [2,765 kB] +#7 18.04 Get:288 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 libllvm11 arm64 1:11.1.0-6 [17.2 MB] +#7 18.52 Get:289 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 libphobos2-ldc-shared98 arm64 1:1.28.0-1ubuntu1 [1,373 kB] +#7 18.52 Get:290 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 libgtkd-3-0 arm64 3.10.0-1ubuntu1 [1,924 kB] +#7 18.54 Get:291 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libhtml-tagset-perl all 3.20-4 [12.5 kB] +#7 18.54 Get:292 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libhtml-parser-perl arm64 3.76-1build2 [87.1 kB] +#7 18.54 Get:293 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libio-html-perl all 1.004-2 [15.4 kB] +#7 18.54 Get:294 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 liblwp-mediatypes-perl all 6.04-1 [19.5 kB] +#7 18.54 Get:295 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libhttp-message-perl all 6.36-1 [76.8 kB] +#7 18.55 Get:296 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libhtml-form-perl all 6.07-1 [22.2 kB] +#7 18.55 Get:297 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libhtml-tree-perl all 5.07-2 [200 kB] +#7 18.59 Get:298 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libhtml-format-perl all 2.12-1.1 [41.3 kB] +#7 18.65 Get:299 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libhttp-cookies-perl all 6.10-1 [18.4 kB] +#7 18.66 Get:300 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libhttp-daemon-perl all 6.13-1ubuntu0.1 [22.9 kB] +#7 18.67 Get:301 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libhttp-negotiate-perl all 6.01-1 [12.5 kB] +#7 18.67 Get:302 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libice6 arm64 2:1.0.10-1build2 [41.7 kB] +#7 18.68 Get:303 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libicu-dev arm64 70.1-2 [11.6 MB] +#7 19.12 Get:304 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 perl-openssl-defaults arm64 5build2 [7,544 B] +#7 19.12 Get:305 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libnet-ssleay-perl arm64 1.92-1build2 [326 kB] +#7 19.12 Get:306 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libio-socket-ssl-perl all 2.074-2 [192 kB] +#7 19.12 Get:307 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libio-stringy-perl all 2.111-3 [55.8 kB] +#7 19.13 Get:308 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libjpeg-turbo8-dev arm64 2.1.2-0ubuntu1 [246 kB] +#7 19.17 Get:309 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libjpeg8-dev arm64 8c-2ubuntu10 [1,476 B] +#7 19.19 Get:310 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libjpeg-dev arm64 8c-2ubuntu10 [1,474 B] +#7 19.20 Get:311 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libjs-jquery all 3.6.0+dfsg+~3.5.13-1 [321 kB] +#7 19.29 Get:312 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 liblapack3 arm64 3.10.0-2ubuntu1 [2,009 kB] +#7 19.37 Get:313 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 liblapack-dev arm64 3.10.0-2ubuntu1 [3,386 kB] +#7 19.45 Get:314 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libldap-common all 2.5.19+dfsg-0ubuntu0.22.04.1 [16.1 kB] +#7 19.45 Get:315 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libnet-http-perl all 6.22-1 [23.2 kB] +#7 19.45 Get:316 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libtry-tiny-perl all 0.31-1 [21.8 kB] +#7 19.45 Get:317 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libwww-robotrules-perl all 6.02-1 [12.6 kB] +#7 19.45 Get:318 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libwww-perl all 6.61-1 [141 kB] +#7 19.45 Get:319 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 liblwp-protocol-https-perl all 6.10-1 [10.9 kB] +#7 19.50 Get:320 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libnet-smtp-ssl-perl all 1.04-1 [5,948 B] +#7 19.52 Get:321 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libmailtools-perl all 2.21-1 [80.7 kB] +#7 19.57 Get:322 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libncurses-dev arm64 6.3-2ubuntu0.1 [381 kB] +#7 19.62 Get:323 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libncurses5-dev arm64 6.3-2ubuntu0.1 [790 B] +#7 19.62 Get:324 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxml-parser-perl arm64 2.46-3build1 [211 kB] +#7 19.64 Get:325 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxml-twig-perl all 1:3.52-1 [157 kB] +#7 19.65 Get:326 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libnet-dbus-perl arm64 1.2.0-1build3 [180 kB] +#7 19.65 Get:327 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libpaper-utils arm64 1.1.28build2 [8,498 B] +#7 19.65 Get:328 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libpcre16-3 arm64 2:8.39-13ubuntu0.22.04.1 [150 kB] +#7 19.66 Get:329 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libpcre2-16-0 arm64 10.39-3ubuntu0.1 [185 kB] +#7 19.67 Get:330 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libpcre2-32-0 arm64 10.39-3ubuntu0.1 [177 kB] +#7 19.72 Get:331 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libpcre2-posix3 arm64 10.39-3ubuntu0.1 [5,968 B] +#7 19.74 Get:332 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libpcre2-dev arm64 10.39-3ubuntu0.1 [663 kB] +#7 19.86 Get:333 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libpcre32-3 arm64 2:8.39-13ubuntu0.22.04.1 [141 kB] +#7 19.87 Get:334 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libpcrecpp0v5 arm64 2:8.39-13ubuntu0.22.04.1 [16.1 kB] +#7 19.87 Get:335 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libpcre3-dev arm64 2:8.39-13ubuntu0.22.04.1 [527 kB] +#7 19.89 Get:336 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 zlib1g-dev arm64 1:1.2.11.dfsg-2ubuntu9.2 [163 kB] +#7 19.90 Get:337 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libpng-dev arm64 1.6.37-3build5 [194 kB] +#7 19.90 Get:338 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libpng-tools arm64 1.6.37-3build5 [28.6 kB] +#7 19.90 Get:339 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libptexenc1 arm64 2021.20210626.59705-1ubuntu0.2 [38.3 kB] +#7 19.90 Get:340 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libpython3.10 arm64 3.10.12-1~22.04.11 [1,887 kB] +#7 19.95 Get:341 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libreadline-dev arm64 8.1.2-1 [178 kB] +#7 20.01 Get:342 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 librsvg2-common arm64 2.52.5+dfsg-3ubuntu0.2 [17.5 kB] +#7 20.06 Get:343 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 rubygems-integration all 1.18 [5,336 B] +#7 20.06 Get:344 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 ruby3.0 arm64 3.0.2-7ubuntu2.11 [50.2 kB] +#7 20.09 Get:345 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 ruby-rubygems all 3.3.5-2ubuntu1.2 [228 kB] +#7 20.13 Get:346 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 ruby arm64 1:3.0~exp1 [5,100 B] +#7 20.14 Get:347 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 rake all 13.0.6-2 [61.7 kB] +#7 20.14 Get:348 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 ruby-net-telnet all 0.1.1-2 [12.6 kB] +#7 20.14 Get:349 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 ruby-webrick all 1.7.0-3ubuntu0.2 [52.5 kB] +#7 20.15 Get:350 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 ruby-xmlrpc all 0.3.2-1ubuntu0.1 [24.9 kB] +#7 20.15 Get:351 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libruby3.0 arm64 3.0.2-7ubuntu2.11 [5,045 kB] +#7 20.30 Get:352 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libsasl2-modules arm64 2.1.27+dfsg2-3ubuntu1.2 [68.4 kB] +#7 20.35 Get:353 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libsm6 arm64 2:1.2.3-1build2 [16.1 kB] +#7 20.40 Get:354 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libsodium23 arm64 1.0.18-1build2 [123 kB] +#7 20.46 Get:355 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libssl-dev arm64 3.0.2-0ubuntu1.20 [2,302 kB] +#7 20.57 Get:356 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libsynctex2 arm64 2021.20210626.59705-1ubuntu0.2 [54.7 kB] +#7 20.57 Get:357 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libtcl8.6 arm64 8.6.12+dfsg-1build1 [987 kB] +#7 20.61 Get:358 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 libteckit0 arm64 2.5.11+ds1-1 [409 kB] +#7 20.61 Get:359 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libtexlua53 arm64 2021.20210626.59705-1ubuntu0.2 [118 kB] +#7 20.61 Get:360 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libtie-ixhash-perl all 1.23-2.1 [11.3 kB] +#7 20.61 Get:361 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxft2 arm64 2.3.4-1 [40.9 kB] +#7 20.61 Get:362 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxss1 arm64 1:1.2.3-1build2 [8,252 B] +#7 20.61 Get:363 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libtk8.6 arm64 8.6.12-1build1 [777 kB] +#7 20.66 Get:364 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libvte-2.91-common arm64 0.68.0-1ubuntu0.1 [9,326 B] +#7 20.68 Get:365 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libvte-2.91-0 arm64 0.68.0-1ubuntu0.1 [198 kB] +#7 20.76 Get:366 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 libvted-3-0 arm64 3.10.0-1ubuntu1 [52.4 kB] +#7 20.76 Get:367 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libx11-protocol-perl all 0.56-7.1 [138 kB] +#7 20.79 Get:368 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxt6 arm64 1:1.2.1-1 [171 kB] +#7 20.79 Get:369 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxmu6 arm64 2:1.1.3-3 [48.9 kB] +#7 20.79 Get:370 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxaw7 arm64 2:1.0.14-1 [184 kB] +#7 20.81 Get:371 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxcb-shape0 arm64 1.14-3ubuntu3 [6,092 B] +#7 20.81 Get:372 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxkbfile1 arm64 1:1.1.0-1build3 [71.2 kB] +#7 20.82 Get:373 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxml-xpathengine-perl all 0.14-1 [31.8 kB] +#7 20.82 Get:374 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 libxml2-dev arm64 2.9.13+dfsg-1ubuntu0.10 [805 kB] +#7 20.91 Get:375 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxv1 arm64 2:1.0.11-1build2 [11.0 kB] +#7 20.93 Get:376 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libxxf86dga1 arm64 2:1.1.5-0ubuntu3 [12.2 kB] +#7 20.94 Get:377 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 libzzip-0-13 arm64 0.13.72+dfsg.1-1.1 [26.6 kB] +#7 20.96 Get:378 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] +#7 21.04 Get:379 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 xfonts-utils arm64 1:7.7+6build2 [93.6 kB] +#7 21.05 Get:380 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 lmodern all 2.004.5-6.1 [9,471 kB] +#7 21.38 Get:381 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 manpages-dev all 5.10-1ubuntu1 [2,309 kB] +#7 21.39 Get:382 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 pkg-config arm64 0.29.2-1ubuntu3 [47.4 kB] +#7 21.39 Get:383 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 preview-latex-style all 12.2-1ubuntu1 [185 kB] +#7 21.40 Get:384 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 zip arm64 3.0-12build2 [173 kB] +#7 21.40 Get:385 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 unzip arm64 6.0-26ubuntu3.2 [171 kB] +#7 21.46 Get:386 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 xdg-utils all 1.1.3-4.1ubuntu3~22.04.1 [61.9 kB] +#7 21.53 Get:387 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-base-core arm64 4.1.2-1ubuntu2 [25.7 MB] +#7 22.25 Get:388 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-cran-boot all 1.3-28-2 [618 kB] +#7 22.26 Get:389 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-cran-cluster arm64 2.1.2-2 [539 kB] +#7 22.26 Get:390 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-cran-foreign arm64 0.8.82-1 [242 kB] +#7 22.26 Get:391 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-cran-mass arm64 7.3-55-1 [1,115 kB] +#7 22.28 Get:392 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-cran-kernsmooth arm64 2.23-20-1 [89.9 kB] +#7 22.28 Get:393 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-cran-lattice arm64 0.20-45-1 [1,130 kB] +#7 22.30 Get:394 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-cran-nlme arm64 3.1.155-1 [2,232 kB] +#7 22.33 Get:395 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-cran-matrix arm64 1.4-0-1 [4,274 kB] +#7 22.41 Get:396 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-cran-mgcv arm64 1.8-39-1 [2,982 kB] +#7 22.49 Get:397 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-cran-survival arm64 3.2-13-1 [6,570 kB] +#7 22.80 Get:398 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-cran-rpart arm64 4.1.16-1 [892 kB] +#7 22.86 Get:399 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-cran-class arm64 7.3-20-1 [88.2 kB] +#7 22.86 Get:400 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-cran-nnet arm64 7.3-17-1 [111 kB] +#7 22.86 Get:401 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-cran-spatial arm64 7.3-15-1 [132 kB] +#7 22.87 Get:402 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-cran-codetools all 0.2-18-1 [90.8 kB] +#7 22.88 Get:403 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-recommended all 4.1.2-1ubuntu2 [2,624 B] +#7 22.88 Get:404 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-base all 4.1.2-1ubuntu2 [9,288 B] +#7 22.88 Get:405 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 liblzma-dev arm64 5.2.5-2ubuntu1 [159 kB] +#7 22.89 Get:406 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-base-dev all 4.1.2-1ubuntu2 [4,306 B] +#7 22.90 Get:407 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-doc-html all 4.1.2-1ubuntu2 [557 kB] +#7 22.95 Get:408 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 ruby3.0-dev arm64 3.0.2-7ubuntu2.11 [245 kB] +#7 23.06 Get:409 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 ruby-dev arm64 1:3.0~exp1 [4,326 B] +#7 23.06 Get:410 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 ruby3.0-doc all 3.0.2-7ubuntu2.11 [1,856 kB] +#7 23.15 Get:411 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 t1utils arm64 1.41-4build2 [61.5 kB] +#7 23.17 Get:412 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 tcl8.6 arm64 8.6.12+dfsg-1build1 [15.0 kB] +#7 23.18 Get:413 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 tcl arm64 8.6.11+1build2 [4,678 B] +#7 23.18 Get:414 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 teckit arm64 2.5.11+ds1-1 [700 kB] +#7 23.19 Get:415 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 tex-gyre all 20180621-3.1 [6,209 kB] +#7 23.37 Get:416 http://ports.ubuntu.com/ubuntu-ports jammy-updates/universe arm64 texlive-binaries arm64 2021.20210626.59705-1ubuntu0.2 [8,439 kB] +#7 23.61 Get:417 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 texlive-base all 2021.20220204-1 [21.0 MB] +#7 24.10 Get:418 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 texlive-fonts-recommended all 2021.20220204-1 [4,972 kB] +#7 24.26 Get:419 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 texlive-latex-base all 2021.20220204-1 [1,128 kB] +#7 24.43 Get:420 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 libfontbox-java all 1:1.8.16-2 [207 kB] +#7 24.44 Get:421 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 libpdfbox-java all 1:1.8.16-2 [5,199 kB] +#7 24.61 Get:422 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 texlive-latex-recommended all 2021.20220204-1 [14.4 MB] +#7 24.93 Get:423 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 texlive-pictures all 2021.20220204-1 [8,720 kB] +#7 25.07 Get:424 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 texlive-latex-extra all 2021.20220204-1 [13.9 MB] +#7 25.30 Get:425 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 texlive-plain-generic all 2021.20220204-1 [27.5 MB] +#7 25.77 Get:426 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 tipa all 2:1.3-21 [2,967 kB] +#7 25.81 Get:427 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 texlive-xetex all 2021.20220204-1 [12.4 MB] +#7 25.98 Get:428 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 tilix-common all 1.9.4-2build1 [281 kB] +#7 25.98 Get:429 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 tilix arm64 1.9.4-2build1 [643 kB] +#7 26.03 Get:430 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 tk8.6 arm64 8.6.12-1build1 [12.7 kB] +#7 26.06 Get:431 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 tk arm64 8.6.11+1build2 [3,058 B] +#7 26.06 Get:432 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 vim-runtime all 2:8.2.3995-1ubuntu2.24 [6,833 kB] +#7 26.41 Get:433 http://ports.ubuntu.com/ubuntu-ports jammy-updates/main arm64 vim arm64 2:8.2.3995-1ubuntu2.24 [1,664 kB] +#7 26.42 Get:434 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libglvnd0 arm64 1.4.0-1 [61.0 kB] +#7 26.43 Get:435 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libglx0 arm64 1.4.0-1 [37.1 kB] +#7 26.43 Get:436 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libgl1 arm64 1.4.0-1 [114 kB] +#7 26.43 Get:437 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 x11-utils arm64 7.7+5build2 [205 kB] +#7 26.43 Get:438 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 x11-xserver-utils arm64 7.7+9build1 [167 kB] +#7 26.43 Get:439 http://ports.ubuntu.com/ubuntu-ports jammy/main arm64 libauthen-sasl-perl all 2.1600-1.1 [43.1 kB] +#7 26.43 Get:440 http://ports.ubuntu.com/ubuntu-ports jammy/universe arm64 r-base-html all 4.1.2-1ubuntu2 [57.2 kB] +#7 26.54 debconf: delaying package configuration, since apt-utils is not installed +#7 26.55 Fetched 469 MB in 22s (21.4 MB/s) +#7 26.67 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) +#7 26.68 Preparing to unpack .../perl-base_5.34.0-3ubuntu1.5_arm64.deb ... +#7 26.71 Unpacking perl-base (5.34.0-3ubuntu1.5) over (5.34.0-3ubuntu1.2) ... +#7 26.93 Setting up perl-base (5.34.0-3ubuntu1.5) ... +#7 27.10 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) +#7 27.10 Preparing to unpack .../libsystemd0_249.11-0ubuntu3.17_arm64.deb ... +#7 27.21 Unpacking libsystemd0:arm64 (249.11-0ubuntu3.17) over (249.11-0ubuntu3.10) ... +#7 27.30 Setting up libsystemd0:arm64 (249.11-0ubuntu3.17) ... +#7 27.35 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) +#7 27.35 Preparing to unpack .../gcc-12-base_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#7 27.36 Unpacking gcc-12-base:arm64 (12.3.0-1ubuntu1~22.04.2) over (12.3.0-1ubuntu1~22.04) ... +#7 27.47 Setting up gcc-12-base:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 27.50 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) +#7 27.50 Preparing to unpack .../libgcc-s1_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#7 27.51 Unpacking libgcc-s1:arm64 (12.3.0-1ubuntu1~22.04.2) over (12.3.0-1ubuntu1~22.04) ... +#7 27.53 Setting up libgcc-s1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 27.55 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) +#7 27.55 Preparing to unpack .../libstdc++6_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#7 27.56 Unpacking libstdc++6:arm64 (12.3.0-1ubuntu1~22.04.2) over (12.3.0-1ubuntu1~22.04) ... +#7 27.59 Setting up libstdc++6:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 27.63 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) +#7 27.64 Preparing to unpack .../libc6_2.35-0ubuntu3.11_arm64.deb ... +#7 27.85 Unpacking libc6:arm64 (2.35-0ubuntu3.11) over (2.35-0ubuntu3.4) ... +#7 28.01 Setting up libc6:arm64 (2.35-0ubuntu3.11) ... +#7 29.14 Selecting previously unselected package liblocale-gettext-perl. +#7 29.14 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5857 files and directories currently installed.) +#7 29.15 Preparing to unpack .../liblocale-gettext-perl_1.07-4build3_arm64.deb ... +#7 29.15 Unpacking liblocale-gettext-perl (1.07-4build3) ... +#7 29.18 Preparing to unpack .../libssl3_3.0.2-0ubuntu1.20_arm64.deb ... +#7 29.18 Unpacking libssl3:arm64 (3.0.2-0ubuntu1.20) over (3.0.2-0ubuntu1.10) ... +#7 29.23 Setting up libssl3:arm64 (3.0.2-0ubuntu1.20) ... +#7 29.39 Selecting previously unselected package libpython3.10-minimal:arm64. +#7 29.39 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 5871 files and directories currently installed.) +#7 29.39 Preparing to unpack .../libpython3.10-minimal_3.10.12-1~22.04.11_arm64.deb ... +#7 29.40 Unpacking libpython3.10-minimal:arm64 (3.10.12-1~22.04.11) ... +#7 29.49 Selecting previously unselected package libexpat1:arm64. +#7 29.49 Preparing to unpack .../libexpat1_2.4.7-1ubuntu0.6_arm64.deb ... +#7 29.49 Unpacking libexpat1:arm64 (2.4.7-1ubuntu0.6) ... +#7 29.59 Selecting previously unselected package python3.10-minimal. +#7 29.59 Preparing to unpack .../python3.10-minimal_3.10.12-1~22.04.11_arm64.deb ... +#7 29.59 Unpacking python3.10-minimal (3.10.12-1~22.04.11) ... +#7 29.69 Setting up libpython3.10-minimal:arm64 (3.10.12-1~22.04.11) ... +#7 29.70 Setting up libexpat1:arm64 (2.4.7-1ubuntu0.6) ... +#7 29.71 Setting up python3.10-minimal (3.10.12-1~22.04.11) ... +#7 30.12 Selecting previously unselected package python3-minimal. +#7 30.12 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6175 files and directories currently installed.) +#7 30.12 Preparing to unpack .../0-python3-minimal_3.10.6-1~22.04.1_arm64.deb ... +#7 30.13 Unpacking python3-minimal (3.10.6-1~22.04.1) ... +#7 30.15 Selecting previously unselected package media-types. +#7 30.15 Preparing to unpack .../1-media-types_7.0.0_all.deb ... +#7 30.15 Unpacking media-types (7.0.0) ... +#7 30.17 Selecting previously unselected package libmpdec3:arm64. +#7 30.17 Preparing to unpack .../2-libmpdec3_2.5.1-2build2_arm64.deb ... +#7 30.17 Unpacking libmpdec3:arm64 (2.5.1-2build2) ... +#7 30.24 Selecting previously unselected package readline-common. +#7 ... -#10 [rust-builder 6/6] RUN ls -l /usr/local/bin -#10 0.145 total 558880 -#10 0.145 drwxr-xr-x 1 root root 0 Oct 20 2023 before-notebook.d -#10 0.145 -rwxr-xr-x 1 root root 1043 Aug 19 2023 fix-permissions -#10 0.145 -rwxr-xr-x 1 root root 19803400 Nov 5 09:58 obiannotate -#10 0.145 -rwxr-xr-x 1 root root 20079416 Nov 5 09:58 obiclean -#10 0.145 -rwxr-xr-x 1 root root 19765616 Nov 5 09:58 obicleandb -#10 0.145 -rwxr-xr-x 1 root root 19562704 Nov 5 09:58 obicomplement -#10 0.145 -rwxr-xr-x 1 root root 20263896 Nov 5 09:58 obiconsensus -#10 0.145 -rwxr-xr-x 1 root root 19562760 Nov 5 09:58 obiconvert -#10 0.145 -rwxr-xr-x 1 root root 19288648 Nov 5 09:58 obicount -#10 0.145 -rwxr-xr-x 1 root root 19568056 Nov 5 09:58 obicsv -#10 0.145 -rwxr-xr-x 1 root root 19569688 Nov 5 09:58 obidemerge -#10 0.145 -rwxr-xr-x 1 root root 19581400 Nov 5 09:58 obidistribute -#10 0.145 -rwxr-xr-x 1 root root 19711024 Nov 5 09:58 obigrep -#10 0.145 -rwxr-xr-x 1 root root 19600488 Nov 5 09:58 obijoin -#10 0.145 -rwxr-xr-x 1 root root 19788488 Nov 5 09:58 obikmermatch -#10 0.145 -rwxr-xr-x 1 root root 19721640 Nov 5 09:58 obikmersimcount -#10 0.145 -rwxr-xr-x 1 root root 19661496 Nov 5 09:58 obilandmark -#10 0.145 -rwxr-xr-x 1 root root 19359192 Nov 5 09:58 obimatrix -#10 0.145 -rwxr-xr-x 1 root root 19932464 Nov 5 09:58 obimicrosat -#10 0.145 -rwxr-xr-x 1 root root 19718320 Nov 5 09:58 obimultiplex -#10 0.145 -rwxr-xr-x 1 root root 19639328 Nov 5 09:58 obipairing -#10 0.145 -rwxr-xr-x 1 root root 19638176 Nov 5 09:58 obipcr -#10 0.145 -rwxr-xr-x 1 root root 19649392 Nov 5 09:58 obireffamidx -#10 0.145 -rwxr-xr-x 1 root root 19606240 Nov 5 09:58 obirefidx -#10 0.145 -rwxr-xr-x 1 root root 20809824 Nov 5 09:58 obiscript -#10 0.145 -rwxr-xr-x 1 root root 19624912 Nov 5 09:58 obisplit -#10 0.145 -rwxr-xr-x 1 root root 19923272 Nov 5 09:58 obisummary -#10 0.145 -rwxr-xr-x 1 root root 19661632 Nov 5 09:58 obitag -#10 0.145 -rwxr-xr-x 1 root root 19793288 Nov 5 09:58 obitagpcr -#10 0.145 -rwxr-xr-x 1 root root 19607312 Nov 5 09:58 obitaxonomy -#10 0.145 -rwxr-xr-x 1 root root 19692664 Nov 5 09:58 obiuniq -#10 0.145 -rwxr-xr-x 1 root root 1331 Sep 4 2023 run-hooks.sh -#10 0.145 drwxr-xr-x 1 root root 0 Oct 20 2023 start-notebook.d -#10 0.145 -rwxr-xr-x 1 root root 1471 Oct 17 2023 start-notebook.py -#10 0.145 -rwxr-xr-x 1 root root 152 Oct 17 2023 start-notebook.sh -#10 0.145 -rwxr-xr-x 1 root root 11624 Aug 25 2023 start.sh -#10 0.145 -rwxr-xr-x 1 root root 726 Oct 17 2023 start-singleuser.py -#10 0.145 -rwxr-xr-x 1 root root 158 Oct 17 2023 start-singleuser.sh -#10 DONE 0.2s +#8 [rust-builder 3/6] RUN curl https://sh.rustup.rs -sSf | bash -s -- -y +#8 0.301 info: downloading installer +#8 8.279 error: $HOME differs from euid-obtained home directory: you may be using sudo +#8 8.279 error: $HOME directory: /home/jovyan +#8 8.279 error: euid-obtained home directory: /root +#8 8.306 info: profile set to 'default' +#8 8.307 info: default host triple is aarch64-unknown-linux-gnu +#8 8.307 info: syncing channel updates for 'stable-aarch64-unknown-linux-gnu' +#8 8.541 info: latest update on 2025-10-30, rust version 1.91.0 (f8297e351 2025-10-28) +#8 8.541 info: downloading component 'cargo' +#8 9.528 info: downloading component 'clippy' +#8 9.731 info: downloading component 'rust-docs' +#8 ... -#11 [stage-1 8/12] RUN chmod +x /usr/local/bin/start-notebook.sh -#11 CACHED +#7 [stage-1 2/11] RUN apt-get update && apt-get install -y r-base libcurl4-openssl-dev libssl-dev libxml2-dev curl texlive-xetex texlive-fonts-recommended texlive-plain-generic ruby ruby-dev vim nano && apt-get clean && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* +#7 30.24 Preparing to unpack .../3-readline-common_8.1.2-1_all.deb ... +#7 30.24 Unpacking readline-common (8.1.2-1) ... +#7 30.26 Selecting previously unselected package libreadline8:arm64. +#7 30.26 Preparing to unpack .../4-libreadline8_8.1.2-1_arm64.deb ... +#7 30.27 Unpacking libreadline8:arm64 (8.1.2-1) ... +#7 30.33 Selecting previously unselected package libsqlite3-0:arm64. +#7 30.33 Preparing to unpack .../5-libsqlite3-0_3.37.2-2ubuntu0.5_arm64.deb ... +#7 30.34 Unpacking libsqlite3-0:arm64 (3.37.2-2ubuntu0.5) ... +#7 30.36 Selecting previously unselected package libpython3.10-stdlib:arm64. +#7 30.36 Preparing to unpack .../6-libpython3.10-stdlib_3.10.12-1~22.04.11_arm64.deb ... +#7 30.36 Unpacking libpython3.10-stdlib:arm64 (3.10.12-1~22.04.11) ... +#7 30.44 Selecting previously unselected package python3.10. +#7 30.44 Preparing to unpack .../7-python3.10_3.10.12-1~22.04.11_arm64.deb ... +#7 30.44 Unpacking python3.10 (3.10.12-1~22.04.11) ... +#7 30.46 Selecting previously unselected package libpython3-stdlib:arm64. +#7 30.46 Preparing to unpack .../8-libpython3-stdlib_3.10.6-1~22.04.1_arm64.deb ... +#7 30.46 Unpacking libpython3-stdlib:arm64 (3.10.6-1~22.04.1) ... +#7 30.48 Setting up python3-minimal (3.10.6-1~22.04.1) ... +#7 30.59 Selecting previously unselected package python3. +#7 30.59 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 6605 files and directories currently installed.) +#7 30.59 Preparing to unpack .../0-python3_3.10.6-1~22.04.1_arm64.deb ... +#7 30.59 Unpacking python3 (3.10.6-1~22.04.1) ... +#7 30.61 Selecting previously unselected package libapparmor1:arm64. +#7 30.61 Preparing to unpack .../1-libapparmor1_3.0.4-2ubuntu2.4_arm64.deb ... +#7 30.61 Unpacking libapparmor1:arm64 (3.0.4-2ubuntu2.4) ... +#7 30.63 Selecting previously unselected package libargon2-1:arm64. +#7 30.63 Preparing to unpack .../2-libargon2-1_0~20171227-0.3_arm64.deb ... +#7 30.63 Unpacking libargon2-1:arm64 (0~20171227-0.3) ... +#7 30.65 Selecting previously unselected package libdevmapper1.02.1:arm64. +#7 30.65 Preparing to unpack .../3-libdevmapper1.02.1_2%3a1.02.175-2.1ubuntu5_arm64.deb ... +#7 30.65 Unpacking libdevmapper1.02.1:arm64 (2:1.02.175-2.1ubuntu5) ... +#7 30.67 Selecting previously unselected package libjson-c5:arm64. +#7 30.67 Preparing to unpack .../4-libjson-c5_0.15-3~ubuntu1.22.04.2_arm64.deb ... +#7 30.67 Unpacking libjson-c5:arm64 (0.15-3~ubuntu1.22.04.2) ... +#7 30.69 Selecting previously unselected package libcryptsetup12:arm64. +#7 30.69 Preparing to unpack .../5-libcryptsetup12_2%3a2.4.3-1ubuntu1.3_arm64.deb ... +#7 30.69 Unpacking libcryptsetup12:arm64 (2:2.4.3-1ubuntu1.3) ... +#7 30.72 Selecting previously unselected package libip4tc2:arm64. +#7 30.72 Preparing to unpack .../6-libip4tc2_1.8.7-1ubuntu5.2_arm64.deb ... +#7 30.74 Unpacking libip4tc2:arm64 (1.8.7-1ubuntu5.2) ... +#7 30.78 Selecting previously unselected package libkmod2:arm64. +#7 30.78 Preparing to unpack .../7-libkmod2_29-1ubuntu1_arm64.deb ... +#7 30.78 Unpacking libkmod2:arm64 (29-1ubuntu1) ... +#7 30.81 Selecting previously unselected package systemd. +#7 30.81 Preparing to unpack .../8-systemd_249.11-0ubuntu3.17_arm64.deb ... +#7 30.82 Unpacking systemd (249.11-0ubuntu3.17) ... +#7 30.94 Setting up libapparmor1:arm64 (3.0.4-2ubuntu2.4) ... +#7 30.95 Setting up libargon2-1:arm64 (0~20171227-0.3) ... +#7 30.96 Setting up libdevmapper1.02.1:arm64 (2:1.02.175-2.1ubuntu5) ... +#7 30.97 Setting up libjson-c5:arm64 (0.15-3~ubuntu1.22.04.2) ... +#7 31.01 Setting up libcryptsetup12:arm64 (2:2.4.3-1ubuntu1.3) ... +#7 31.04 Setting up libip4tc2:arm64 (1.8.7-1ubuntu5.2) ... +#7 31.05 Setting up libkmod2:arm64 (29-1ubuntu1) ... +#7 31.06 Setting up systemd (249.11-0ubuntu3.17) ... +#7 31.08 Created symlink /etc/systemd/system/getty.target.wants/getty@tty1.service → /lib/systemd/system/getty@.service. +#7 31.08 Created symlink /etc/systemd/system/multi-user.target.wants/remote-fs.target → /lib/systemd/system/remote-fs.target. +#7 31.08 Created symlink /etc/systemd/system/dbus-org.freedesktop.resolve1.service → /lib/systemd/system/systemd-resolved.service. +#7 31.08 Created symlink /etc/systemd/system/multi-user.target.wants/systemd-resolved.service → /lib/systemd/system/systemd-resolved.service. +#7 31.09 ln: failed to create symbolic link '/etc/resolv.conf': Device or resource busy +#7 31.09 Created symlink /etc/systemd/system/sysinit.target.wants/systemd-pstore.service → /lib/systemd/system/systemd-pstore.service. +#7 31.09 Initializing machine ID from random generator. +#7 31.39 Selecting previously unselected package systemd-sysv. +#7 31.39 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 7444 files and directories currently installed.) +#7 31.39 Preparing to unpack .../00-systemd-sysv_249.11-0ubuntu3.17_arm64.deb ... +#7 31.40 Unpacking systemd-sysv (249.11-0ubuntu3.17) ... +#7 31.47 Selecting previously unselected package fonts-droid-fallback. +#7 31.47 Preparing to unpack .../01-fonts-droid-fallback_1%3a6.0.1r16-1.1build1_all.deb ... +#7 31.48 Unpacking fonts-droid-fallback (1:6.0.1r16-1.1build1) ... +#7 31.61 Selecting previously unselected package fonts-lato. +#7 31.61 Preparing to unpack .../02-fonts-lato_2.0-2.1_all.deb ... +#7 31.62 Unpacking fonts-lato (2.0-2.1) ... +#7 31.86 Selecting previously unselected package perl-modules-5.34. +#7 31.86 Preparing to unpack .../03-perl-modules-5.34_5.34.0-3ubuntu1.5_all.deb ... +#7 31.86 Unpacking perl-modules-5.34 (5.34.0-3ubuntu1.5) ... +#7 32.01 Selecting previously unselected package libgdbm6:arm64. +#7 32.01 Preparing to unpack .../04-libgdbm6_1.23-1_arm64.deb ... +#7 32.01 Unpacking libgdbm6:arm64 (1.23-1) ... +#7 32.03 Selecting previously unselected package libgdbm-compat4:arm64. +#7 32.03 Preparing to unpack .../05-libgdbm-compat4_1.23-1_arm64.deb ... +#7 32.03 Unpacking libgdbm-compat4:arm64 (1.23-1) ... +#7 32.04 Selecting previously unselected package libperl5.34:arm64. +#7 32.04 Preparing to unpack .../06-libperl5.34_5.34.0-3ubuntu1.5_arm64.deb ... +#7 32.05 Unpacking libperl5.34:arm64 (5.34.0-3ubuntu1.5) ... +#7 32.24 Selecting previously unselected package perl. +#7 32.24 Preparing to unpack .../07-perl_5.34.0-3ubuntu1.5_arm64.deb ... +#7 32.24 Unpacking perl (5.34.0-3ubuntu1.5) ... +#7 32.30 Selecting previously unselected package poppler-data. +#7 32.30 Preparing to unpack .../08-poppler-data_0.4.11-1_all.deb ... +#7 32.31 Unpacking poppler-data (0.4.11-1) ... +#7 32.40 Selecting previously unselected package ucf. +#7 32.40 Preparing to unpack .../09-ucf_3.0043_all.deb ... +#7 32.40 Moving old data out of the way +#7 32.40 Unpacking ucf (3.0043) ... +#7 32.43 Selecting previously unselected package tex-common. +#7 32.43 Preparing to unpack .../10-tex-common_6.17_all.deb ... +#7 32.43 Unpacking tex-common (6.17) ... +#7 32.50 Preparing to unpack .../11-gpgv_2.2.27-3ubuntu2.4_arm64.deb ... +#7 32.51 Unpacking gpgv (2.2.27-3ubuntu2.4) over (2.2.27-3ubuntu2.1) ... +#7 32.53 Setting up gpgv (2.2.27-3ubuntu2.4) ... +#7 32.55 Selecting previously unselected package libdbus-1-3:arm64. +#7 32.55 (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 10132 files and directories currently installed.) +#7 32.56 Preparing to unpack .../000-libdbus-1-3_1.12.20-2ubuntu4.1_arm64.deb ... +#7 32.56 Unpacking libdbus-1-3:arm64 (1.12.20-2ubuntu4.1) ... +#7 32.58 Selecting previously unselected package dbus. +#7 32.58 Preparing to unpack .../001-dbus_1.12.20-2ubuntu4.1_arm64.deb ... +#7 32.58 Unpacking dbus (1.12.20-2ubuntu4.1) ... +#7 32.60 Selecting previously unselected package dmsetup. +#7 32.60 Preparing to unpack .../002-dmsetup_2%3a1.02.175-2.1ubuntu5_arm64.deb ... +#7 32.60 Unpacking dmsetup (2:1.02.175-2.1ubuntu5) ... +#7 32.63 Selecting previously unselected package libglib2.0-0:arm64. +#7 32.63 Preparing to unpack .../003-libglib2.0-0_2.72.4-0ubuntu2.6_arm64.deb ... +#7 32.63 Unpacking libglib2.0-0:arm64 (2.72.4-0ubuntu2.6) ... +#7 32.66 Selecting previously unselected package libgirepository-1.0-1:arm64. +#7 32.66 Preparing to unpack .../004-libgirepository-1.0-1_1.72.0-1_arm64.deb ... +#7 32.67 Unpacking libgirepository-1.0-1:arm64 (1.72.0-1) ... +#7 32.69 Selecting previously unselected package gir1.2-glib-2.0:arm64. +#7 32.69 Preparing to unpack .../005-gir1.2-glib-2.0_1.72.0-1_arm64.deb ... +#7 32.71 Unpacking gir1.2-glib-2.0:arm64 (1.72.0-1) ... +#7 32.75 Selecting previously unselected package libmd0:arm64. +#7 32.75 Preparing to unpack .../006-libmd0_1.0.4-1build1_arm64.deb ... +#7 32.75 Unpacking libmd0:arm64 (1.0.4-1build1) ... +#7 32.77 Selecting previously unselected package libbsd0:arm64. +#7 32.77 Preparing to unpack .../007-libbsd0_0.11.5-1_arm64.deb ... +#7 32.77 Unpacking libbsd0:arm64 (0.11.5-1) ... +#7 32.82 Selecting previously unselected package libelf1:arm64. +#7 32.82 Preparing to unpack .../008-libelf1_0.186-1ubuntu0.1_arm64.deb ... +#7 32.83 Unpacking libelf1:arm64 (0.186-1ubuntu0.1) ... +#7 32.86 Selecting previously unselected package libfribidi0:arm64. +#7 32.86 Preparing to unpack .../009-libfribidi0_1.0.8-2ubuntu3.1_arm64.deb ... +#7 32.86 Unpacking libfribidi0:arm64 (1.0.8-2ubuntu3.1) ... +#7 32.88 Selecting previously unselected package libglib2.0-data. +#7 32.88 Preparing to unpack .../010-libglib2.0-data_2.72.4-0ubuntu2.6_all.deb ... +#7 32.88 Unpacking libglib2.0-data (2.72.4-0ubuntu2.6) ... +#7 32.90 Selecting previously unselected package libicu70:arm64. +#7 32.90 Preparing to unpack .../011-libicu70_70.1-2_arm64.deb ... +#7 32.91 Unpacking libicu70:arm64 (70.1-2) ... +#7 33.06 Selecting previously unselected package libnss-systemd:arm64. +#7 33.06 Preparing to unpack .../012-libnss-systemd_249.11-0ubuntu3.17_arm64.deb ... +#7 33.06 Unpacking libnss-systemd:arm64 (249.11-0ubuntu3.17) ... +#7 33.08 Selecting previously unselected package libpam-systemd:arm64. +#7 33.08 Preparing to unpack .../013-libpam-systemd_249.11-0ubuntu3.17_arm64.deb ... +#7 33.08 Unpacking libpam-systemd:arm64 (249.11-0ubuntu3.17) ... +#7 33.10 Selecting previously unselected package libtext-iconv-perl. +#7 33.10 Preparing to unpack .../014-libtext-iconv-perl_1.7-7build3_arm64.deb ... +#7 33.10 Unpacking libtext-iconv-perl (1.7-7build3) ... +#7 33.12 Selecting previously unselected package libxml2:arm64. +#7 33.12 Preparing to unpack .../015-libxml2_2.9.13+dfsg-1ubuntu0.10_arm64.deb ... +#7 33.12 Unpacking libxml2:arm64 (2.9.13+dfsg-1ubuntu0.10) ... +#7 33.21 Selecting previously unselected package libyaml-0-2:arm64. +#7 33.21 Preparing to unpack .../016-libyaml-0-2_0.2.2-1build2_arm64.deb ... +#7 33.21 Unpacking libyaml-0-2:arm64 (0.2.2-1build2) ... +#7 33.23 Selecting previously unselected package netbase. +#7 33.23 Preparing to unpack .../017-netbase_6.3_all.deb ... +#7 33.24 Unpacking netbase (6.3) ... +#7 33.30 Selecting previously unselected package python3-dbus. +#7 33.31 Preparing to unpack .../018-python3-dbus_1.2.18-3build1_arm64.deb ... +#7 33.31 Unpacking python3-dbus (1.2.18-3build1) ... +#7 33.33 Selecting previously unselected package python3-gi. +#7 33.33 Preparing to unpack .../019-python3-gi_3.42.1-0ubuntu1_arm64.deb ... +#7 33.33 Unpacking python3-gi (3.42.1-0ubuntu1) ... +#7 33.41 Selecting previously unselected package networkd-dispatcher. +#7 33.41 Preparing to unpack .../020-networkd-dispatcher_2.1-2ubuntu0.22.04.2_all.deb ... +#7 33.41 Unpacking networkd-dispatcher (2.1-2ubuntu0.22.04.2) ... +#7 33.43 Selecting previously unselected package shared-mime-info. +#7 33.43 Preparing to unpack .../021-shared-mime-info_2.1-2_arm64.deb ... +#7 33.43 Unpacking shared-mime-info (2.1-2) ... +#7 33.51 Selecting previously unselected package systemd-timesyncd. +#7 33.52 Preparing to unpack .../022-systemd-timesyncd_249.11-0ubuntu3.17_arm64.deb ... +#7 33.52 Unpacking systemd-timesyncd (249.11-0ubuntu3.17) ... +#7 33.54 Selecting previously unselected package tzdata. +#7 33.54 Preparing to unpack .../023-tzdata_2025b-0ubuntu0.22.04.1_all.deb ... +#7 33.55 Unpacking tzdata (2025b-0ubuntu0.22.04.1) ... +#7 33.65 Selecting previously unselected package xxd. +#7 33.65 Preparing to unpack .../024-xxd_2%3a8.2.3995-1ubuntu2.24_arm64.deb ... +#7 33.65 Unpacking xxd (2:8.2.3995-1ubuntu2.24) ... +#7 33.67 Selecting previously unselected package vim-common. +#7 33.67 Preparing to unpack .../025-vim-common_2%3a8.2.3995-1ubuntu2.24_all.deb ... +#7 33.68 Unpacking vim-common (2:8.2.3995-1ubuntu2.24) ... +#7 33.76 Selecting previously unselected package xdg-user-dirs. +#7 33.76 Preparing to unpack .../026-xdg-user-dirs_0.17-2ubuntu4_arm64.deb ... +#7 33.76 Unpacking xdg-user-dirs (0.17-2ubuntu4) ... +#7 33.84 Selecting previously unselected package xkb-data. +#7 33.84 Preparing to unpack .../027-xkb-data_2.33-1_all.deb ... +#7 33.84 Unpacking xkb-data (2.33-1) ... +#7 33.89 Selecting previously unselected package libdrm-common. +#7 33.89 Preparing to unpack .../028-libdrm-common_2.4.113-2~ubuntu0.22.04.1_all.deb ... +#7 33.89 Unpacking libdrm-common (2.4.113-2~ubuntu0.22.04.1) ... +#7 33.91 Selecting previously unselected package libdrm2:arm64. +#7 33.91 Preparing to unpack .../029-libdrm2_2.4.113-2~ubuntu0.22.04.1_arm64.deb ... +#7 33.91 Unpacking libdrm2:arm64 (2.4.113-2~ubuntu0.22.04.1) ... +#7 33.98 Selecting previously unselected package libedit2:arm64. +#7 33.98 Preparing to unpack .../030-libedit2_3.1-20210910-1build1_arm64.deb ... +#7 33.98 Unpacking libedit2:arm64 (3.1-20210910-1build1) ... +#7 34.01 Selecting previously unselected package libnghttp2-14:arm64. +#7 34.01 Preparing to unpack .../031-libnghttp2-14_1.43.0-1ubuntu0.2_arm64.deb ... +#7 34.01 Unpacking libnghttp2-14:arm64 (1.43.0-1ubuntu0.2) ... +#7 34.03 Selecting previously unselected package libpng16-16:arm64. +#7 34.03 Preparing to unpack .../032-libpng16-16_1.6.37-3build5_arm64.deb ... +#7 34.04 Unpacking libpng16-16:arm64 (1.6.37-3build5) ... +#7 34.05 Selecting previously unselected package libxau6:arm64. +#7 34.05 Preparing to unpack .../033-libxau6_1%3a1.0.9-1build5_arm64.deb ... +#7 34.06 Unpacking libxau6:arm64 (1:1.0.9-1build5) ... +#7 34.08 Selecting previously unselected package libxdmcp6:arm64. +#7 34.08 Preparing to unpack .../034-libxdmcp6_1%3a1.1.3-0ubuntu5_arm64.deb ... +#7 34.08 Unpacking libxdmcp6:arm64 (1:1.1.3-0ubuntu5) ... +#7 34.10 Selecting previously unselected package libxcb1:arm64. +#7 34.10 Preparing to unpack .../035-libxcb1_1.14-3ubuntu3_arm64.deb ... +#7 34.11 Unpacking libxcb1:arm64 (1.14-3ubuntu3) ... +#7 34.13 Selecting previously unselected package libx11-data. +#7 34.13 Preparing to unpack .../036-libx11-data_2%3a1.7.5-1ubuntu0.3_all.deb ... +#7 34.13 Unpacking libx11-data (2:1.7.5-1ubuntu0.3) ... +#7 34.17 Selecting previously unselected package libx11-6:arm64. +#7 34.17 Preparing to unpack .../037-libx11-6_2%3a1.7.5-1ubuntu0.3_arm64.deb ... +#7 34.18 Unpacking libx11-6:arm64 (2:1.7.5-1ubuntu0.3) ... +#7 34.25 Selecting previously unselected package libxext6:arm64. +#7 34.25 Preparing to unpack .../038-libxext6_2%3a1.3.4-1build1_arm64.deb ... +#7 34.25 Unpacking libxext6:arm64 (2:1.3.4-1build1) ... +#7 34.32 Selecting previously unselected package libxmuu1:arm64. +#7 34.32 Preparing to unpack .../039-libxmuu1_2%3a1.1.3-3_arm64.deb ... +#7 34.33 Unpacking libxmuu1:arm64 (2:1.1.3-3) ... +#7 34.34 Selecting previously unselected package manpages. +#7 34.35 Preparing to unpack .../040-manpages_5.10-1ubuntu1_all.deb ... +#7 34.35 Unpacking manpages (5.10-1ubuntu1) ... +#7 34.44 Selecting previously unselected package nano. +#7 34.44 Preparing to unpack .../041-nano_6.2-1ubuntu0.1_arm64.deb ... +#7 34.44 Unpacking nano (6.2-1ubuntu0.1) ... +#7 34.47 Selecting previously unselected package xauth. +#7 34.47 Preparing to unpack .../042-xauth_1%3a1.1-1build2_arm64.deb ... +#7 34.47 Unpacking xauth (1:1.1-1build2) ... +#7 34.54 Selecting previously unselected package xz-utils. +#7 34.54 Preparing to unpack .../043-xz-utils_5.2.5-2ubuntu1_arm64.deb ... +#7 34.54 Unpacking xz-utils (5.2.5-2ubuntu1) ... +#7 34.56 Selecting previously unselected package hicolor-icon-theme. +#7 34.57 Preparing to unpack .../044-hicolor-icon-theme_0.17-2_all.deb ... +#7 34.57 Unpacking hicolor-icon-theme (0.17-2) ... +#7 34.60 Selecting previously unselected package libgdk-pixbuf2.0-common. +#7 34.60 Preparing to unpack .../045-libgdk-pixbuf2.0-common_2.42.8+dfsg-1ubuntu0.4_all.deb ... +#7 34.60 Unpacking libgdk-pixbuf2.0-common (2.42.8+dfsg-1ubuntu0.4) ... +#7 34.62 Selecting previously unselected package libjpeg-turbo8:arm64. +#7 34.62 Preparing to unpack .../046-libjpeg-turbo8_2.1.2-0ubuntu1_arm64.deb ... +#7 34.63 Unpacking libjpeg-turbo8:arm64 (2.1.2-0ubuntu1) ... +#7 34.64 Selecting previously unselected package libjpeg8:arm64. +#7 34.65 Preparing to unpack .../047-libjpeg8_8c-2ubuntu10_arm64.deb ... +#7 34.65 Unpacking libjpeg8:arm64 (8c-2ubuntu10) ... +#7 34.67 Selecting previously unselected package libdeflate0:arm64. +#7 34.67 Preparing to unpack .../048-libdeflate0_1.10-2_arm64.deb ... +#7 34.67 Unpacking libdeflate0:arm64 (1.10-2) ... +#7 34.74 Selecting previously unselected package libjbig0:arm64. +#7 34.74 Preparing to unpack .../049-libjbig0_2.1-3.1ubuntu0.22.04.1_arm64.deb ... +#7 34.74 Unpacking libjbig0:arm64 (2.1-3.1ubuntu0.22.04.1) ... +#7 34.78 Selecting previously unselected package libwebp7:arm64. +#7 34.78 Preparing to unpack .../050-libwebp7_1.2.2-2ubuntu0.22.04.2_arm64.deb ... +#7 34.80 Unpacking libwebp7:arm64 (1.2.2-2ubuntu0.22.04.2) ... +#7 34.84 Selecting previously unselected package libtiff5:arm64. +#7 34.84 Preparing to unpack .../051-libtiff5_4.3.0-6ubuntu0.12_arm64.deb ... +#7 34.84 Unpacking libtiff5:arm64 (4.3.0-6ubuntu0.12) ... +#7 34.92 Selecting previously unselected package libgdk-pixbuf-2.0-0:arm64. +#7 34.92 Preparing to unpack .../052-libgdk-pixbuf-2.0-0_2.42.8+dfsg-1ubuntu0.4_arm64.deb ... +#7 34.92 Unpacking libgdk-pixbuf-2.0-0:arm64 (2.42.8+dfsg-1ubuntu0.4) ... +#7 34.96 Selecting previously unselected package gtk-update-icon-cache. +#7 34.96 Preparing to unpack .../053-gtk-update-icon-cache_3.24.33-1ubuntu2.2_arm64.deb ... +#7 34.98 Unpacking gtk-update-icon-cache (3.24.33-1ubuntu2.2) ... +#7 35.02 Selecting previously unselected package humanity-icon-theme. +#7 35.02 Preparing to unpack .../054-humanity-icon-theme_0.6.16_all.deb ... +#7 35.02 Unpacking humanity-icon-theme (0.6.16) ... +#7 35.42 Selecting previously unselected package ubuntu-mono. +#7 35.42 Preparing to unpack .../055-ubuntu-mono_20.10-0ubuntu2_all.deb ... +#7 35.42 Unpacking ubuntu-mono (20.10-0ubuntu2) ... +#7 35.59 Selecting previously unselected package adwaita-icon-theme. +#7 35.59 Preparing to unpack .../056-adwaita-icon-theme_41.0-1ubuntu1_all.deb ... +#7 35.60 Unpacking adwaita-icon-theme (41.0-1ubuntu1) ... +#7 35.73 Selecting previously unselected package libxi6:arm64. +#7 35.73 Preparing to unpack .../057-libxi6_2%3a1.8-1build1_arm64.deb ... +#7 35.75 Unpacking libxi6:arm64 (2:1.8-1build1) ... +#7 35.82 Selecting previously unselected package libatspi2.0-0:arm64. +#7 35.82 Preparing to unpack .../058-libatspi2.0-0_2.44.0-3_arm64.deb ... +#7 35.83 Unpacking libatspi2.0-0:arm64 (2.44.0-3) ... +#7 35.91 Selecting previously unselected package x11-common. +#7 35.91 Preparing to unpack .../059-x11-common_1%3a7.7+23ubuntu2_all.deb ... +#7 35.92 Unpacking x11-common (1:7.7+23ubuntu2) ... +#7 36.00 Selecting previously unselected package libxtst6:arm64. +#7 36.00 Preparing to unpack .../060-libxtst6_2%3a1.2.3-1build4_arm64.deb ... +#7 36.00 Unpacking libxtst6:arm64 (2:1.2.3-1build4) ... +#7 36.08 Selecting previously unselected package dbus-user-session. +#7 36.08 Preparing to unpack .../061-dbus-user-session_1.12.20-2ubuntu4.1_arm64.deb ... +#7 36.09 Unpacking dbus-user-session (1.12.20-2ubuntu4.1) ... +#7 36.11 Selecting previously unselected package libdconf1:arm64. +#7 36.11 Preparing to unpack .../062-libdconf1_0.40.0-3ubuntu0.1_arm64.deb ... +#7 36.11 Unpacking libdconf1:arm64 (0.40.0-3ubuntu0.1) ... +#7 36.14 Selecting previously unselected package dconf-service. +#7 36.14 Preparing to unpack .../063-dconf-service_0.40.0-3ubuntu0.1_arm64.deb ... +#7 36.16 Unpacking dconf-service (0.40.0-3ubuntu0.1) ... +#7 36.21 Selecting previously unselected package dconf-gsettings-backend:arm64. +#7 36.21 Preparing to unpack .../064-dconf-gsettings-backend_0.40.0-3ubuntu0.1_arm64.deb ... +#7 36.21 Unpacking dconf-gsettings-backend:arm64 (0.40.0-3ubuntu0.1) ... +#7 36.23 Selecting previously unselected package session-migration. +#7 36.23 Preparing to unpack .../065-session-migration_0.3.6_arm64.deb ... +#7 36.24 Unpacking session-migration (0.3.6) ... +#7 36.30 Selecting previously unselected package gsettings-desktop-schemas. +#7 36.31 Preparing to unpack .../066-gsettings-desktop-schemas_42.0-1ubuntu1_all.deb ... +#7 36.31 Unpacking gsettings-desktop-schemas (42.0-1ubuntu1) ... +#7 36.36 Selecting previously unselected package at-spi2-core. +#7 36.36 Preparing to unpack .../067-at-spi2-core_2.44.0-3_arm64.deb ... +#7 36.38 Unpacking at-spi2-core (2.44.0-3) ... +#7 36.41 Selecting previously unselected package binutils-common:arm64. +#7 36.41 Preparing to unpack .../068-binutils-common_2.38-4ubuntu2.10_arm64.deb ... +#7 36.41 Unpacking binutils-common:arm64 (2.38-4ubuntu2.10) ... +#7 36.44 Selecting previously unselected package libbinutils:arm64. +#7 36.44 Preparing to unpack .../069-libbinutils_2.38-4ubuntu2.10_arm64.deb ... +#7 36.46 Unpacking libbinutils:arm64 (2.38-4ubuntu2.10) ... +#7 36.51 Selecting previously unselected package libctf-nobfd0:arm64. +#7 36.51 Preparing to unpack .../070-libctf-nobfd0_2.38-4ubuntu2.10_arm64.deb ... +#7 36.51 Unpacking libctf-nobfd0:arm64 (2.38-4ubuntu2.10) ... +#7 36.53 Selecting previously unselected package libctf0:arm64. +#7 36.54 Preparing to unpack .../071-libctf0_2.38-4ubuntu2.10_arm64.deb ... +#7 36.55 Unpacking libctf0:arm64 (2.38-4ubuntu2.10) ... +#7 36.61 Selecting previously unselected package binutils-aarch64-linux-gnu. +#7 36.61 Preparing to unpack .../072-binutils-aarch64-linux-gnu_2.38-4ubuntu2.10_arm64.deb ... +#7 36.62 Unpacking binutils-aarch64-linux-gnu (2.38-4ubuntu2.10) ... +#7 36.73 Selecting previously unselected package binutils. +#7 36.74 Preparing to unpack .../073-binutils_2.38-4ubuntu2.10_arm64.deb ... +#7 36.74 Unpacking binutils (2.38-4ubuntu2.10) ... +#7 36.78 Selecting previously unselected package libc-dev-bin. +#7 36.78 Preparing to unpack .../074-libc-dev-bin_2.35-0ubuntu3.11_arm64.deb ... +#7 36.80 Unpacking libc-dev-bin (2.35-0ubuntu3.11) ... +#7 36.84 Selecting previously unselected package linux-libc-dev:arm64. +#7 36.84 Preparing to unpack .../075-linux-libc-dev_5.15.0-161.171_arm64.deb ... +#7 36.84 Unpacking linux-libc-dev:arm64 (5.15.0-161.171) ... +#7 36.99 Selecting previously unselected package libcrypt-dev:arm64. +#7 36.99 Preparing to unpack .../076-libcrypt-dev_1%3a4.4.27-1_arm64.deb ... +#7 36.99 Unpacking libcrypt-dev:arm64 (1:4.4.27-1) ... +#7 37.06 Selecting previously unselected package rpcsvc-proto. +#7 37.07 Preparing to unpack .../077-rpcsvc-proto_1.4.2-0ubuntu6_arm64.deb ... +#7 37.07 Unpacking rpcsvc-proto (1.4.2-0ubuntu6) ... +#7 37.09 Selecting previously unselected package libtirpc-dev:arm64. +#7 37.09 Preparing to unpack .../078-libtirpc-dev_1.3.2-2ubuntu0.1_arm64.deb ... +#7 37.09 Unpacking libtirpc-dev:arm64 (1.3.2-2ubuntu0.1) ... +#7 37.12 Selecting previously unselected package libnsl-dev:arm64. +#7 37.13 Preparing to unpack .../079-libnsl-dev_1.3.0-2build2_arm64.deb ... +#7 37.13 Unpacking libnsl-dev:arm64 (1.3.0-2build2) ... +#7 37.15 Selecting previously unselected package libc6-dev:arm64. +#7 37.15 Preparing to unpack .../080-libc6-dev_2.35-0ubuntu3.11_arm64.deb ... +#7 37.16 Unpacking libc6-dev:arm64 (2.35-0ubuntu3.11) ... +#7 37.30 Selecting previously unselected package gcc-11-base:arm64. +#7 37.30 Preparing to unpack .../081-gcc-11-base_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#7 37.30 Unpacking gcc-11-base:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#7 37.37 Selecting previously unselected package libisl23:arm64. +#7 37.38 Preparing to unpack .../082-libisl23_0.24-2build1_arm64.deb ... +#7 37.39 Unpacking libisl23:arm64 (0.24-2build1) ... +#7 37.42 Selecting previously unselected package libmpfr6:arm64. +#7 37.42 Preparing to unpack .../083-libmpfr6_4.1.0-3build3_arm64.deb ... +#7 37.42 Unpacking libmpfr6:arm64 (4.1.0-3build3) ... +#7 37.51 Selecting previously unselected package libmpc3:arm64. +#7 37.51 Preparing to unpack .../084-libmpc3_1.2.1-2build1_arm64.deb ... +#7 37.52 Unpacking libmpc3:arm64 (1.2.1-2build1) ... +#7 37.54 Selecting previously unselected package cpp-11. +#7 37.54 Preparing to unpack .../085-cpp-11_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#7 37.54 Unpacking cpp-11 (11.4.0-1ubuntu1~22.04.2) ... +#7 37.68 Selecting previously unselected package cpp. +#7 37.68 Preparing to unpack .../086-cpp_4%3a11.2.0-1ubuntu1_arm64.deb ... +#7 37.68 Unpacking cpp (4:11.2.0-1ubuntu1) ... +#7 37.71 Selecting previously unselected package libcc1-0:arm64. +#7 37.71 Preparing to unpack .../087-libcc1-0_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#7 37.71 Unpacking libcc1-0:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 37.79 Selecting previously unselected package libgomp1:arm64. +#7 37.79 Preparing to unpack .../088-libgomp1_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#7 37.80 Unpacking libgomp1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 37.88 Selecting previously unselected package libitm1:arm64. +#7 37.88 Preparing to unpack .../089-libitm1_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#7 37.88 Unpacking libitm1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 37.91 Selecting previously unselected package libatomic1:arm64. +#7 37.91 Preparing to unpack .../090-libatomic1_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#7 37.91 Unpacking libatomic1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 37.96 Selecting previously unselected package libasan6:arm64. +#7 37.96 Preparing to unpack .../091-libasan6_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#7 37.98 Unpacking libasan6:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#7 38.04 Selecting previously unselected package liblsan0:arm64. +#7 38.04 Preparing to unpack .../092-liblsan0_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#7 38.04 Unpacking liblsan0:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 38.12 Selecting previously unselected package libtsan0:arm64. +#7 38.13 Preparing to unpack .../093-libtsan0_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#7 38.13 Unpacking libtsan0:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#7 38.18 Selecting previously unselected package libubsan1:arm64. +#7 38.18 Preparing to unpack .../094-libubsan1_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#7 38.18 Unpacking libubsan1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 38.21 Selecting previously unselected package libhwasan0:arm64. +#7 38.22 Preparing to unpack .../095-libhwasan0_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#7 38.22 Unpacking libhwasan0:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 38.25 Selecting previously unselected package libgcc-11-dev:arm64. +#7 38.25 Preparing to unpack .../096-libgcc-11-dev_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#7 38.26 Unpacking libgcc-11-dev:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#7 38.35 Selecting previously unselected package gcc-11. +#7 38.35 Preparing to unpack .../097-gcc-11_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#7 38.35 Unpacking gcc-11 (11.4.0-1ubuntu1~22.04.2) ... +#7 38.61 Selecting previously unselected package gcc. +#7 38.61 Preparing to unpack .../098-gcc_4%3a11.2.0-1ubuntu1_arm64.deb ... +#7 38.61 Unpacking gcc (4:11.2.0-1ubuntu1) ... +#7 38.63 Selecting previously unselected package libstdc++-11-dev:arm64. +#7 38.63 Preparing to unpack .../099-libstdc++-11-dev_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#7 38.63 Unpacking libstdc++-11-dev:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#7 38.77 Selecting previously unselected package g++-11. +#7 38.77 Preparing to unpack .../100-g++-11_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#7 38.77 Unpacking g++-11 (11.4.0-1ubuntu1~22.04.2) ... +#7 38.93 Selecting previously unselected package g++. +#7 38.93 Preparing to unpack .../101-g++_4%3a11.2.0-1ubuntu1_arm64.deb ... +#7 38.93 Unpacking g++ (4:11.2.0-1ubuntu1) ... +#7 38.95 Selecting previously unselected package make. +#7 38.95 Preparing to unpack .../102-make_4.3-4.1build1_arm64.deb ... +#7 38.95 Unpacking make (4.3-4.1build1) ... +#7 38.97 Selecting previously unselected package libdpkg-perl. +#7 38.97 Preparing to unpack .../103-libdpkg-perl_1.21.1ubuntu2.6_all.deb ... +#7 38.98 Unpacking libdpkg-perl (1.21.1ubuntu2.6) ... +#7 39.00 Selecting previously unselected package patch. +#7 39.00 Preparing to unpack .../104-patch_2.7.6-7build2_arm64.deb ... +#7 39.01 Unpacking patch (2.7.6-7build2) ... +#7 39.03 Selecting previously unselected package lto-disabled-list. +#7 39.03 Preparing to unpack .../105-lto-disabled-list_24_all.deb ... +#7 39.03 Unpacking lto-disabled-list (24) ... +#7 39.05 Selecting previously unselected package dpkg-dev. +#7 39.05 Preparing to unpack .../106-dpkg-dev_1.21.1ubuntu2.6_all.deb ... +#7 39.05 Unpacking dpkg-dev (1.21.1ubuntu2.6) ... +#7 39.08 Selecting previously unselected package build-essential. +#7 39.08 Preparing to unpack .../107-build-essential_12.9ubuntu3_arm64.deb ... +#7 39.08 Unpacking build-essential (12.9ubuntu3) ... +#7 39.15 Selecting previously unselected package bzip2-doc. +#7 39.15 Preparing to unpack .../108-bzip2-doc_1.0.8-5build1_all.deb ... +#7 39.15 Unpacking bzip2-doc (1.0.8-5build1) ... +#7 39.18 Selecting previously unselected package libbrotli1:arm64. +#7 39.18 Preparing to unpack .../109-libbrotli1_1.0.9-2build6_arm64.deb ... +#7 39.19 Unpacking libbrotli1:arm64 (1.0.9-2build6) ... +#7 39.25 Selecting previously unselected package libsasl2-modules-db:arm64. +#7 39.25 Preparing to unpack .../110-libsasl2-modules-db_2.1.27+dfsg2-3ubuntu1.2_arm64.deb ... +#7 39.26 Unpacking libsasl2-modules-db:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... +#7 39.30 Selecting previously unselected package libsasl2-2:arm64. +#7 39.30 Preparing to unpack .../111-libsasl2-2_2.1.27+dfsg2-3ubuntu1.2_arm64.deb ... +#7 39.32 Unpacking libsasl2-2:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... +#7 39.36 Selecting previously unselected package libldap-2.5-0:arm64. +#7 39.36 Preparing to unpack .../112-libldap-2.5-0_2.5.19+dfsg-0ubuntu0.22.04.1_arm64.deb ... +#7 39.36 Unpacking libldap-2.5-0:arm64 (2.5.19+dfsg-0ubuntu0.22.04.1) ... +#7 39.44 Selecting previously unselected package librtmp1:arm64. +#7 39.44 Preparing to unpack .../113-librtmp1_2.4+20151223.gitfa8646d.1-2build4_arm64.deb ... +#7 39.44 Unpacking librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2build4) ... +#7 39.47 Selecting previously unselected package libssh-4:arm64. +#7 39.47 Preparing to unpack .../114-libssh-4_0.9.6-2ubuntu0.22.04.5_arm64.deb ... +#7 39.47 Unpacking libssh-4:arm64 (0.9.6-2ubuntu0.22.04.5) ... +#7 39.51 Selecting previously unselected package libcurl4:arm64. +#7 39.51 Preparing to unpack .../115-libcurl4_7.81.0-1ubuntu1.21_arm64.deb ... +#7 39.53 Unpacking libcurl4:arm64 (7.81.0-1ubuntu1.21) ... +#7 39.57 Selecting previously unselected package curl. +#7 39.57 Preparing to unpack .../116-curl_7.81.0-1ubuntu1.21_arm64.deb ... +#7 39.57 Unpacking curl (7.81.0-1ubuntu1.21) ... +#7 39.63 Selecting previously unselected package libassuan0:arm64. +#7 39.63 Preparing to unpack .../117-libassuan0_2.5.5-1build1_arm64.deb ... +#7 39.65 Unpacking libassuan0:arm64 (2.5.5-1build1) ... +#7 39.67 Selecting previously unselected package gpgconf. +#7 39.67 Preparing to unpack .../118-gpgconf_2.2.27-3ubuntu2.4_arm64.deb ... +#7 39.67 Unpacking gpgconf (2.2.27-3ubuntu2.4) ... +#7 39.75 Selecting previously unselected package libksba8:arm64. +#7 39.75 Preparing to unpack .../119-libksba8_1.6.0-2ubuntu0.2_arm64.deb ... +#7 39.76 Unpacking libksba8:arm64 (1.6.0-2ubuntu0.2) ... +#7 39.78 Selecting previously unselected package libnpth0:arm64. +#7 39.78 Preparing to unpack .../120-libnpth0_1.6-3build2_arm64.deb ... +#7 39.79 Unpacking libnpth0:arm64 (1.6-3build2) ... +#7 39.87 Selecting previously unselected package dirmngr. +#7 39.87 Preparing to unpack .../121-dirmngr_2.2.27-3ubuntu2.4_arm64.deb ... +#7 39.88 Unpacking dirmngr (2.2.27-3ubuntu2.4) ... +#7 39.91 Selecting previously unselected package libfreetype6:arm64. +#7 39.91 Preparing to unpack .../122-libfreetype6_2.11.1+dfsg-1ubuntu0.3_arm64.deb ... +#7 39.91 Unpacking libfreetype6:arm64 (2.11.1+dfsg-1ubuntu0.3) ... +#7 39.99 Selecting previously unselected package fonts-urw-base35. +#7 39.99 Preparing to unpack .../123-fonts-urw-base35_20200910-1_all.deb ... +#7 40.01 Unpacking fonts-urw-base35 (20200910-1) ... +#7 40.31 Selecting previously unselected package libgs9-common. +#7 40.31 Preparing to unpack .../124-libgs9-common_9.55.0~dfsg1-0ubuntu5.13_all.deb ... +#7 40.32 Unpacking libgs9-common (9.55.0~dfsg1-0ubuntu5.13) ... +#7 40.38 Selecting previously unselected package libavahi-common-data:arm64. +#7 40.38 Preparing to unpack .../125-libavahi-common-data_0.8-5ubuntu5.2_arm64.deb ... +#7 40.39 Unpacking libavahi-common-data:arm64 (0.8-5ubuntu5.2) ... +#7 40.41 Selecting previously unselected package libavahi-common3:arm64. +#7 40.41 Preparing to unpack .../126-libavahi-common3_0.8-5ubuntu5.2_arm64.deb ... +#7 40.42 Unpacking libavahi-common3:arm64 (0.8-5ubuntu5.2) ... +#7 40.44 Selecting previously unselected package libavahi-client3:arm64. +#7 40.44 Preparing to unpack .../127-libavahi-client3_0.8-5ubuntu5.2_arm64.deb ... +#7 40.44 Unpacking libavahi-client3:arm64 (0.8-5ubuntu5.2) ... +#7 40.52 Selecting previously unselected package libcups2:arm64. +#7 40.53 Preparing to unpack .../128-libcups2_2.4.1op1-1ubuntu4.12_arm64.deb ... +#7 40.53 Unpacking libcups2:arm64 (2.4.1op1-1ubuntu4.12) ... +#7 40.62 Selecting previously unselected package fonts-texgyre. +#7 40.62 Preparing to unpack .../129-fonts-texgyre_20180621-3.1_all.deb ... +#7 40.62 Unpacking fonts-texgyre (20180621-3.1) ... +#7 ... -#12 [stage-1 2/12] RUN apt-get update && apt-get install -y r-base libcurl4-openssl-dev libssl-dev libxml2-dev curl texlive-xetex texlive-fonts-recommended texlive-plain-generic ruby ruby-dev vim nano && apt-get clean && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* -#12 CACHED +#8 [rust-builder 3/6] RUN curl https://sh.rustup.rs -sSf | bash -s -- -y +#8 10.45 info: downloading component 'rust-std' +#8 12.05 info: downloading component 'rustc' +#8 15.09 info: downloading component 'rustfmt' +#8 15.29 info: installing component 'cargo' +#8 15.92 info: installing component 'clippy' +#8 16.22 info: installing component 'rust-docs' +#8 18.03 info: installing component 'rust-std' +#8 19.61 info: installing component 'rustc' +#8 ... -#13 [stage-1 3/12] RUN R -e "install.packages(c('IRkernel','tidyverse','vegan','ade4','BiocManager','remotes'), repos='http://cran.rstudio.com/')" && R -e "BiocManager::install('biomformat')" && R -e "remotes::install_github('metabaRfactory/metabaR')" && R -e "IRkernel::installspec(user = FALSE)" && rm -rf /tmp/Rtmp* -#13 CACHED +#7 [stage-1 2/11] RUN apt-get update && apt-get install -y r-base libcurl4-openssl-dev libssl-dev libxml2-dev curl texlive-xetex texlive-fonts-recommended texlive-plain-generic ruby ruby-dev vim nano && apt-get clean && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* +#7 41.21 Selecting previously unselected package fontconfig-config. +#7 41.21 Preparing to unpack .../130-fontconfig-config_2.13.1-4.2ubuntu5_all.deb ... +#7 41.21 Unpacking fontconfig-config (2.13.1-4.2ubuntu5) ... +#7 41.24 Selecting previously unselected package libfontconfig1:arm64. +#7 41.24 Preparing to unpack .../131-libfontconfig1_2.13.1-4.2ubuntu5_arm64.deb ... +#7 41.24 Unpacking libfontconfig1:arm64 (2.13.1-4.2ubuntu5) ... +#7 41.26 Selecting previously unselected package libidn12:arm64. +#7 41.26 Preparing to unpack .../132-libidn12_1.38-4ubuntu1_arm64.deb ... +#7 41.26 Unpacking libidn12:arm64 (1.38-4ubuntu1) ... +#7 41.28 Selecting previously unselected package libijs-0.35:arm64. +#7 41.28 Preparing to unpack .../133-libijs-0.35_0.35-15build2_arm64.deb ... +#7 41.29 Unpacking libijs-0.35:arm64 (0.35-15build2) ... +#7 41.30 Selecting previously unselected package libjbig2dec0:arm64. +#7 41.30 Preparing to unpack .../134-libjbig2dec0_0.19-3build2_arm64.deb ... +#7 41.31 Unpacking libjbig2dec0:arm64 (0.19-3build2) ... +#7 41.33 Selecting previously unselected package libopenjp2-7:arm64. +#7 41.33 Preparing to unpack .../135-libopenjp2-7_2.4.0-6ubuntu0.4_arm64.deb ... +#7 41.33 Unpacking libopenjp2-7:arm64 (2.4.0-6ubuntu0.4) ... +#7 41.35 Selecting previously unselected package libpaper1:arm64. +#7 41.35 Preparing to unpack .../136-libpaper1_1.1.28build2_arm64.deb ... +#7 41.36 Unpacking libpaper1:arm64 (1.1.28build2) ... +#7 41.38 Selecting previously unselected package libgs9:arm64. +#7 41.39 Preparing to unpack .../137-libgs9_9.55.0~dfsg1-0ubuntu5.13_arm64.deb ... +#7 41.39 Unpacking libgs9:arm64 (9.55.0~dfsg1-0ubuntu5.13) ... +#7 41.50 Selecting previously unselected package libkpathsea6:arm64. +#7 41.50 Preparing to unpack .../138-libkpathsea6_2021.20210626.59705-1ubuntu0.2_arm64.deb ... +#7 41.51 Unpacking libkpathsea6:arm64 (2021.20210626.59705-1ubuntu0.2) ... +#7 41.53 Selecting previously unselected package libwoff1:arm64. +#7 41.53 Preparing to unpack .../139-libwoff1_1.0.2-1build4_arm64.deb ... +#7 41.53 Unpacking libwoff1:arm64 (1.0.2-1build4) ... +#7 41.55 Selecting previously unselected package dvisvgm. +#7 41.55 Preparing to unpack .../140-dvisvgm_2.13.1-1_arm64.deb ... +#7 41.56 Unpacking dvisvgm (2.13.1-1) ... +#7 41.60 Selecting previously unselected package libfakeroot:arm64. +#7 41.60 Preparing to unpack .../141-libfakeroot_1.28-1ubuntu1_arm64.deb ... +#7 41.60 Unpacking libfakeroot:arm64 (1.28-1ubuntu1) ... +#7 41.62 Selecting previously unselected package fakeroot. +#7 41.62 Preparing to unpack .../142-fakeroot_1.28-1ubuntu1_arm64.deb ... +#7 41.63 Unpacking fakeroot (1.28-1ubuntu1) ... +#7 41.65 Selecting previously unselected package fontconfig. +#7 41.65 Preparing to unpack .../143-fontconfig_2.13.1-4.2ubuntu5_arm64.deb ... +#7 41.65 Unpacking fontconfig (2.13.1-4.2ubuntu5) ... +#7 41.69 Selecting previously unselected package fonts-lmodern. +#7 41.69 Preparing to unpack .../144-fonts-lmodern_2.004.5-6.1_all.deb ... +#7 41.69 Unpacking fonts-lmodern (2.004.5-6.1) ... +#7 42.02 Selecting previously unselected package fonts-noto-mono. +#7 42.02 Preparing to unpack .../145-fonts-noto-mono_20201225-1build1_all.deb ... +#7 42.02 Unpacking fonts-noto-mono (20201225-1build1) ... +#7 42.08 Selecting previously unselected package libgfortran5:arm64. +#7 42.08 Preparing to unpack .../146-libgfortran5_12.3.0-1ubuntu1~22.04.2_arm64.deb ... +#7 42.08 Unpacking libgfortran5:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 42.11 Selecting previously unselected package libgfortran-11-dev:arm64. +#7 42.11 Preparing to unpack .../147-libgfortran-11-dev_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#7 42.11 Unpacking libgfortran-11-dev:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#7 42.14 Selecting previously unselected package gfortran-11. +#7 42.14 Preparing to unpack .../148-gfortran-11_11.4.0-1ubuntu1~22.04.2_arm64.deb ... +#7 42.14 Unpacking gfortran-11 (11.4.0-1ubuntu1~22.04.2) ... +#7 42.29 Selecting previously unselected package gfortran. +#7 42.29 Preparing to unpack .../149-gfortran_4%3a11.2.0-1ubuntu1_arm64.deb ... +#7 42.29 Unpacking gfortran (4:11.2.0-1ubuntu1) ... +#7 42.31 Selecting previously unselected package gnupg-l10n. +#7 42.31 Preparing to unpack .../150-gnupg-l10n_2.2.27-3ubuntu2.4_all.deb ... +#7 42.31 Unpacking gnupg-l10n (2.2.27-3ubuntu2.4) ... +#7 42.37 Selecting previously unselected package gnupg-utils. +#7 42.37 Preparing to unpack .../151-gnupg-utils_2.2.27-3ubuntu2.4_arm64.deb ... +#7 42.39 Unpacking gnupg-utils (2.2.27-3ubuntu2.4) ... +#7 42.41 Selecting previously unselected package gpg. +#7 42.41 Preparing to unpack .../152-gpg_2.2.27-3ubuntu2.4_arm64.deb ... +#7 42.41 Unpacking gpg (2.2.27-3ubuntu2.4) ... +#7 42.48 Selecting previously unselected package pinentry-curses. +#7 42.49 Preparing to unpack .../153-pinentry-curses_1.1.1-1build2_arm64.deb ... +#7 42.49 Unpacking pinentry-curses (1.1.1-1build2) ... +#7 42.51 Selecting previously unselected package gpg-agent. +#7 42.51 Preparing to unpack .../154-gpg-agent_2.2.27-3ubuntu2.4_arm64.deb ... +#7 42.51 Unpacking gpg-agent (2.2.27-3ubuntu2.4) ... +#7 42.54 Selecting previously unselected package gpg-wks-client. +#7 42.54 Preparing to unpack .../155-gpg-wks-client_2.2.27-3ubuntu2.4_arm64.deb ... +#7 42.54 Unpacking gpg-wks-client (2.2.27-3ubuntu2.4) ... +#7 42.56 Selecting previously unselected package gpg-wks-server. +#7 42.56 Preparing to unpack .../156-gpg-wks-server_2.2.27-3ubuntu2.4_arm64.deb ... +#7 42.56 Unpacking gpg-wks-server (2.2.27-3ubuntu2.4) ... +#7 42.58 Selecting previously unselected package gpgsm. +#7 42.59 Preparing to unpack .../157-gpgsm_2.2.27-3ubuntu2.4_arm64.deb ... +#7 42.59 Unpacking gpgsm (2.2.27-3ubuntu2.4) ... +#7 42.61 Selecting previously unselected package gnupg. +#7 42.61 Preparing to unpack .../158-gnupg_2.2.27-3ubuntu2.4_all.deb ... +#7 42.61 Unpacking gnupg (2.2.27-3ubuntu2.4) ... +#7 42.63 Selecting previously unselected package icu-devtools. +#7 42.63 Preparing to unpack .../159-icu-devtools_70.1-2_arm64.deb ... +#7 42.64 Unpacking icu-devtools (70.1-2) ... +#7 42.72 Selecting previously unselected package javascript-common. +#7 42.72 Preparing to unpack .../160-javascript-common_11+nmu1_all.deb ... +#7 42.73 Unpacking javascript-common (11+nmu1) ... +#7 42.78 Selecting previously unselected package libalgorithm-diff-perl. +#7 42.79 Preparing to unpack .../161-libalgorithm-diff-perl_1.201-1_all.deb ... +#7 42.80 Unpacking libalgorithm-diff-perl (1.201-1) ... +#7 42.82 Selecting previously unselected package libalgorithm-diff-xs-perl. +#7 42.83 Preparing to unpack .../162-libalgorithm-diff-xs-perl_0.04-6build3_arm64.deb ... +#7 42.83 Unpacking libalgorithm-diff-xs-perl (0.04-6build3) ... +#7 42.90 Selecting previously unselected package libalgorithm-merge-perl. +#7 42.90 Preparing to unpack .../163-libalgorithm-merge-perl_0.08-3_all.deb ... +#7 42.90 Unpacking libalgorithm-merge-perl (0.08-3) ... +#7 42.92 Selecting previously unselected package libapache-pom-java. +#7 42.92 Preparing to unpack .../164-libapache-pom-java_18-1_all.deb ... +#7 42.93 Unpacking libapache-pom-java (18-1) ... +#7 42.95 Selecting previously unselected package libatk1.0-data. +#7 42.95 Preparing to unpack .../165-libatk1.0-data_2.36.0-3build1_all.deb ... +#7 42.95 Unpacking libatk1.0-data (2.36.0-3build1) ... +#7 43.02 Selecting previously unselected package libatk1.0-0:arm64. +#7 43.02 Preparing to unpack .../166-libatk1.0-0_2.36.0-3build1_arm64.deb ... +#7 43.02 Unpacking libatk1.0-0:arm64 (2.36.0-3build1) ... +#7 43.05 Selecting previously unselected package libatk-bridge2.0-0:arm64. +#7 43.05 Preparing to unpack .../167-libatk-bridge2.0-0_2.38.0-3_arm64.deb ... +#7 43.06 Unpacking libatk-bridge2.0-0:arm64 (2.38.0-3) ... +#7 43.09 Selecting previously unselected package libblas3:arm64. +#7 43.09 Preparing to unpack .../168-libblas3_3.10.0-2ubuntu1_arm64.deb ... +#7 43.09 Unpacking libblas3:arm64 (3.10.0-2ubuntu1) ... +#7 43.11 Selecting previously unselected package libblas-dev:arm64. +#7 43.12 Preparing to unpack .../169-libblas-dev_3.10.0-2ubuntu1_arm64.deb ... +#7 43.12 Unpacking libblas-dev:arm64 (3.10.0-2ubuntu1) ... +#7 43.14 Selecting previously unselected package libbz2-dev:arm64. +#7 43.14 Preparing to unpack .../170-libbz2-dev_1.0.8-5build1_arm64.deb ... +#7 43.15 Unpacking libbz2-dev:arm64 (1.0.8-5build1) ... +#7 43.22 Selecting previously unselected package libxpm4:arm64. +#7 43.22 Preparing to unpack .../171-libxpm4_1%3a3.5.12-1ubuntu0.22.04.2_arm64.deb ... +#7 43.22 Unpacking libxpm4:arm64 (1:3.5.12-1ubuntu0.22.04.2) ... +#7 43.26 Selecting previously unselected package libgd3:arm64. +#7 43.26 Preparing to unpack .../172-libgd3_2.3.0-2ubuntu2.3_arm64.deb ... +#7 43.29 Unpacking libgd3:arm64 (2.3.0-2ubuntu2.3) ... +#7 43.31 Selecting previously unselected package libc-devtools. +#7 43.31 Preparing to unpack .../173-libc-devtools_2.35-0ubuntu3.11_arm64.deb ... +#7 43.32 Unpacking libc-devtools (2.35-0ubuntu3.11) ... +#7 43.41 Selecting previously unselected package libpixman-1-0:arm64. +#7 43.41 Preparing to unpack .../174-libpixman-1-0_0.40.0-1ubuntu0.22.04.1_arm64.deb ... +#7 43.49 Unpacking libpixman-1-0:arm64 (0.40.0-1ubuntu0.22.04.1) ... +#7 43.74 Selecting previously unselected package libxcb-render0:arm64. +#7 43.75 Preparing to unpack .../175-libxcb-render0_1.14-3ubuntu3_arm64.deb ... +#7 43.77 Unpacking libxcb-render0:arm64 (1.14-3ubuntu3) ... +#7 43.91 Selecting previously unselected package libxcb-shm0:arm64. +#7 43.91 Preparing to unpack .../176-libxcb-shm0_1.14-3ubuntu3_arm64.deb ... +#7 43.92 Unpacking libxcb-shm0:arm64 (1.14-3ubuntu3) ... +#7 44.10 Selecting previously unselected package libxrender1:arm64. +#7 44.10 Preparing to unpack .../177-libxrender1_1%3a0.9.10-1build4_arm64.deb ... +#7 44.11 Unpacking libxrender1:arm64 (1:0.9.10-1build4) ... +#7 44.17 Selecting previously unselected package libcairo2:arm64. +#7 44.18 Preparing to unpack .../178-libcairo2_1.16.0-5ubuntu2_arm64.deb ... +#7 44.24 Unpacking libcairo2:arm64 (1.16.0-5ubuntu2) ... +#7 44.41 Selecting previously unselected package libcairo-gobject2:arm64. +#7 44.41 Preparing to unpack .../179-libcairo-gobject2_1.16.0-5ubuntu2_arm64.deb ... +#7 44.44 Unpacking libcairo-gobject2:arm64 (1.16.0-5ubuntu2) ... +#7 44.56 Selecting previously unselected package libclone-perl. +#7 44.56 Preparing to unpack .../180-libclone-perl_0.45-1build3_arm64.deb ... +#7 44.57 Unpacking libclone-perl (0.45-1build3) ... +#7 44.68 Selecting previously unselected package liblcms2-2:arm64. +#7 44.68 Preparing to unpack .../181-liblcms2-2_2.12~rc1-2build2_arm64.deb ... +#7 44.69 Unpacking liblcms2-2:arm64 (2.12~rc1-2build2) ... +#7 44.87 Selecting previously unselected package libcolord2:arm64. +#7 44.87 Preparing to unpack .../182-libcolord2_1.4.6-1_arm64.deb ... +#7 44.91 Unpacking libcolord2:arm64 (1.4.6-1) ... +#7 45.01 Selecting previously unselected package libcommons-parent-java. +#7 45.02 Preparing to unpack .../183-libcommons-parent-java_43-1_all.deb ... +#7 45.06 Unpacking libcommons-parent-java (43-1) ... +#7 45.14 Selecting previously unselected package libcommons-logging-java. +#7 45.15 Preparing to unpack .../184-libcommons-logging-java_1.2-2_all.deb ... +#7 45.18 Unpacking libcommons-logging-java (1.2-2) ... +#7 45.30 Selecting previously unselected package libcurl4-openssl-dev:arm64. +#7 45.30 Preparing to unpack .../185-libcurl4-openssl-dev_7.81.0-1ubuntu1.21_arm64.deb ... +#7 45.32 Unpacking libcurl4-openssl-dev:arm64 (7.81.0-1ubuntu1.21) ... +#7 45.46 Selecting previously unselected package libdata-dump-perl. +#7 45.46 Preparing to unpack .../186-libdata-dump-perl_1.25-1_all.deb ... +#7 45.47 Unpacking libdata-dump-perl (1.25-1) ... +#7 45.61 Selecting previously unselected package libdatrie1:arm64. +#7 45.61 Preparing to unpack .../187-libdatrie1_0.2.13-2_arm64.deb ... +#7 45.64 Unpacking libdatrie1:arm64 (0.2.13-2) ... +#7 45.80 Selecting previously unselected package libdrm-amdgpu1:arm64. +#7 45.80 Preparing to unpack .../188-libdrm-amdgpu1_2.4.113-2~ubuntu0.22.04.1_arm64.deb ... +#7 45.82 Unpacking libdrm-amdgpu1:arm64 (2.4.113-2~ubuntu0.22.04.1) ... +#7 45.96 Selecting previously unselected package libdrm-nouveau2:arm64. +#7 45.96 Preparing to unpack .../189-libdrm-nouveau2_2.4.113-2~ubuntu0.22.04.1_arm64.deb ... +#7 45.98 Unpacking libdrm-nouveau2:arm64 (2.4.113-2~ubuntu0.22.04.1) ... +#7 46.05 Selecting previously unselected package libdrm-radeon1:arm64. +#7 46.06 Preparing to unpack .../190-libdrm-radeon1_2.4.113-2~ubuntu0.22.04.1_arm64.deb ... +#7 46.06 Unpacking libdrm-radeon1:arm64 (2.4.113-2~ubuntu0.22.04.1) ... +#7 46.17 Selecting previously unselected package libencode-locale-perl. +#7 46.18 Preparing to unpack .../191-libencode-locale-perl_1.05-1.1_all.deb ... +#7 46.18 Unpacking libencode-locale-perl (1.05-1.1) ... +#7 46.20 Selecting previously unselected package libepoxy0:arm64. +#7 46.21 Preparing to unpack .../192-libepoxy0_1.5.10-1_arm64.deb ... +#7 46.21 Unpacking libepoxy0:arm64 (1.5.10-1) ... +#7 46.31 Selecting previously unselected package libipc-system-simple-perl. +#7 46.31 Preparing to unpack .../193-libipc-system-simple-perl_1.30-1_all.deb ... +#7 46.32 Unpacking libipc-system-simple-perl (1.30-1) ... +#7 46.40 Selecting previously unselected package libfile-basedir-perl. +#7 46.40 Preparing to unpack .../194-libfile-basedir-perl_0.09-1_all.deb ... +#7 46.41 Unpacking libfile-basedir-perl (0.09-1) ... +#7 46.44 Selecting previously unselected package liburi-perl. +#7 46.44 Preparing to unpack .../195-liburi-perl_5.10-1_all.deb ... +#7 46.44 Unpacking liburi-perl (5.10-1) ... +#7 46.55 Selecting previously unselected package libfile-desktopentry-perl. +#7 46.55 Preparing to unpack .../196-libfile-desktopentry-perl_0.22-2_all.deb ... +#7 46.55 Unpacking libfile-desktopentry-perl (0.22-2) ... +#7 46.65 Selecting previously unselected package libfile-fcntllock-perl. +#7 46.65 Preparing to unpack .../197-libfile-fcntllock-perl_0.22-3build7_arm64.deb ... +#7 46.66 Unpacking libfile-fcntllock-perl (0.22-3build7) ... +#7 46.75 Selecting previously unselected package libtimedate-perl. +#7 46.76 Preparing to unpack .../198-libtimedate-perl_2.3300-2_all.deb ... +#7 46.76 Unpacking libtimedate-perl (2.3300-2) ... +#7 46.82 Selecting previously unselected package libhttp-date-perl. +#7 46.83 Preparing to unpack .../199-libhttp-date-perl_6.05-1_all.deb ... +#7 46.87 Unpacking libhttp-date-perl (6.05-1) ... +#7 46.98 Selecting previously unselected package libfile-listing-perl. +#7 46.99 Preparing to unpack .../200-libfile-listing-perl_6.14-1_all.deb ... +#7 47.00 Unpacking libfile-listing-perl (6.14-1) ... +#7 47.11 Selecting previously unselected package libfile-mimeinfo-perl. +#7 47.11 Preparing to unpack .../201-libfile-mimeinfo-perl_0.31-1_all.deb ... +#7 47.12 Unpacking libfile-mimeinfo-perl (0.31-1) ... +#7 47.22 Selecting previously unselected package libfont-afm-perl. +#7 ... -#14 [stage-1 4/12] RUN pip install --no-cache-dir bash_kernel csvkit && python -m bash_kernel.install --sys-prefix -#14 CACHED +#8 [rust-builder 3/6] RUN curl https://sh.rustup.rs -sSf | bash -s -- -y +#8 22.90 info: installing component 'rustfmt' +#8 23.19 info: default toolchain set to 'stable-aarch64-unknown-linux-gnu' +#8 23.19 +#8 23.19 stable-aarch64-unknown-linux-gnu installed - rustc 1.91.0 (f8297e351 2025-10-28) +#8 23.19 +#8 23.19 +#8 23.19 Rust is installed now. Great! +#8 23.19 +#8 23.19 To get started you may need to restart your current shell. +#8 23.19 This would reload your PATH environment variable to include +#8 23.19 Cargo's bin directory ($HOME/.cargo/bin). +#8 23.19 +#8 23.19 To configure your current shell, you need to source +#8 23.19 the corresponding env file under $HOME/.cargo. +#8 23.19 +#8 23.19 This is usually done by running one of the following (note the leading DOT): +#8 23.19 . "$HOME/.cargo/env" # For sh/bash/zsh/ash/dash/pdksh +#8 23.19 source "$HOME/.cargo/env.fish" # For fish +#8 23.19 source $"($nu.home-path)/.cargo/env.nu" # For nushell +#8 DONE 27.1s -#15 [stage-1 5/12] RUN gem install youplot -#15 CACHED +#7 [stage-1 2/11] RUN apt-get update && apt-get install -y r-base libcurl4-openssl-dev libssl-dev libxml2-dev curl texlive-xetex texlive-fonts-recommended texlive-plain-generic ruby ruby-dev vim nano && apt-get clean && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* +#7 47.22 Preparing to unpack .../202-libfont-afm-perl_1.20-3_all.deb ... +#7 47.23 Unpacking libfont-afm-perl (1.20-3) ... +#7 47.28 Selecting previously unselected package libfontenc1:arm64. +#7 47.28 Preparing to unpack .../203-libfontenc1_1%3a1.1.4-1build3_arm64.deb ... +#7 47.29 Unpacking libfontenc1:arm64 (1:1.1.4-1build3) ... +#7 47.32 Selecting previously unselected package libgdk-pixbuf2.0-bin. +#7 47.32 Preparing to unpack .../204-libgdk-pixbuf2.0-bin_2.42.8+dfsg-1ubuntu0.4_arm64.deb ... +#7 ... -#16 [stage-1 6/12] RUN mkdir -p /home/jovyan/.local/share/jupyter && chown -R 1000:100 /home/jovyan -#16 CACHED +#9 [rust-builder 4/6] RUN . /home/jovyan/.cargo/env && cargo install csvlens +#9 0.366 Updating crates.io index +#9 1.146 Downloading crates ... +#9 1.299 Downloaded csvlens v0.14.0 +#9 1.658 Installing csvlens v0.14.0 +#9 1.672 Updating crates.io index +#9 3.179 Locking 222 packages to latest compatible versions +#9 3.180 Adding arrow v56.2.0 (available: v57.0.0) +#9 3.184 Adding crossterm v0.28.1 (available: v0.29.0) +#9 3.189 Adding qsv-sniffer v0.11.0 (available: v0.12.2) +#9 3.197 Adding tui-input v0.13.0 (available: v0.14.0) +#9 3.197 Adding unicode-width v0.2.0 (available: v0.2.2) +#9 3.200 Downloading crates ... +#9 3.405 Downloaded arboard v3.6.1 +#9 3.419 Downloaded ansi-to-tui v7.0.0 +#9 3.431 Downloaded qsv-dateparser v0.13.0 +#9 3.432 Downloaded arrow-arith v56.2.0 +#9 3.433 Downloaded qsv-sniffer v0.11.0 +#9 3.440 Downloaded arrow-csv v56.2.0 +#9 3.442 Downloaded arrow-data v56.2.0 +#9 3.445 Downloaded arrow-row v56.2.0 +#9 3.447 Downloaded signal-hook-mio v0.2.5 +#9 3.449 Downloaded sorted-vec v0.8.10 +#9 3.451 Downloaded terminal-trx v0.2.5 +#9 3.453 Downloaded arrow-string v56.2.0 +#9 3.455 Downloaded tree_magic_mini v3.2.0 +#9 3.457 Downloaded const-random v0.1.18 +#9 3.459 Downloaded is_terminal_polyfill v1.70.2 +#9 3.460 Downloaded strum v0.26.3 +#9 3.462 Downloaded colorchoice v1.0.4 +#9 3.463 Downloaded ident_case v1.0.1 +#9 3.464 Downloaded equivalent v1.0.2 +#9 3.464 Downloaded darling_macro v0.20.11 +#9 3.465 Downloaded cfg-if v1.0.4 +#9 3.465 Downloaded atoi v2.0.0 +#9 3.466 Downloaded anstyle-query v1.1.4 +#9 3.467 Downloaded terminal-colorsaurus v1.0.1 +#9 3.468 Downloaded const-random-macro v0.1.16 +#9 3.468 Downloaded cassowary v0.3.0 +#9 3.469 Downloaded arrow-ord v56.2.0 +#9 3.476 Downloaded tabwriter v1.4.1 +#9 3.477 Downloaded simdutf8 v0.1.5 +#9 3.479 Downloaded parking_lot v0.12.5 +#9 3.481 Downloaded pkg-config v0.3.32 +#9 3.495 Downloaded anstyle-parse v0.2.7 +#9 3.496 Downloaded paste v1.0.15 +#9 3.497 Downloaded anstyle v1.0.13 +#9 3.499 Downloaded allocator-api2 v0.2.21 +#9 3.501 Downloaded anstream v0.6.21 +#9 3.503 Downloaded anyhow v1.0.100 +#9 3.506 Downloaded ahash v0.8.12 +#9 3.517 Downloaded percent-encoding v2.3.2 +#9 3.517 Downloaded parking_lot_core v0.9.12 +#9 3.520 Downloaded clap v4.5.51 +#9 3.524 Downloaded clap_lex v0.7.6 +#9 3.525 Downloaded errno v0.3.14 +#9 3.525 Downloaded downcast-rs v1.2.1 +#9 3.526 Downloaded darling v0.20.11 +#9 3.528 Downloaded clap_derive v4.5.49 +#9 3.531 Downloaded castaway v0.2.4 +#9 3.532 Downloaded bitflags v2.10.0 +#9 3.536 Downloaded static_assertions v1.1.0 +#9 3.537 Downloaded tiny-keccak v2.0.2 +#9 3.539 Downloaded thiserror-impl v2.0.17 +#9 3.540 Downloaded thiserror-impl v1.0.69 +#9 3.541 Downloaded iana-time-zone v0.1.64 +#9 3.542 Downloaded getrandom v0.3.4 +#9 3.544 Downloaded getrandom v0.2.16 +#9 3.546 Downloaded fnv v1.0.7 +#9 3.547 Downloaded fixedbitset v0.4.2 +#9 3.548 Downloaded find-msvc-tools v0.1.4 +#9 3.549 Downloaded thiserror v2.0.17 +#9 3.553 Downloaded signal-hook v0.3.18 +#9 3.557 Downloaded once_cell v1.21.3 +#9 3.559 Downloaded lexical-write-integer v1.0.6 +#9 3.562 Downloaded os_pipe v1.2.3 +#9 3.563 Downloaded indexmap v2.12.0 +#9 3.566 Downloaded itertools v0.13.0 +#9 3.571 Downloaded darling_core v0.20.11 +#9 3.574 Downloaded libm v0.2.15 +#9 3.581 Downloaded clap_builder v4.5.51 +#9 3.586 Downloaded chrono v0.4.42 +#9 3.592 Downloaded lexical-parse-integer v1.0.6 +#9 3.594 Downloaded minimal-lexical v0.2.1 +#9 3.597 Downloaded nom v7.1.3 +#9 3.600 Downloaded num-bigint v0.4.6 +#9 3.604 Downloaded hashbrown v0.15.5 +#9 3.608 Downloaded cc v1.2.44 +#9 3.610 Downloaded lexical-write-float v1.0.6 +#9 3.614 Downloaded lexical-util v1.0.7 +#9 3.617 Downloaded lexical-parse-float v1.0.6 +#9 3.621 Downloaded bytes v1.10.1 +#9 3.629 Downloaded mio v1.1.0 +#9 3.633 Downloaded version_check v0.9.5 +#9 3.634 Downloaded utf8parse v0.2.2 +#9 3.635 Downloaded unicode-ident v1.0.22 +#9 3.636 Downloaded memchr v2.7.6 +#9 3.639 Downloaded hashbrown v0.16.0 +#9 3.642 Downloaded crossterm v0.28.1 +#9 3.647 Downloaded compact_str v0.8.1 +#9 3.650 Downloaded base64 v0.22.1 +#9 3.653 Downloaded libc v0.2.177 +#9 3.674 Downloaded unicode-truncate v1.1.0 +#9 3.675 Downloaded tui-input v0.13.0 +#9 3.676 Downloaded arrow-select v56.2.0 +#9 3.678 Downloaded arrow-schema v56.2.0 +#9 3.680 Downloaded arrow-cast v56.2.0 +#9 3.683 Downloaded arrow-buffer v56.2.0 +#9 3.685 Downloaded arrow-array v56.2.0 +#9 3.691 Downloaded regex-syntax v0.8.8 +#9 3.697 Downloaded regex v1.12.2 +#9 3.702 Downloaded arrow v56.2.0 +#9 3.706 Downloaded aho-corasick v1.1.4 +#9 3.710 Downloaded rustix v1.1.2 +#9 3.727 Downloaded xterm-color v1.0.1 +#9 3.727 Downloaded wayland-protocols-wlr v0.3.9 +#9 3.728 Downloaded syn v2.0.108 +#9 3.735 Downloaded quick-xml v0.37.5 +#9 3.741 Downloaded rustix v0.38.44 +#9 3.756 Downloaded regex-automata v0.4.13 +#9 3.765 Downloaded unicode-width v0.1.14 +#9 3.770 Downloaded csv v1.4.0 +#9 3.789 Downloaded unicode-width v0.2.0 +#9 3.793 Downloaded wl-clipboard-rs v0.9.2 +#9 3.795 Downloaded wayland-sys v0.31.7 +#9 3.795 Downloaded zerocopy-derive v0.8.27 +#9 3.800 Downloaded zerocopy v0.8.27 +#9 3.823 Downloaded wayland-scanner v0.31.7 +#9 3.825 Downloaded x11rb v0.13.2 +#9 3.830 Downloaded petgraph v0.6.5 +#9 3.844 Downloaded wayland-protocols v0.32.9 +#9 3.849 Downloaded wayland-client v0.31.11 +#9 3.851 Downloaded wayland-backend v0.3.11 +#9 3.853 Downloaded unicode-segmentation v1.12.0 +#9 3.855 Downloaded lexical-core v1.0.6 +#9 3.856 Downloaded instability v0.3.9 +#9 3.857 Downloaded x11rb-protocol v0.13.2 +#9 3.866 Downloaded ratatui v0.29.0 +#9 3.879 Downloaded half v2.7.1 +#9 3.880 Downloaded gethostname v1.1.0 +#9 3.881 Downloaded filedescriptor v0.8.3 +#9 3.881 Downloaded num-traits v0.2.19 +#9 3.883 Downloaded num-rational v0.4.2 +#9 3.884 Downloaded num-iter v0.1.45 +#9 3.885 Downloaded num-integer v0.1.46 +#9 3.886 Downloaded num-complex v0.4.6 +#9 3.887 Downloaded lru v0.12.5 +#9 3.887 Downloaded indoc v2.0.7 +#9 3.889 Downloaded foldhash v0.1.5 +#9 3.890 Downloaded fastrand v2.3.0 +#9 3.891 Downloaded fast-float2 v0.2.3 +#9 3.893 Downloaded linux-raw-sys v0.4.15 +#9 3.930 Downloaded either v1.15.0 +#9 3.931 Downloaded csv-core v0.1.13 +#9 3.932 Downloaded crunchy v0.2.4 +#9 3.933 Downloaded bytecount v0.6.9 +#9 3.934 Downloaded num v0.4.3 +#9 3.934 Downloaded log v0.4.28 +#9 3.936 Downloaded lock_api v0.4.14 +#9 3.937 Downloaded itoa v1.0.15 +#9 3.938 Downloaded heck v0.5.0 +#9 3.938 Downloaded thiserror v1.0.69 +#9 3.941 Downloaded terminal_size v0.4.3 +#9 3.942 Downloaded tempfile v3.23.0 +#9 3.943 Downloaded strum_macros v0.26.4 +#9 3.944 Downloaded strsim v0.11.1 +#9 3.945 Downloaded smallvec v1.15.1 +#9 3.946 Downloaded signal-hook-registry v1.4.6 +#9 3.947 Downloaded shlex v1.3.0 +#9 3.947 Downloaded proc-macro2 v1.0.103 +#9 3.949 Downloaded serde_core v1.0.228 +#9 3.951 Downloaded scopeguard v1.2.0 +#9 3.952 Downloaded ryu v1.0.20 +#9 3.954 Downloaded rustversion v1.0.22 +#9 3.956 Downloaded quote v1.0.41 +#9 3.957 Downloaded autocfg v1.5.0 +#9 3.959 Downloaded linux-raw-sys v0.11.0 +#9 4.023 Compiling proc-macro2 v1.0.103 +#9 4.023 Compiling quote v1.0.41 +#9 4.023 Compiling unicode-ident v1.0.22 +#9 4.023 Compiling libc v0.2.177 +#9 4.023 Compiling cfg-if v1.0.4 +#9 4.023 Compiling autocfg v1.5.0 +#9 4.023 Compiling libm v0.2.15 +#9 4.023 Compiling bitflags v2.10.0 +#9 4.025 Compiling memchr v2.7.6 +#9 4.026 Compiling getrandom v0.3.4 +#9 4.026 Compiling zerocopy v0.8.27 +#9 4.028 Compiling rustix v1.1.2 +#9 4.028 Compiling hashbrown v0.16.0 +#9 4.028 Compiling once_cell v1.21.3 +#9 4.028 Compiling linux-raw-sys v0.11.0 +#9 4.028 Compiling smallvec v1.15.1 +#9 4.095 Compiling iana-time-zone v0.1.64 +#9 4.101 Compiling version_check v0.9.5 +#9 4.232 Compiling bytes v1.10.1 +#9 4.244 Compiling equivalent v1.0.2 +#9 4.302 Compiling arrow-schema v56.2.0 +#9 4.335 Compiling rustversion v1.0.22 +#9 4.368 Compiling log v0.4.28 +#9 4.389 Compiling ahash v0.8.12 +#9 4.401 Compiling num-traits v0.2.19 +#9 4.443 Compiling pkg-config v0.3.32 +#9 4.450 Compiling shlex v1.3.0 +#9 4.462 Compiling ryu v1.0.20 +#9 4.575 Compiling find-msvc-tools v0.1.4 +#9 4.592 Compiling itoa v1.0.15 +#9 4.622 Compiling lexical-util v1.0.7 +#9 4.672 Compiling parking_lot_core v0.9.12 +#9 4.675 Compiling rustix v0.38.44 +#9 4.683 Compiling cc v1.2.44 +#9 4.694 Compiling aho-corasick v1.1.4 +#9 4.767 Compiling linux-raw-sys v0.4.15 +#9 4.777 Compiling scopeguard v1.2.0 +#9 4.946 Compiling wayland-sys v0.31.7 +#9 4.988 Compiling regex-syntax v0.8.8 +#9 4.994 Compiling ident_case v1.0.1 +#9 4.996 Compiling thiserror v1.0.69 +#9 5.045 Compiling syn v2.0.108 +#9 5.069 Compiling signal-hook v0.3.18 +#9 5.088 Compiling strsim v0.11.1 +#9 5.128 Compiling fnv v1.0.7 +#9 5.171 Compiling heck v0.5.0 +#9 5.175 Compiling quick-xml v0.37.5 +#9 5.227 Compiling signal-hook-registry v1.4.6 +#9 5.256 Compiling mio v1.1.0 +#9 5.339 Compiling lock_api v0.4.14 +#9 5.375 Compiling foldhash v0.1.5 +#9 5.392 Compiling allocator-api2 v0.2.21 +#9 5.527 Compiling wayland-client v0.31.11 +#9 5.544 Compiling downcast-rs v1.2.1 +#9 5.571 Compiling serde_core v1.0.228 +#9 5.583 Compiling parking_lot v0.12.5 +#9 5.728 Compiling num-integer v0.1.46 +#9 5.777 Compiling num-complex v0.4.6 +#9 5.820 Compiling chrono v0.4.42 +#9 5.912 Compiling hashbrown v0.15.5 +#9 5.998 Compiling num-bigint v0.4.6 +#9 6.076 Compiling num-iter v0.1.45 +#9 6.111 Compiling wayland-backend v0.3.11 +#9 6.138 Compiling wayland-scanner v0.31.7 +#9 6.241 Compiling lexical-parse-integer v1.0.6 +#9 6.314 Compiling lexical-write-integer v1.0.6 +#9 6.314 Compiling unicode-width v0.2.0 +#9 6.471 Compiling paste v1.0.15 +#9 6.501 Compiling minimal-lexical v0.2.1 +#9 6.610 Compiling instability v0.3.9 +#9 6.621 Compiling either v1.15.0 +#9 6.670 Compiling lexical-write-float v1.0.6 +#9 6.736 Compiling nom v7.1.3 +#9 6.793 Compiling itertools v0.13.0 +#9 6.793 Compiling lexical-parse-float v1.0.6 +#9 6.824 Compiling signal-hook-mio v0.2.5 +#9 6.832 Compiling regex-automata v0.4.13 +#9 6.898 Compiling castaway v0.2.4 +#9 7.014 Compiling indexmap v2.12.0 +#9 7.297 Compiling csv-core v0.1.13 +#9 7.865 Compiling num-rational v0.4.2 +#9 7.933 Compiling fixedbitset v0.4.2 +#9 7.968 Compiling unicode-width v0.1.14 +#9 8.216 Compiling darling_core v0.20.11 +#9 8.240 Compiling indoc v2.0.7 +#9 8.386 Compiling num v0.4.3 +#9 8.427 Compiling anyhow v1.0.100 +#9 8.608 Compiling utf8parse v0.2.2 +#9 8.680 Compiling thiserror v2.0.17 +#9 8.752 Compiling static_assertions v1.1.0 +#9 8.755 Compiling unicode-segmentation v1.12.0 +#9 8.809 Compiling compact_str v0.8.1 +#9 8.832 Compiling anstyle-parse v0.2.7 +#9 9.011 Compiling unicode-truncate v1.1.0 +#9 9.195 Compiling petgraph v0.6.5 +#9 9.272 Compiling lexical-core v1.0.6 +#9 9.374 Compiling csv v1.4.0 +#9 9.505 Compiling lru v0.12.5 +#9 9.650 Compiling atoi v2.0.0 +#9 9.674 Compiling anstyle-query v1.1.4 +#9 9.736 Compiling anstyle v1.0.13 +#9 9.759 Compiling is_terminal_polyfill v1.70.2 +#9 9.803 Compiling fastrand v2.3.0 +#9 10.04 Compiling regex v1.12.2 +#9 10.05 Compiling cassowary v0.3.0 +#9 ... -#17 [stage-1 7/12] COPY start-notebook.sh /usr/local/bin/start-notebook.sh -#17 CACHED +#7 [stage-1 2/11] RUN apt-get update && apt-get install -y r-base libcurl4-openssl-dev libssl-dev libxml2-dev curl texlive-xetex texlive-fonts-recommended texlive-plain-generic ruby ruby-dev vim nano && apt-get clean && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* +#7 47.32 Unpacking libgdk-pixbuf2.0-bin (2.42.8+dfsg-1ubuntu0.4) ... +#7 47.34 Selecting previously unselected package libglapi-mesa:arm64. +#7 47.34 Preparing to unpack .../205-libglapi-mesa_23.2.1-1ubuntu3.1~22.04.3_arm64.deb ... +#7 47.34 Unpacking libglapi-mesa:arm64 (23.2.1-1ubuntu3.1~22.04.3) ... +#7 47.56 Selecting previously unselected package libgl1-amber-dri:arm64. +#7 47.56 Preparing to unpack .../206-libgl1-amber-dri_21.3.9-0ubuntu1~22.04.1_arm64.deb ... +#7 47.58 Unpacking libgl1-amber-dri:arm64 (21.3.9-0ubuntu1~22.04.1) ... +#7 47.63 Selecting previously unselected package libllvm15:arm64. +#7 47.63 Preparing to unpack .../207-libllvm15_1%3a15.0.7-0ubuntu0.22.04.3_arm64.deb ... +#7 47.63 Unpacking libllvm15:arm64 (1:15.0.7-0ubuntu0.22.04.3) ... +#7 48.07 Selecting previously unselected package libsensors-config. +#7 48.07 Preparing to unpack .../208-libsensors-config_1%3a3.6.0-7ubuntu1_all.deb ... +#7 48.07 Unpacking libsensors-config (1:3.6.0-7ubuntu1) ... +#7 48.10 Selecting previously unselected package libsensors5:arm64. +#7 48.10 Preparing to unpack .../209-libsensors5_1%3a3.6.0-7ubuntu1_arm64.deb ... +#7 48.11 Unpacking libsensors5:arm64 (1:3.6.0-7ubuntu1) ... +#7 48.13 Selecting previously unselected package libxcb-dri3-0:arm64. +#7 48.13 Preparing to unpack .../210-libxcb-dri3-0_1.14-3ubuntu3_arm64.deb ... +#7 48.13 Unpacking libxcb-dri3-0:arm64 (1.14-3ubuntu3) ... +#7 48.16 Selecting previously unselected package libgl1-mesa-dri:arm64. +#7 48.16 Preparing to unpack .../211-libgl1-mesa-dri_23.2.1-1ubuntu3.1~22.04.3_arm64.deb ... +#7 48.16 Unpacking libgl1-mesa-dri:arm64 (23.2.1-1ubuntu3.1~22.04.3) ... +#7 48.29 Selecting previously unselected package libx11-xcb1:arm64. +#7 48.29 Preparing to unpack .../212-libx11-xcb1_2%3a1.7.5-1ubuntu0.3_arm64.deb ... +#7 48.29 Unpacking libx11-xcb1:arm64 (2:1.7.5-1ubuntu0.3) ... +#7 48.31 Selecting previously unselected package libxcb-dri2-0:arm64. +#7 48.31 Preparing to unpack .../213-libxcb-dri2-0_1.14-3ubuntu3_arm64.deb ... +#7 48.31 Unpacking libxcb-dri2-0:arm64 (1.14-3ubuntu3) ... +#7 48.33 Selecting previously unselected package libxcb-glx0:arm64. +#7 48.33 Preparing to unpack .../214-libxcb-glx0_1.14-3ubuntu3_arm64.deb ... +#7 48.34 Unpacking libxcb-glx0:arm64 (1.14-3ubuntu3) ... +#7 48.35 Selecting previously unselected package libxcb-present0:arm64. +#7 48.36 Preparing to unpack .../215-libxcb-present0_1.14-3ubuntu3_arm64.deb ... +#7 48.36 Unpacking libxcb-present0:arm64 (1.14-3ubuntu3) ... +#7 48.38 Selecting previously unselected package libxcb-randr0:arm64. +#7 48.38 Preparing to unpack .../216-libxcb-randr0_1.14-3ubuntu3_arm64.deb ... +#7 48.38 Unpacking libxcb-randr0:arm64 (1.14-3ubuntu3) ... +#7 48.40 Selecting previously unselected package libxcb-sync1:arm64. +#7 48.41 Preparing to unpack .../217-libxcb-sync1_1.14-3ubuntu3_arm64.deb ... +#7 48.41 Unpacking libxcb-sync1:arm64 (1.14-3ubuntu3) ... +#7 48.44 Selecting previously unselected package libxcb-xfixes0:arm64. +#7 48.44 Preparing to unpack .../218-libxcb-xfixes0_1.14-3ubuntu3_arm64.deb ... +#7 48.45 Unpacking libxcb-xfixes0:arm64 (1.14-3ubuntu3) ... +#7 48.48 Selecting previously unselected package libxfixes3:arm64. +#7 48.48 Preparing to unpack .../219-libxfixes3_1%3a6.0.0-1_arm64.deb ... +#7 48.49 Unpacking libxfixes3:arm64 (1:6.0.0-1) ... +#7 48.52 Selecting previously unselected package libxshmfence1:arm64. +#7 48.52 Preparing to unpack .../220-libxshmfence1_1.3-1build4_arm64.deb ... +#7 48.53 Unpacking libxshmfence1:arm64 (1.3-1build4) ... +#7 48.88 Selecting previously unselected package libxxf86vm1:arm64. +#7 48.88 Preparing to unpack .../221-libxxf86vm1_1%3a1.1.4-1build3_arm64.deb ... +#7 48.89 Unpacking libxxf86vm1:arm64 (1:1.1.4-1build3) ... +#7 48.92 Selecting previously unselected package libglx-mesa0:arm64. +#7 48.92 Preparing to unpack .../222-libglx-mesa0_23.2.1-1ubuntu3.1~22.04.3_arm64.deb ... +#7 48.93 Unpacking libglx-mesa0:arm64 (23.2.1-1ubuntu3.1~22.04.3) ... +#7 48.95 Selecting previously unselected package libgmpxx4ldbl:arm64. +#7 48.95 Preparing to unpack .../223-libgmpxx4ldbl_2%3a6.2.1+dfsg-3ubuntu1_arm64.deb ... +#7 48.95 Unpacking libgmpxx4ldbl:arm64 (2:6.2.1+dfsg-3ubuntu1) ... +#7 48.97 Selecting previously unselected package libgmp-dev:arm64. +#7 48.97 Preparing to unpack .../224-libgmp-dev_2%3a6.2.1+dfsg-3ubuntu1_arm64.deb ... +#7 48.97 Unpacking libgmp-dev:arm64 (2:6.2.1+dfsg-3ubuntu1) ... +#7 49.00 Selecting previously unselected package libgpm2:arm64. +#7 49.00 Preparing to unpack .../225-libgpm2_1.20.7-10build1_arm64.deb ... +#7 49.01 Unpacking libgpm2:arm64 (1.20.7-10build1) ... +#7 49.09 Selecting previously unselected package libgraphite2-3:arm64. +#7 49.09 Preparing to unpack .../226-libgraphite2-3_1.3.14-1build2_arm64.deb ... +#7 49.10 Unpacking libgraphite2-3:arm64 (1.3.14-1build2) ... +#7 49.13 Selecting previously unselected package libharfbuzz0b:arm64. +#7 49.13 Preparing to unpack .../227-libharfbuzz0b_2.7.4-1ubuntu3.2_arm64.deb ... +#7 49.14 Unpacking libharfbuzz0b:arm64 (2.7.4-1ubuntu3.2) ... +#7 49.17 Selecting previously unselected package libthai-data. +#7 49.18 Preparing to unpack .../228-libthai-data_0.1.29-1build1_all.deb ... +#7 49.18 Unpacking libthai-data (0.1.29-1build1) ... +#7 49.22 Selecting previously unselected package libthai0:arm64. +#7 49.22 Preparing to unpack .../229-libthai0_0.1.29-1build1_arm64.deb ... +#7 49.24 Unpacking libthai0:arm64 (0.1.29-1build1) ... +#7 49.27 Selecting previously unselected package libpango-1.0-0:arm64. +#7 49.27 Preparing to unpack .../230-libpango-1.0-0_1.50.6+ds-2ubuntu1_arm64.deb ... +#7 49.27 Unpacking libpango-1.0-0:arm64 (1.50.6+ds-2ubuntu1) ... +#7 49.31 Selecting previously unselected package libpangoft2-1.0-0:arm64. +#7 49.31 Preparing to unpack .../231-libpangoft2-1.0-0_1.50.6+ds-2ubuntu1_arm64.deb ... +#7 49.31 Unpacking libpangoft2-1.0-0:arm64 (1.50.6+ds-2ubuntu1) ... +#7 49.35 Selecting previously unselected package libpangocairo-1.0-0:arm64. +#7 49.35 Preparing to unpack .../232-libpangocairo-1.0-0_1.50.6+ds-2ubuntu1_arm64.deb ... +#7 49.35 Unpacking libpangocairo-1.0-0:arm64 (1.50.6+ds-2ubuntu1) ... +#7 49.38 Selecting previously unselected package libwayland-client0:arm64. +#7 49.38 Preparing to unpack .../233-libwayland-client0_1.20.0-1ubuntu0.1_arm64.deb ... +#7 49.38 Unpacking libwayland-client0:arm64 (1.20.0-1ubuntu0.1) ... +#7 49.41 Selecting previously unselected package libwayland-cursor0:arm64. +#7 49.41 Preparing to unpack .../234-libwayland-cursor0_1.20.0-1ubuntu0.1_arm64.deb ... +#7 49.41 Unpacking libwayland-cursor0:arm64 (1.20.0-1ubuntu0.1) ... +#7 49.43 Selecting previously unselected package libwayland-egl1:arm64. +#7 49.44 Preparing to unpack .../235-libwayland-egl1_1.20.0-1ubuntu0.1_arm64.deb ... +#7 49.44 Unpacking libwayland-egl1:arm64 (1.20.0-1ubuntu0.1) ... +#7 49.46 Selecting previously unselected package libxcomposite1:arm64. +#7 49.46 Preparing to unpack .../236-libxcomposite1_1%3a0.4.5-1build2_arm64.deb ... +#7 49.47 Unpacking libxcomposite1:arm64 (1:0.4.5-1build2) ... +#7 49.49 Selecting previously unselected package libxcursor1:arm64. +#7 49.49 Preparing to unpack .../237-libxcursor1_1%3a1.2.0-2build4_arm64.deb ... +#7 49.49 Unpacking libxcursor1:arm64 (1:1.2.0-2build4) ... +#7 49.52 Selecting previously unselected package libxdamage1:arm64. +#7 49.52 Preparing to unpack .../238-libxdamage1_1%3a1.1.5-2build2_arm64.deb ... +#7 49.53 Unpacking libxdamage1:arm64 (1:1.1.5-2build2) ... +#7 49.57 Selecting previously unselected package libxinerama1:arm64. +#7 49.57 Preparing to unpack .../239-libxinerama1_2%3a1.1.4-3_arm64.deb ... +#7 49.57 Unpacking libxinerama1:arm64 (2:1.1.4-3) ... +#7 49.62 Selecting previously unselected package libxkbcommon0:arm64. +#7 49.62 Preparing to unpack .../240-libxkbcommon0_1.4.0-1_arm64.deb ... +#7 49.63 Unpacking libxkbcommon0:arm64 (1.4.0-1) ... +#7 49.67 Selecting previously unselected package libxrandr2:arm64. +#7 49.68 Preparing to unpack .../241-libxrandr2_2%3a1.5.2-1build1_arm64.deb ... +#7 49.68 Unpacking libxrandr2:arm64 (2:1.5.2-1build1) ... +#7 49.72 Selecting previously unselected package libgtk-3-common. +#7 49.72 Preparing to unpack .../242-libgtk-3-common_3.24.33-1ubuntu2.2_all.deb ... +#7 49.73 Unpacking libgtk-3-common (3.24.33-1ubuntu2.2) ... +#7 49.98 Selecting previously unselected package libgtk-3-0:arm64. +#7 49.98 Preparing to unpack .../243-libgtk-3-0_3.24.33-1ubuntu2.2_arm64.deb ... +#7 49.99 Unpacking libgtk-3-0:arm64 (3.24.33-1ubuntu2.2) ... +#7 50.07 Selecting previously unselected package libgtk-3-bin. +#7 50.07 Preparing to unpack .../244-libgtk-3-bin_3.24.33-1ubuntu2.2_arm64.deb ... +#7 50.07 Unpacking libgtk-3-bin (3.24.33-1ubuntu2.2) ... +#7 50.10 Selecting previously unselected package librsvg2-2:arm64. +#7 50.11 Preparing to unpack .../245-librsvg2-2_2.52.5+dfsg-3ubuntu0.2_arm64.deb ... +#7 50.11 Unpacking librsvg2-2:arm64 (2.52.5+dfsg-3ubuntu0.2) ... +#7 50.18 Selecting previously unselected package libllvm11:arm64. +#7 50.18 Preparing to unpack .../246-libllvm11_1%3a11.1.0-6_arm64.deb ... +#7 50.19 Unpacking libllvm11:arm64 (1:11.1.0-6) ... +#7 50.55 Selecting previously unselected package libphobos2-ldc-shared98:arm64. +#7 50.56 Preparing to unpack .../247-libphobos2-ldc-shared98_1%3a1.28.0-1ubuntu1_arm64.deb ... +#7 50.56 Unpacking libphobos2-ldc-shared98:arm64 (1:1.28.0-1ubuntu1) ... +#7 50.60 Selecting previously unselected package libgtkd-3-0:arm64. +#7 50.61 Preparing to unpack .../248-libgtkd-3-0_3.10.0-1ubuntu1_arm64.deb ... +#7 50.61 Unpacking libgtkd-3-0:arm64 (3.10.0-1ubuntu1) ... +#7 50.69 Selecting previously unselected package libhtml-tagset-perl. +#7 50.69 Preparing to unpack .../249-libhtml-tagset-perl_3.20-4_all.deb ... +#7 50.69 Unpacking libhtml-tagset-perl (3.20-4) ... +#7 50.71 Selecting previously unselected package libhtml-parser-perl:arm64. +#7 50.72 Preparing to unpack .../250-libhtml-parser-perl_3.76-1build2_arm64.deb ... +#7 50.72 Unpacking libhtml-parser-perl:arm64 (3.76-1build2) ... +#7 50.75 Selecting previously unselected package libio-html-perl. +#7 50.76 Preparing to unpack .../251-libio-html-perl_1.004-2_all.deb ... +#7 50.76 Unpacking libio-html-perl (1.004-2) ... +#7 50.78 Selecting previously unselected package liblwp-mediatypes-perl. +#7 50.79 Preparing to unpack .../252-liblwp-mediatypes-perl_6.04-1_all.deb ... +#7 50.79 Unpacking liblwp-mediatypes-perl (6.04-1) ... +#7 50.81 Selecting previously unselected package libhttp-message-perl. +#7 50.82 Preparing to unpack .../253-libhttp-message-perl_6.36-1_all.deb ... +#7 50.82 Unpacking libhttp-message-perl (6.36-1) ... +#7 50.84 Selecting previously unselected package libhtml-form-perl. +#7 50.84 Preparing to unpack .../254-libhtml-form-perl_6.07-1_all.deb ... +#7 50.85 Unpacking libhtml-form-perl (6.07-1) ... +#7 50.87 Selecting previously unselected package libhtml-tree-perl. +#7 50.87 Preparing to unpack .../255-libhtml-tree-perl_5.07-2_all.deb ... +#7 50.88 Unpacking libhtml-tree-perl (5.07-2) ... +#7 50.92 Selecting previously unselected package libhtml-format-perl. +#7 50.92 Preparing to unpack .../256-libhtml-format-perl_2.12-1.1_all.deb ... +#7 50.92 Unpacking libhtml-format-perl (2.12-1.1) ... +#7 51.07 Selecting previously unselected package libhttp-cookies-perl. +#7 51.08 Preparing to unpack .../257-libhttp-cookies-perl_6.10-1_all.deb ... +#7 51.10 Unpacking libhttp-cookies-perl (6.10-1) ... +#7 51.16 Selecting previously unselected package libhttp-daemon-perl. +#7 51.16 Preparing to unpack .../258-libhttp-daemon-perl_6.13-1ubuntu0.1_all.deb ... +#7 51.17 Unpacking libhttp-daemon-perl (6.13-1ubuntu0.1) ... +#7 51.19 Selecting previously unselected package libhttp-negotiate-perl. +#7 51.19 Preparing to unpack .../259-libhttp-negotiate-perl_6.01-1_all.deb ... +#7 51.19 Unpacking libhttp-negotiate-perl (6.01-1) ... +#7 51.22 Selecting previously unselected package libice6:arm64. +#7 51.22 Preparing to unpack .../260-libice6_2%3a1.0.10-1build2_arm64.deb ... +#7 51.22 Unpacking libice6:arm64 (2:1.0.10-1build2) ... +#7 51.24 Selecting previously unselected package libicu-dev:arm64. +#7 51.24 Preparing to unpack .../261-libicu-dev_70.1-2_arm64.deb ... +#7 51.25 Unpacking libicu-dev:arm64 (70.1-2) ... +#7 51.76 Selecting previously unselected package perl-openssl-defaults:arm64. +#7 51.77 Preparing to unpack .../262-perl-openssl-defaults_5build2_arm64.deb ... +#7 51.80 Unpacking perl-openssl-defaults:arm64 (5build2) ... +#7 51.89 Selecting previously unselected package libnet-ssleay-perl:arm64. +#7 51.90 Preparing to unpack .../263-libnet-ssleay-perl_1.92-1build2_arm64.deb ... +#7 51.91 Unpacking libnet-ssleay-perl:arm64 (1.92-1build2) ... +#7 52.11 Selecting previously unselected package libio-socket-ssl-perl. +#7 52.12 Preparing to unpack .../264-libio-socket-ssl-perl_2.074-2_all.deb ... +#7 52.14 Unpacking libio-socket-ssl-perl (2.074-2) ... +#7 52.28 Selecting previously unselected package libio-stringy-perl. +#7 52.28 Preparing to unpack .../265-libio-stringy-perl_2.111-3_all.deb ... +#7 52.29 Unpacking libio-stringy-perl (2.111-3) ... +#7 52.42 Selecting previously unselected package libjpeg-turbo8-dev:arm64. +#7 52.43 Preparing to unpack .../266-libjpeg-turbo8-dev_2.1.2-0ubuntu1_arm64.deb ... +#7 52.47 Unpacking libjpeg-turbo8-dev:arm64 (2.1.2-0ubuntu1) ... +#7 52.59 Selecting previously unselected package libjpeg8-dev:arm64. +#7 52.60 Preparing to unpack .../267-libjpeg8-dev_8c-2ubuntu10_arm64.deb ... +#7 52.63 Unpacking libjpeg8-dev:arm64 (8c-2ubuntu10) ... +#7 52.79 Selecting previously unselected package libjpeg-dev:arm64. +#7 52.79 Preparing to unpack .../268-libjpeg-dev_8c-2ubuntu10_arm64.deb ... +#7 52.81 Unpacking libjpeg-dev:arm64 (8c-2ubuntu10) ... +#7 53.01 Selecting previously unselected package libjs-jquery. +#7 53.01 Preparing to unpack .../269-libjs-jquery_3.6.0+dfsg+~3.5.13-1_all.deb ... +#7 53.07 Unpacking libjs-jquery (3.6.0+dfsg+~3.5.13-1) ... +#7 53.24 Selecting previously unselected package liblapack3:arm64. +#7 53.25 Preparing to unpack .../270-liblapack3_3.10.0-2ubuntu1_arm64.deb ... +#7 53.29 Unpacking liblapack3:arm64 (3.10.0-2ubuntu1) ... +#7 53.49 Selecting previously unselected package liblapack-dev:arm64. +#7 53.49 Preparing to unpack .../271-liblapack-dev_3.10.0-2ubuntu1_arm64.deb ... +#7 53.55 Unpacking liblapack-dev:arm64 (3.10.0-2ubuntu1) ... +#7 53.88 Selecting previously unselected package libldap-common. +#7 53.89 Preparing to unpack .../272-libldap-common_2.5.19+dfsg-0ubuntu0.22.04.1_all.deb ... +#7 53.91 Unpacking libldap-common (2.5.19+dfsg-0ubuntu0.22.04.1) ... +#7 54.17 Selecting previously unselected package libnet-http-perl. +#7 54.17 Preparing to unpack .../273-libnet-http-perl_6.22-1_all.deb ... +#7 54.20 Unpacking libnet-http-perl (6.22-1) ... +#7 54.43 Selecting previously unselected package libtry-tiny-perl. +#7 54.44 Preparing to unpack .../274-libtry-tiny-perl_0.31-1_all.deb ... +#7 54.51 Unpacking libtry-tiny-perl (0.31-1) ... +#7 54.70 Selecting previously unselected package libwww-robotrules-perl. +#7 54.71 Preparing to unpack .../275-libwww-robotrules-perl_6.02-1_all.deb ... +#7 54.72 Unpacking libwww-robotrules-perl (6.02-1) ... +#7 54.93 Selecting previously unselected package libwww-perl. +#7 54.93 Preparing to unpack .../276-libwww-perl_6.61-1_all.deb ... +#7 54.95 Unpacking libwww-perl (6.61-1) ... +#7 55.15 Selecting previously unselected package liblwp-protocol-https-perl. +#7 55.16 Preparing to unpack .../277-liblwp-protocol-https-perl_6.10-1_all.deb ... +#7 55.20 Unpacking liblwp-protocol-https-perl (6.10-1) ... +#7 55.43 Selecting previously unselected package libnet-smtp-ssl-perl. +#7 55.44 Preparing to unpack .../278-libnet-smtp-ssl-perl_1.04-1_all.deb ... +#7 55.50 Unpacking libnet-smtp-ssl-perl (1.04-1) ... +#7 55.79 Selecting previously unselected package libmailtools-perl. +#7 55.80 Preparing to unpack .../279-libmailtools-perl_2.21-1_all.deb ... +#7 55.80 Unpacking libmailtools-perl (2.21-1) ... +#7 56.08 Selecting previously unselected package libncurses-dev:arm64. +#7 56.09 Preparing to unpack .../280-libncurses-dev_6.3-2ubuntu0.1_arm64.deb ... +#7 56.11 Unpacking libncurses-dev:arm64 (6.3-2ubuntu0.1) ... +#7 56.30 Selecting previously unselected package libncurses5-dev:arm64. +#7 56.31 Preparing to unpack .../281-libncurses5-dev_6.3-2ubuntu0.1_arm64.deb ... +#7 56.39 Unpacking libncurses5-dev:arm64 (6.3-2ubuntu0.1) ... +#7 56.64 Selecting previously unselected package libxml-parser-perl:arm64. +#7 56.65 Preparing to unpack .../282-libxml-parser-perl_2.46-3build1_arm64.deb ... +#7 56.66 Unpacking libxml-parser-perl:arm64 (2.46-3build1) ... +#7 56.79 Selecting previously unselected package libxml-twig-perl. +#7 56.79 Preparing to unpack .../283-libxml-twig-perl_1%3a3.52-1_all.deb ... +#7 56.81 Unpacking libxml-twig-perl (1:3.52-1) ... +#7 57.04 Selecting previously unselected package libnet-dbus-perl. +#7 57.05 Preparing to unpack .../284-libnet-dbus-perl_1.2.0-1build3_arm64.deb ... +#7 57.09 Unpacking libnet-dbus-perl (1.2.0-1build3) ... +#7 57.24 Selecting previously unselected package libpaper-utils. +#7 57.25 Preparing to unpack .../285-libpaper-utils_1.1.28build2_arm64.deb ... +#7 57.28 Unpacking libpaper-utils (1.1.28build2) ... +#7 ... -#18 [stage-1 9/12] COPY --from=rust-builder /home/jovyan/.cargo/bin/csvlens /usr/local/bin/ -#18 CACHED +#9 [rust-builder 4/6] RUN . /home/jovyan/.cargo/env && cargo install csvlens +#9 10.26 Compiling zerocopy-derive v0.8.27 +#9 10.47 Compiling thiserror-impl v1.0.69 +#9 10.74 Compiling strum_macros v0.26.4 +#9 11.08 Compiling thiserror-impl v2.0.17 +#9 11.10 Compiling darling_macro v0.20.11 +#9 11.16 Compiling base64 v0.22.1 +#9 11.32 Compiling colorchoice v1.0.4 +#9 11.34 Compiling tree_magic_mini v3.2.0 +#9 11.41 Compiling anstream v0.6.21 +#9 11.66 Compiling wayland-protocols v0.32.9 +#9 11.76 Compiling tempfile v3.23.0 +#9 11.98 Compiling terminal_size v0.4.3 +#9 12.01 Compiling gethostname v1.1.0 +#9 12.09 Compiling os_pipe v1.2.3 +#9 12.15 Compiling clap_lex v0.7.6 +#9 12.22 Compiling simdutf8 v0.1.5 +#9 12.22 Compiling darling v0.20.11 +#9 12.28 Compiling fast-float2 v0.2.3 +#9 12.52 Compiling x11rb-protocol v0.13.2 +#9 12.54 Compiling qsv-dateparser v0.13.0 +#9 12.56 Compiling filedescriptor v0.8.3 +#9 12.75 Compiling crossterm v0.28.1 +#9 12.92 Compiling clap_builder v4.5.51 +#9 12.94 Compiling clap_derive v4.5.49 +#9 13.19 Compiling tabwriter v1.4.1 +#9 13.19 Compiling strum v0.26.3 +#9 13.26 Compiling terminal-trx v0.2.5 +#9 13.32 Compiling xterm-color v1.0.1 +#9 13.52 Compiling bytecount v0.6.9 +#9 13.58 Compiling percent-encoding v2.3.2 +#9 13.77 Compiling ratatui v0.29.0 +#9 13.79 Compiling qsv-sniffer v0.11.0 +#9 13.79 Compiling terminal-colorsaurus v1.0.1 +#9 13.79 Compiling sorted-vec v0.8.10 +#9 14.35 Compiling half v2.7.1 +#9 14.78 Compiling arrow-buffer v56.2.0 +#9 15.58 Compiling arrow-data v56.2.0 +#9 15.93 Compiling clap v4.5.51 +#9 16.00 Compiling wayland-protocols-wlr v0.3.9 +#9 16.10 Compiling ansi-to-tui v7.0.0 +#9 16.30 Compiling tui-input v0.13.0 +#9 16.36 Compiling x11rb v0.13.2 +#9 16.55 Compiling arrow-array v56.2.0 +#9 17.29 Compiling wl-clipboard-rs v0.9.2 +#9 18.08 Compiling arboard v3.6.1 +#9 ... -#19 [stage-1 10/12] COPY --from=rust-builder /usr/local/bin/* /usr/local/bin/ -#19 DONE 0.1s +#7 [stage-1 2/11] RUN apt-get update && apt-get install -y r-base libcurl4-openssl-dev libssl-dev libxml2-dev curl texlive-xetex texlive-fonts-recommended texlive-plain-generic ruby ruby-dev vim nano && apt-get clean && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* +#7 57.52 Selecting previously unselected package libpcre16-3:arm64. +#7 57.54 Preparing to unpack .../286-libpcre16-3_2%3a8.39-13ubuntu0.22.04.1_arm64.deb ... +#7 57.68 Unpacking libpcre16-3:arm64 (2:8.39-13ubuntu0.22.04.1) ... +#7 57.86 Selecting previously unselected package libpcre2-16-0:arm64. +#7 57.87 Preparing to unpack .../287-libpcre2-16-0_10.39-3ubuntu0.1_arm64.deb ... +#7 57.88 Unpacking libpcre2-16-0:arm64 (10.39-3ubuntu0.1) ... +#7 58.04 Selecting previously unselected package libpcre2-32-0:arm64. +#7 58.04 Preparing to unpack .../288-libpcre2-32-0_10.39-3ubuntu0.1_arm64.deb ... +#7 58.06 Unpacking libpcre2-32-0:arm64 (10.39-3ubuntu0.1) ... +#7 58.37 Selecting previously unselected package libpcre2-posix3:arm64. +#7 58.38 Preparing to unpack .../289-libpcre2-posix3_10.39-3ubuntu0.1_arm64.deb ... +#7 58.40 Unpacking libpcre2-posix3:arm64 (10.39-3ubuntu0.1) ... +#7 58.57 Selecting previously unselected package libpcre2-dev:arm64. +#7 58.57 Preparing to unpack .../290-libpcre2-dev_10.39-3ubuntu0.1_arm64.deb ... +#7 58.62 Unpacking libpcre2-dev:arm64 (10.39-3ubuntu0.1) ... +#7 58.86 Selecting previously unselected package libpcre32-3:arm64. +#7 58.86 Preparing to unpack .../291-libpcre32-3_2%3a8.39-13ubuntu0.22.04.1_arm64.deb ... +#7 58.88 Unpacking libpcre32-3:arm64 (2:8.39-13ubuntu0.22.04.1) ... +#7 59.11 Selecting previously unselected package libpcrecpp0v5:arm64. +#7 59.12 Preparing to unpack .../292-libpcrecpp0v5_2%3a8.39-13ubuntu0.22.04.1_arm64.deb ... +#7 59.16 Unpacking libpcrecpp0v5:arm64 (2:8.39-13ubuntu0.22.04.1) ... +#7 59.34 Selecting previously unselected package libpcre3-dev:arm64. +#7 59.34 Preparing to unpack .../293-libpcre3-dev_2%3a8.39-13ubuntu0.22.04.1_arm64.deb ... +#7 59.36 Unpacking libpcre3-dev:arm64 (2:8.39-13ubuntu0.22.04.1) ... +#7 59.60 Selecting previously unselected package zlib1g-dev:arm64. +#7 59.61 Preparing to unpack .../294-zlib1g-dev_1%3a1.2.11.dfsg-2ubuntu9.2_arm64.deb ... +#7 59.64 Unpacking zlib1g-dev:arm64 (1:1.2.11.dfsg-2ubuntu9.2) ... +#7 59.79 Selecting previously unselected package libpng-dev:arm64. +#7 59.80 Preparing to unpack .../295-libpng-dev_1.6.37-3build5_arm64.deb ... +#7 59.82 Unpacking libpng-dev:arm64 (1.6.37-3build5) ... +#7 60.05 Selecting previously unselected package libpng-tools. +#7 60.06 Preparing to unpack .../296-libpng-tools_1.6.37-3build5_arm64.deb ... +#7 60.17 Unpacking libpng-tools (1.6.37-3build5) ... +#7 60.37 Selecting previously unselected package libptexenc1:arm64. +#7 60.38 Preparing to unpack .../297-libptexenc1_2021.20210626.59705-1ubuntu0.2_arm64.deb ... +#7 60.40 Unpacking libptexenc1:arm64 (2021.20210626.59705-1ubuntu0.2) ... +#7 60.54 Selecting previously unselected package libpython3.10:arm64. +#7 60.54 Preparing to unpack .../298-libpython3.10_3.10.12-1~22.04.11_arm64.deb ... +#7 60.71 Unpacking libpython3.10:arm64 (3.10.12-1~22.04.11) ... +#7 61.06 Selecting previously unselected package libreadline-dev:arm64. +#7 61.06 Preparing to unpack .../299-libreadline-dev_8.1.2-1_arm64.deb ... +#7 61.10 Unpacking libreadline-dev:arm64 (8.1.2-1) ... +#7 61.37 Selecting previously unselected package librsvg2-common:arm64. +#7 61.38 Preparing to unpack .../300-librsvg2-common_2.52.5+dfsg-3ubuntu0.2_arm64.deb ... +#7 61.40 Unpacking librsvg2-common:arm64 (2.52.5+dfsg-3ubuntu0.2) ... +#7 61.54 Selecting previously unselected package rubygems-integration. +#7 61.55 Preparing to unpack .../301-rubygems-integration_1.18_all.deb ... +#7 61.57 Unpacking rubygems-integration (1.18) ... +#7 61.72 Selecting previously unselected package ruby3.0. +#7 61.72 Preparing to unpack .../302-ruby3.0_3.0.2-7ubuntu2.11_arm64.deb ... +#7 61.74 Unpacking ruby3.0 (3.0.2-7ubuntu2.11) ... +#7 61.88 Selecting previously unselected package ruby-rubygems. +#7 61.89 Preparing to unpack .../303-ruby-rubygems_3.3.5-2ubuntu1.2_all.deb ... +#7 61.93 Unpacking ruby-rubygems (3.3.5-2ubuntu1.2) ... +#7 62.15 Selecting previously unselected package ruby. +#7 62.16 Preparing to unpack .../304-ruby_1%3a3.0~exp1_arm64.deb ... +#7 62.19 Unpacking ruby (1:3.0~exp1) ... +#7 62.25 Selecting previously unselected package rake. +#7 62.26 Preparing to unpack .../305-rake_13.0.6-2_all.deb ... +#7 62.26 Unpacking rake (13.0.6-2) ... +#7 62.50 Selecting previously unselected package ruby-net-telnet. +#7 62.54 Preparing to unpack .../306-ruby-net-telnet_0.1.1-2_all.deb ... +#7 62.55 Unpacking ruby-net-telnet (0.1.1-2) ... +#7 62.66 Selecting previously unselected package ruby-webrick. +#7 62.67 Preparing to unpack .../307-ruby-webrick_1.7.0-3ubuntu0.2_all.deb ... +#7 62.71 Unpacking ruby-webrick (1.7.0-3ubuntu0.2) ... +#7 62.90 Selecting previously unselected package ruby-xmlrpc. +#7 62.90 Preparing to unpack .../308-ruby-xmlrpc_0.3.2-1ubuntu0.1_all.deb ... +#7 63.09 Unpacking ruby-xmlrpc (0.3.2-1ubuntu0.1) ... +#7 63.29 Selecting previously unselected package libruby3.0:arm64. +#7 63.29 Preparing to unpack .../309-libruby3.0_3.0.2-7ubuntu2.11_arm64.deb ... +#7 63.30 Unpacking libruby3.0:arm64 (3.0.2-7ubuntu2.11) ... +#7 64.03 Selecting previously unselected package libsasl2-modules:arm64. +#7 64.04 Preparing to unpack .../310-libsasl2-modules_2.1.27+dfsg2-3ubuntu1.2_arm64.deb ... +#7 64.06 Unpacking libsasl2-modules:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... +#7 64.20 Selecting previously unselected package libsm6:arm64. +#7 64.21 Preparing to unpack .../311-libsm6_2%3a1.2.3-1build2_arm64.deb ... +#7 64.23 Unpacking libsm6:arm64 (2:1.2.3-1build2) ... +#7 64.46 Selecting previously unselected package libsodium23:arm64. +#7 64.46 Preparing to unpack .../312-libsodium23_1.0.18-1build2_arm64.deb ... +#7 64.49 Unpacking libsodium23:arm64 (1.0.18-1build2) ... +#7 64.72 Selecting previously unselected package libssl-dev:arm64. +#7 64.73 Preparing to unpack .../313-libssl-dev_3.0.2-0ubuntu1.20_arm64.deb ... +#7 64.75 Unpacking libssl-dev:arm64 (3.0.2-0ubuntu1.20) ... +#7 65.07 Selecting previously unselected package libsynctex2:arm64. +#7 65.07 Preparing to unpack .../314-libsynctex2_2021.20210626.59705-1ubuntu0.2_arm64.deb ... +#7 65.08 Unpacking libsynctex2:arm64 (2021.20210626.59705-1ubuntu0.2) ... +#7 65.38 Selecting previously unselected package libtcl8.6:arm64. +#7 65.39 Preparing to unpack .../315-libtcl8.6_8.6.12+dfsg-1build1_arm64.deb ... +#7 65.48 Unpacking libtcl8.6:arm64 (8.6.12+dfsg-1build1) ... +#7 65.81 Selecting previously unselected package libteckit0:arm64. +#7 65.81 Preparing to unpack .../316-libteckit0_2.5.11+ds1-1_arm64.deb ... +#7 65.86 Unpacking libteckit0:arm64 (2.5.11+ds1-1) ... +#7 66.30 Selecting previously unselected package libtexlua53:arm64. +#7 66.30 Preparing to unpack .../317-libtexlua53_2021.20210626.59705-1ubuntu0.2_arm64.deb ... +#7 66.36 Unpacking libtexlua53:arm64 (2021.20210626.59705-1ubuntu0.2) ... +#7 66.59 Selecting previously unselected package libtie-ixhash-perl. +#7 66.60 Preparing to unpack .../318-libtie-ixhash-perl_1.23-2.1_all.deb ... +#7 66.61 Unpacking libtie-ixhash-perl (1.23-2.1) ... +#7 66.71 Selecting previously unselected package libxft2:arm64. +#7 66.71 Preparing to unpack .../319-libxft2_2.3.4-1_arm64.deb ... +#7 66.74 Unpacking libxft2:arm64 (2.3.4-1) ... +#7 66.88 Selecting previously unselected package libxss1:arm64. +#7 66.89 Preparing to unpack .../320-libxss1_1%3a1.2.3-1build2_arm64.deb ... +#7 66.90 Unpacking libxss1:arm64 (1:1.2.3-1build2) ... +#7 67.08 Selecting previously unselected package libtk8.6:arm64. +#7 67.09 Preparing to unpack .../321-libtk8.6_8.6.12-1build1_arm64.deb ... +#7 67.10 Unpacking libtk8.6:arm64 (8.6.12-1build1) ... +#7 ... -#20 [stage-1 11/12] RUN ls -l /usr/local/bin/* -#20 0.190 -rwxr-xr-x 1 root root 10339888 Nov 5 07:37 /usr/local/bin/csvlens -#20 0.190 -rwxr-xr-x 1 root root 1043 Aug 19 2023 /usr/local/bin/fix-permissions -#20 0.190 -rwxr-xr-x 1 root root 19803400 Nov 5 09:58 /usr/local/bin/obiannotate -#20 0.190 -rwxr-xr-x 1 root root 20079416 Nov 5 09:58 /usr/local/bin/obiclean -#20 0.190 -rwxr-xr-x 1 root root 19765616 Nov 5 09:58 /usr/local/bin/obicleandb -#20 0.190 -rwxr-xr-x 1 root root 19562704 Nov 5 09:58 /usr/local/bin/obicomplement -#20 0.190 -rwxr-xr-x 1 root root 20263896 Nov 5 09:58 /usr/local/bin/obiconsensus -#20 0.190 -rwxr-xr-x 1 root root 19562760 Nov 5 09:58 /usr/local/bin/obiconvert -#20 0.190 -rwxr-xr-x 1 root root 19288648 Nov 5 09:58 /usr/local/bin/obicount -#20 0.190 -rwxr-xr-x 1 root root 19568056 Nov 5 09:58 /usr/local/bin/obicsv -#20 0.190 -rwxr-xr-x 1 root root 19569688 Nov 5 09:58 /usr/local/bin/obidemerge -#20 0.190 -rwxr-xr-x 1 root root 19581400 Nov 5 09:58 /usr/local/bin/obidistribute -#20 0.190 -rwxr-xr-x 1 root root 19711024 Nov 5 09:58 /usr/local/bin/obigrep -#20 0.190 -rwxr-xr-x 1 root root 19600488 Nov 5 09:58 /usr/local/bin/obijoin -#20 0.190 -rwxr-xr-x 1 root root 19788488 Nov 5 09:58 /usr/local/bin/obikmermatch -#20 0.190 -rwxr-xr-x 1 root root 19721640 Nov 5 09:58 /usr/local/bin/obikmersimcount -#20 0.190 -rwxr-xr-x 1 root root 19661496 Nov 5 09:58 /usr/local/bin/obilandmark -#20 0.190 -rwxr-xr-x 1 root root 19359192 Nov 5 09:58 /usr/local/bin/obimatrix -#20 0.190 -rwxr-xr-x 1 root root 19932464 Nov 5 09:58 /usr/local/bin/obimicrosat -#20 0.190 -rwxr-xr-x 1 root root 19718320 Nov 5 09:58 /usr/local/bin/obimultiplex -#20 0.190 -rwxr-xr-x 1 root root 19639328 Nov 5 09:58 /usr/local/bin/obipairing -#20 0.190 -rwxr-xr-x 1 root root 19638176 Nov 5 09:58 /usr/local/bin/obipcr -#20 0.190 -rwxr-xr-x 1 root root 19649392 Nov 5 09:58 /usr/local/bin/obireffamidx -#20 0.190 -rwxr-xr-x 1 root root 19606240 Nov 5 09:58 /usr/local/bin/obirefidx -#20 0.190 -rwxr-xr-x 1 root root 20809824 Nov 5 09:58 /usr/local/bin/obiscript -#20 0.190 -rwxr-xr-x 1 root root 19624912 Nov 5 09:58 /usr/local/bin/obisplit -#20 0.190 -rwxr-xr-x 1 root root 19923272 Nov 5 09:58 /usr/local/bin/obisummary -#20 0.190 -rwxr-xr-x 1 root root 19661632 Nov 5 09:58 /usr/local/bin/obitag -#20 0.190 -rwxr-xr-x 1 root root 19793288 Nov 5 09:58 /usr/local/bin/obitagpcr -#20 0.190 -rwxr-xr-x 1 root root 19607312 Nov 5 09:58 /usr/local/bin/obitaxonomy -#20 0.190 -rwxr-xr-x 1 root root 19692664 Nov 5 09:58 /usr/local/bin/obiuniq -#20 0.190 -rwxr-xr-x 1 root root 1331 Sep 4 2023 /usr/local/bin/run-hooks.sh -#20 0.190 -rwxr-xr-x 1 root root 1471 Oct 17 2023 /usr/local/bin/start-notebook.py -#20 0.190 -rwxr-xr-x 1 root root 152 Oct 17 2023 /usr/local/bin/start-notebook.sh -#20 0.190 -rwxr-xr-x 1 root root 11624 Aug 25 2023 /usr/local/bin/start.sh -#20 0.190 -rwxr-xr-x 1 root root 726 Oct 17 2023 /usr/local/bin/start-singleuser.py -#20 0.190 -rwxr-xr-x 1 root root 158 Oct 17 2023 /usr/local/bin/start-singleuser.sh -#20 0.190 -rwxr-xr-x 1 root root 544 Nov 5 07:47 /usr/local/bin/uplot -#20 0.190 -rwxr-xr-x 1 root root 548 Nov 5 07:47 /usr/local/bin/youplot -#20 0.190 -#20 0.190 /usr/local/bin/before-notebook.d: -#20 0.190 total 0 -#20 0.190 -#20 0.190 /usr/local/bin/start-notebook.d: -#20 0.190 total 0 -#20 DONE 0.2s +#9 [rust-builder 4/6] RUN . /home/jovyan/.cargo/env && cargo install csvlens +#9 19.89 Compiling arrow-select v56.2.0 +#9 19.94 Compiling arrow-row v56.2.0 +#9 20.01 Compiling arrow-arith v56.2.0 +#9 23.10 Compiling arrow-cast v56.2.0 +#9 23.35 Compiling arrow-string v56.2.0 +#9 23.54 Compiling arrow-ord v56.2.0 +#9 ... -#21 [stage-1 12/12] WORKDIR /home/jovyan/work -#21 DONE 0.1s +#7 [stage-1 2/11] RUN apt-get update && apt-get install -y r-base libcurl4-openssl-dev libssl-dev libxml2-dev curl texlive-xetex texlive-fonts-recommended texlive-plain-generic ruby ruby-dev vim nano && apt-get clean && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* +#7 67.34 Selecting previously unselected package libvte-2.91-common. +#7 67.35 Preparing to unpack .../322-libvte-2.91-common_0.68.0-1ubuntu0.1_arm64.deb ... +#7 67.53 Unpacking libvte-2.91-common (0.68.0-1ubuntu0.1) ... +#7 67.78 Selecting previously unselected package libvte-2.91-0:arm64. +#7 67.79 Preparing to unpack .../323-libvte-2.91-0_0.68.0-1ubuntu0.1_arm64.deb ... +#7 67.81 Unpacking libvte-2.91-0:arm64 (0.68.0-1ubuntu0.1) ... +#7 67.96 Selecting previously unselected package libvted-3-0:arm64. +#7 67.97 Preparing to unpack .../324-libvted-3-0_3.10.0-1ubuntu1_arm64.deb ... +#7 68.11 Unpacking libvted-3-0:arm64 (3.10.0-1ubuntu1) ... +#7 68.40 Selecting previously unselected package libx11-protocol-perl. +#7 68.41 Preparing to unpack .../325-libx11-protocol-perl_0.56-7.1_all.deb ... +#7 68.45 Unpacking libx11-protocol-perl (0.56-7.1) ... +#7 68.80 Selecting previously unselected package libxt6:arm64. +#7 68.81 Preparing to unpack .../326-libxt6_1%3a1.2.1-1_arm64.deb ... +#7 68.86 Unpacking libxt6:arm64 (1:1.2.1-1) ... +#7 69.22 Selecting previously unselected package libxmu6:arm64. +#7 69.22 Preparing to unpack .../327-libxmu6_2%3a1.1.3-3_arm64.deb ... +#7 69.23 Unpacking libxmu6:arm64 (2:1.1.3-3) ... +#7 69.38 Selecting previously unselected package libxaw7:arm64. +#7 69.38 Preparing to unpack .../328-libxaw7_2%3a1.0.14-1_arm64.deb ... +#7 69.39 Unpacking libxaw7:arm64 (2:1.0.14-1) ... +#7 69.44 Selecting previously unselected package libxcb-shape0:arm64. +#7 69.44 Preparing to unpack .../329-libxcb-shape0_1.14-3ubuntu3_arm64.deb ... +#7 69.48 Unpacking libxcb-shape0:arm64 (1.14-3ubuntu3) ... +#7 69.81 Selecting previously unselected package libxkbfile1:arm64. +#7 69.82 Preparing to unpack .../330-libxkbfile1_1%3a1.1.0-1build3_arm64.deb ... +#7 69.85 Unpacking libxkbfile1:arm64 (1:1.1.0-1build3) ... +#7 70.53 Selecting previously unselected package libxml-xpathengine-perl. +#7 70.53 Preparing to unpack .../331-libxml-xpathengine-perl_0.14-1_all.deb ... +#7 70.62 Unpacking libxml-xpathengine-perl (0.14-1) ... +#7 71.07 Selecting previously unselected package libxml2-dev:arm64. +#7 71.07 Preparing to unpack .../332-libxml2-dev_2.9.13+dfsg-1ubuntu0.10_arm64.deb ... +#7 71.09 Unpacking libxml2-dev:arm64 (2.9.13+dfsg-1ubuntu0.10) ... +#7 71.35 Selecting previously unselected package libxv1:arm64. +#7 71.35 Preparing to unpack .../333-libxv1_2%3a1.0.11-1build2_arm64.deb ... +#7 71.51 Unpacking libxv1:arm64 (2:1.0.11-1build2) ... +#7 71.80 Selecting previously unselected package libxxf86dga1:arm64. +#7 71.80 Preparing to unpack .../334-libxxf86dga1_2%3a1.1.5-0ubuntu3_arm64.deb ... +#7 71.85 Unpacking libxxf86dga1:arm64 (2:1.1.5-0ubuntu3) ... +#7 72.36 Selecting previously unselected package libzzip-0-13:arm64. +#7 72.36 Preparing to unpack .../335-libzzip-0-13_0.13.72+dfsg.1-1.1_arm64.deb ... +#7 72.39 Unpacking libzzip-0-13:arm64 (0.13.72+dfsg.1-1.1) ... +#7 73.01 Selecting previously unselected package xfonts-encodings. +#7 73.01 Preparing to unpack .../336-xfonts-encodings_1%3a1.0.5-0ubuntu2_all.deb ... +#7 73.08 Unpacking xfonts-encodings (1:1.0.5-0ubuntu2) ... +#7 73.14 Selecting previously unselected package xfonts-utils. +#7 73.15 Preparing to unpack .../337-xfonts-utils_1%3a7.7+6build2_arm64.deb ... +#7 73.16 Unpacking xfonts-utils (1:7.7+6build2) ... +#7 73.21 Selecting previously unselected package lmodern. +#7 73.21 Preparing to unpack .../338-lmodern_2.004.5-6.1_all.deb ... +#7 73.23 Unpacking lmodern (2.004.5-6.1) ... +#7 74.88 Selecting previously unselected package manpages-dev. +#7 74.89 Preparing to unpack .../339-manpages-dev_5.10-1ubuntu1_all.deb ... +#7 74.92 Unpacking manpages-dev (5.10-1ubuntu1) ... +#7 75.55 Selecting previously unselected package pkg-config. +#7 75.56 Preparing to unpack .../340-pkg-config_0.29.2-1ubuntu3_arm64.deb ... +#7 75.58 Unpacking pkg-config (0.29.2-1ubuntu3) ... +#7 ... -#22 exporting to image -#22 exporting layers -#22 exporting layers 1.2s done -#22 writing image sha256:16ef1b3fea82b9d4fd8e3c4f79f060d98022c2a502b1c3e49ce9e5421cdc2bd4 done -#22 naming to docker.io/library/jupyterhub-student:latest done -#22 DONE 1.3s +#9 [rust-builder 4/6] RUN . /home/jovyan/.cargo/env && cargo install csvlens +#9 28.44 Compiling arrow-csv v56.2.0 +#9 29.56 Compiling arrow v56.2.0 +#9 29.74 Compiling csvlens v0.14.0 +#9 ... + +#7 [stage-1 2/11] RUN apt-get update && apt-get install -y r-base libcurl4-openssl-dev libssl-dev libxml2-dev curl texlive-xetex texlive-fonts-recommended texlive-plain-generic ruby ruby-dev vim nano && apt-get clean && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* +#7 75.82 Selecting previously unselected package preview-latex-style. +#7 75.82 Preparing to unpack .../341-preview-latex-style_12.2-1ubuntu1_all.deb ... +#7 75.86 Unpacking preview-latex-style (12.2-1ubuntu1) ... +#7 76.15 Selecting previously unselected package zip. +#7 76.15 Preparing to unpack .../342-zip_3.0-12build2_arm64.deb ... +#7 76.31 Unpacking zip (3.0-12build2) ... +#7 76.74 Selecting previously unselected package unzip. +#7 76.74 Preparing to unpack .../343-unzip_6.0-26ubuntu3.2_arm64.deb ... +#7 76.82 Unpacking unzip (6.0-26ubuntu3.2) ... +#7 77.08 Selecting previously unselected package xdg-utils. +#7 77.08 Preparing to unpack .../344-xdg-utils_1.1.3-4.1ubuntu3~22.04.1_all.deb ... +#7 77.10 Unpacking xdg-utils (1.1.3-4.1ubuntu3~22.04.1) ... +#7 77.29 Selecting previously unselected package r-base-core. +#7 77.29 Preparing to unpack .../345-r-base-core_4.1.2-1ubuntu2_arm64.deb ... +#7 77.33 Unpacking r-base-core (4.1.2-1ubuntu2) ... +#7 78.18 Selecting previously unselected package r-cran-boot. +#7 78.18 Preparing to unpack .../346-r-cran-boot_1.3-28-2_all.deb ... +#7 78.30 Unpacking r-cran-boot (1.3-28-2) ... +#7 79.23 Selecting previously unselected package r-cran-cluster. +#7 79.23 Preparing to unpack .../347-r-cran-cluster_2.1.2-2_arm64.deb ... +#7 79.27 Unpacking r-cran-cluster (2.1.2-2) ... +#7 79.70 Selecting previously unselected package r-cran-foreign. +#7 79.71 Preparing to unpack .../348-r-cran-foreign_0.8.82-1_arm64.deb ... +#7 79.78 Unpacking r-cran-foreign (0.8.82-1) ... +#7 80.34 Selecting previously unselected package r-cran-mass. +#7 80.36 Preparing to unpack .../349-r-cran-mass_7.3-55-1_arm64.deb ... +#7 80.41 Unpacking r-cran-mass (7.3-55-1) ... +#7 80.66 Selecting previously unselected package r-cran-kernsmooth. +#7 80.67 Preparing to unpack .../350-r-cran-kernsmooth_2.23-20-1_arm64.deb ... +#7 80.70 Unpacking r-cran-kernsmooth (2.23-20-1) ... +#7 81.20 Selecting previously unselected package r-cran-lattice. +#7 81.21 Preparing to unpack .../351-r-cran-lattice_0.20-45-1_arm64.deb ... +#7 81.26 Unpacking r-cran-lattice (0.20-45-1) ... +#7 81.75 Selecting previously unselected package r-cran-nlme. +#7 81.76 Preparing to unpack .../352-r-cran-nlme_3.1.155-1_arm64.deb ... +#7 81.80 Unpacking r-cran-nlme (3.1.155-1) ... +#7 82.14 Selecting previously unselected package r-cran-matrix. +#7 82.14 Preparing to unpack .../353-r-cran-matrix_1.4-0-1_arm64.deb ... +#7 82.26 Unpacking r-cran-matrix (1.4-0-1) ... +#7 82.92 Selecting previously unselected package r-cran-mgcv. +#7 82.92 Preparing to unpack .../354-r-cran-mgcv_1.8-39-1_arm64.deb ... +#7 82.94 Unpacking r-cran-mgcv (1.8-39-1) ... +#7 83.03 Selecting previously unselected package r-cran-survival. +#7 83.04 Preparing to unpack .../355-r-cran-survival_3.2-13-1_arm64.deb ... +#7 83.05 Unpacking r-cran-survival (3.2-13-1) ... +#7 83.16 Selecting previously unselected package r-cran-rpart. +#7 83.17 Preparing to unpack .../356-r-cran-rpart_4.1.16-1_arm64.deb ... +#7 83.17 Unpacking r-cran-rpart (4.1.16-1) ... +#7 83.22 Selecting previously unselected package r-cran-class. +#7 83.22 Preparing to unpack .../357-r-cran-class_7.3-20-1_arm64.deb ... +#7 83.22 Unpacking r-cran-class (7.3-20-1) ... +#7 83.26 Selecting previously unselected package r-cran-nnet. +#7 83.26 Preparing to unpack .../358-r-cran-nnet_7.3-17-1_arm64.deb ... +#7 83.29 Unpacking r-cran-nnet (7.3-17-1) ... +#7 83.32 Selecting previously unselected package r-cran-spatial. +#7 83.32 Preparing to unpack .../359-r-cran-spatial_7.3-15-1_arm64.deb ... +#7 83.33 Unpacking r-cran-spatial (7.3-15-1) ... +#7 83.36 Selecting previously unselected package r-cran-codetools. +#7 83.37 Preparing to unpack .../360-r-cran-codetools_0.2-18-1_all.deb ... +#7 83.37 Unpacking r-cran-codetools (0.2-18-1) ... +#7 83.41 Selecting previously unselected package r-recommended. +#7 83.41 Preparing to unpack .../361-r-recommended_4.1.2-1ubuntu2_all.deb ... +#7 83.41 Unpacking r-recommended (4.1.2-1ubuntu2) ... +#7 83.44 Selecting previously unselected package r-base. +#7 83.44 Preparing to unpack .../362-r-base_4.1.2-1ubuntu2_all.deb ... +#7 83.44 Unpacking r-base (4.1.2-1ubuntu2) ... +#7 83.47 Selecting previously unselected package liblzma-dev:arm64. +#7 83.47 Preparing to unpack .../363-liblzma-dev_5.2.5-2ubuntu1_arm64.deb ... +#7 83.48 Unpacking liblzma-dev:arm64 (5.2.5-2ubuntu1) ... +#7 83.51 Selecting previously unselected package r-base-dev. +#7 83.51 Preparing to unpack .../364-r-base-dev_4.1.2-1ubuntu2_all.deb ... +#7 83.51 Unpacking r-base-dev (4.1.2-1ubuntu2) ... +#7 83.54 Selecting previously unselected package r-doc-html. +#7 83.54 Preparing to unpack .../365-r-doc-html_4.1.2-1ubuntu2_all.deb ... +#7 83.55 Unpacking r-doc-html (4.1.2-1ubuntu2) ... +#7 83.58 Selecting previously unselected package ruby3.0-dev:arm64. +#7 83.59 Preparing to unpack .../366-ruby3.0-dev_3.0.2-7ubuntu2.11_arm64.deb ... +#7 83.59 Unpacking ruby3.0-dev:arm64 (3.0.2-7ubuntu2.11) ... +#7 83.63 Selecting previously unselected package ruby-dev:arm64. +#7 83.63 Preparing to unpack .../367-ruby-dev_1%3a3.0~exp1_arm64.deb ... +#7 83.64 Unpacking ruby-dev:arm64 (1:3.0~exp1) ... +#7 83.68 Selecting previously unselected package ruby3.0-doc. +#7 83.68 Preparing to unpack .../368-ruby3.0-doc_3.0.2-7ubuntu2.11_all.deb ... +#7 83.68 Unpacking ruby3.0-doc (3.0.2-7ubuntu2.11) ... +#7 85.07 Selecting previously unselected package t1utils. +#7 85.08 Preparing to unpack .../369-t1utils_1.41-4build2_arm64.deb ... +#7 85.09 Unpacking t1utils (1.41-4build2) ... +#7 85.19 Selecting previously unselected package tcl8.6. +#7 85.20 Preparing to unpack .../370-tcl8.6_8.6.12+dfsg-1build1_arm64.deb ... +#7 85.20 Unpacking tcl8.6 (8.6.12+dfsg-1build1) ... +#7 85.26 Selecting previously unselected package tcl. +#7 85.27 Preparing to unpack .../371-tcl_8.6.11+1build2_arm64.deb ... +#7 85.27 Unpacking tcl (8.6.11+1build2) ... +#7 85.31 Selecting previously unselected package teckit. +#7 85.31 Preparing to unpack .../372-teckit_2.5.11+ds1-1_arm64.deb ... +#7 85.32 Unpacking teckit (2.5.11+ds1-1) ... +#7 85.43 Selecting previously unselected package tex-gyre. +#7 85.44 Preparing to unpack .../373-tex-gyre_20180621-3.1_all.deb ... +#7 85.46 Unpacking tex-gyre (20180621-3.1) ... +#7 86.20 Selecting previously unselected package texlive-binaries. +#7 86.20 Preparing to unpack .../374-texlive-binaries_2021.20210626.59705-1ubuntu0.2_arm64.deb ... +#7 86.21 Unpacking texlive-binaries (2021.20210626.59705-1ubuntu0.2) ... +#7 86.57 Selecting previously unselected package texlive-base. +#7 86.58 Preparing to unpack .../375-texlive-base_2021.20220204-1_all.deb ... +#7 86.60 Unpacking texlive-base (2021.20220204-1) ... +#7 89.40 Selecting previously unselected package texlive-fonts-recommended. +#7 89.41 Preparing to unpack .../376-texlive-fonts-recommended_2021.20220204-1_all.deb ... +#7 89.45 Unpacking texlive-fonts-recommended (2021.20220204-1) ... +#7 90.39 Selecting previously unselected package texlive-latex-base. +#7 90.39 Preparing to unpack .../377-texlive-latex-base_2021.20220204-1_all.deb ... +#7 90.40 Unpacking texlive-latex-base (2021.20220204-1) ... +#7 90.72 Selecting previously unselected package libfontbox-java. +#7 90.73 Preparing to unpack .../378-libfontbox-java_1%3a1.8.16-2_all.deb ... +#7 90.73 Unpacking libfontbox-java (1:1.8.16-2) ... +#7 90.78 Selecting previously unselected package libpdfbox-java. +#7 90.79 Preparing to unpack .../379-libpdfbox-java_1%3a1.8.16-2_all.deb ... +#7 90.79 Unpacking libpdfbox-java (1:1.8.16-2) ... +#7 91.10 Selecting previously unselected package texlive-latex-recommended. +#7 91.10 Preparing to unpack .../380-texlive-latex-recommended_2021.20220204-1_all.deb ... +#7 91.11 Unpacking texlive-latex-recommended (2021.20220204-1) ... +#7 91.97 Selecting previously unselected package texlive-pictures. +#7 91.97 Preparing to unpack .../381-texlive-pictures_2021.20220204-1_all.deb ... +#7 91.98 Unpacking texlive-pictures (2021.20220204-1) ... +#7 92.86 Selecting previously unselected package texlive-latex-extra. +#7 92.86 Preparing to unpack .../382-texlive-latex-extra_2021.20220204-1_all.deb ... +#7 92.87 Unpacking texlive-latex-extra (2021.20220204-1) ... +#7 93.97 Selecting previously unselected package texlive-plain-generic. +#7 93.97 Preparing to unpack .../383-texlive-plain-generic_2021.20220204-1_all.deb ... +#7 93.98 Unpacking texlive-plain-generic (2021.20220204-1) ... +#7 95.59 Selecting previously unselected package tipa. +#7 95.59 Preparing to unpack .../384-tipa_2%3a1.3-21_all.deb ... +#7 95.60 Unpacking tipa (2:1.3-21) ... +#7 95.82 Selecting previously unselected package texlive-xetex. +#7 95.83 Preparing to unpack .../385-texlive-xetex_2021.20220204-1_all.deb ... +#7 95.84 Unpacking texlive-xetex (2021.20220204-1) ... +#7 96.37 Selecting previously unselected package tilix-common. +#7 96.37 Preparing to unpack .../386-tilix-common_1.9.4-2build1_all.deb ... +#7 96.38 Unpacking tilix-common (1.9.4-2build1) ... +#7 96.46 Selecting previously unselected package tilix. +#7 96.46 Preparing to unpack .../387-tilix_1.9.4-2build1_arm64.deb ... +#7 96.47 Unpacking tilix (1.9.4-2build1) ... +#7 96.50 Selecting previously unselected package tk8.6. +#7 96.51 Preparing to unpack .../388-tk8.6_8.6.12-1build1_arm64.deb ... +#7 96.51 Unpacking tk8.6 (8.6.12-1build1) ... +#7 96.53 Selecting previously unselected package tk. +#7 96.54 Preparing to unpack .../389-tk_8.6.11+1build2_arm64.deb ... +#7 96.55 Unpacking tk (8.6.11+1build2) ... +#7 96.57 Selecting previously unselected package vim-runtime. +#7 96.58 Preparing to unpack .../390-vim-runtime_2%3a8.2.3995-1ubuntu2.24_all.deb ... +#7 96.59 Adding 'diversion of /usr/share/vim/vim82/doc/help.txt to /usr/share/vim/vim82/doc/help.txt.vim-tiny by vim-runtime' +#7 96.60 Adding 'diversion of /usr/share/vim/vim82/doc/tags to /usr/share/vim/vim82/doc/tags.vim-tiny by vim-runtime' +#7 96.60 Unpacking vim-runtime (2:8.2.3995-1ubuntu2.24) ... +#7 96.85 Selecting previously unselected package vim. +#7 96.86 Preparing to unpack .../391-vim_2%3a8.2.3995-1ubuntu2.24_arm64.deb ... +#7 96.86 Unpacking vim (2:8.2.3995-1ubuntu2.24) ... +#7 96.90 Selecting previously unselected package libglvnd0:arm64. +#7 96.91 Preparing to unpack .../392-libglvnd0_1.4.0-1_arm64.deb ... +#7 96.92 Unpacking libglvnd0:arm64 (1.4.0-1) ... +#7 96.95 Selecting previously unselected package libglx0:arm64. +#7 96.96 Preparing to unpack .../393-libglx0_1.4.0-1_arm64.deb ... +#7 96.96 Unpacking libglx0:arm64 (1.4.0-1) ... +#7 96.98 Selecting previously unselected package libgl1:arm64. +#7 96.99 Preparing to unpack .../394-libgl1_1.4.0-1_arm64.deb ... +#7 96.99 Unpacking libgl1:arm64 (1.4.0-1) ... +#7 97.02 Selecting previously unselected package x11-utils. +#7 97.02 Preparing to unpack .../395-x11-utils_7.7+5build2_arm64.deb ... +#7 97.03 Unpacking x11-utils (7.7+5build2) ... +#7 97.09 Selecting previously unselected package x11-xserver-utils. +#7 97.10 Preparing to unpack .../396-x11-xserver-utils_7.7+9build1_arm64.deb ... +#7 97.11 Unpacking x11-xserver-utils (7.7+9build1) ... +#7 97.17 Selecting previously unselected package libauthen-sasl-perl. +#7 97.17 Preparing to unpack .../397-libauthen-sasl-perl_2.1600-1.1_all.deb ... +#7 97.17 Unpacking libauthen-sasl-perl (2.1600-1.1) ... +#7 97.20 Selecting previously unselected package r-base-html. +#7 97.21 Preparing to unpack .../398-r-base-html_4.1.2-1ubuntu2_all.deb ... +#7 97.21 Unpacking r-base-html (4.1.2-1ubuntu2) ... +#7 97.25 Setting up libksba8:arm64 (1.6.0-2ubuntu0.2) ... +#7 97.29 Setting up media-types (7.0.0) ... +#7 97.30 Setting up libpcrecpp0v5:arm64 (2:8.39-13ubuntu0.22.04.1) ... +#7 97.31 Setting up libtext-iconv-perl (1.7-7build3) ... +#7 97.31 Setting up javascript-common (11+nmu1) ... +#7 97.37 Setting up libgraphite2-3:arm64 (1.3.14-1build2) ... +#7 97.38 Setting up liblcms2-2:arm64 (2.12~rc1-2build2) ... +#7 97.39 Setting up libpixman-1-0:arm64 (0.40.0-1ubuntu0.22.04.1) ... +#7 97.39 Setting up bzip2-doc (1.0.8-5build1) ... +#7 97.40 Setting up gcc-11-base:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#7 97.40 Setting up systemd-sysv (249.11-0ubuntu3.17) ... +#7 97.41 Setting up libxau6:arm64 (1:1.0.9-1build5) ... +#7 97.42 Setting up lto-disabled-list (24) ... +#7 97.42 Setting up fonts-lato (2.0-2.1) ... +#7 97.43 Setting up libsodium23:arm64 (1.0.18-1build2) ... +#7 97.44 Setting up libgpm2:arm64 (1.20.7-10build1) ... +#7 97.44 Setting up fonts-noto-mono (20201225-1build1) ... +#7 97.45 Setting up r-doc-html (4.1.2-1ubuntu2) ... +#7 97.46 Setting up libpcre16-3:arm64 (2:8.39-13ubuntu0.22.04.1) ... +#7 97.47 Setting up hicolor-icon-theme (0.17-2) ... +#7 97.48 Setting up tilix-common (1.9.4-2build1) ... +#7 97.49 Setting up libvte-2.91-common (0.68.0-1ubuntu0.1) ... +#7 97.50 Setting up libdatrie1:arm64 (0.2.13-2) ... +#7 97.51 Setting up xdg-user-dirs (0.17-2ubuntu4) ... +#7 97.52 Setting up libtexlua53:arm64 (2021.20210626.59705-1ubuntu0.2) ... +#7 97.53 Setting up libyaml-0-2:arm64 (0.2.2-1build2) ... +#7 97.54 Setting up libglib2.0-0:arm64 (2.72.4-0ubuntu2.6) ... +#7 97.58 Setting up manpages (5.10-1ubuntu1) ... +#7 97.61 Setting up libglvnd0:arm64 (1.4.0-1) ... +#7 97.61 Setting up libijs-0.35:arm64 (0.35-15build2) ... +#7 97.62 Setting up unzip (6.0-26ubuntu3.2) ... +#7 97.63 Setting up libbrotli1:arm64 (1.0.9-2build6) ... +#7 97.69 Setting up libfontbox-java (1:1.8.16-2) ... +#7 97.70 Setting up libsqlite3-0:arm64 (3.37.2-2ubuntu0.5) ... +#7 97.71 Setting up libsasl2-modules:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... +#7 97.75 Setting up libgdk-pixbuf2.0-common (2.42.8+dfsg-1ubuntu0.4) ... +#7 ... + +#9 [rust-builder 4/6] RUN . /home/jovyan/.cargo/env && cargo install csvlens +#9 50.36 Finished `release` profile [optimized] target(s) in 50.01s +#9 50.39 Installing /home/jovyan/.cargo/bin/csvlens +#9 50.39 Installed package `csvlens v0.14.0` (executable `csvlens`) +#9 DONE 52.5s + +#7 [stage-1 2/11] RUN apt-get update && apt-get install -y r-base libcurl4-openssl-dev libssl-dev libxml2-dev curl texlive-xetex texlive-fonts-recommended texlive-plain-generic ruby ruby-dev vim nano && apt-get clean && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* +#7 97.77 Setting up binutils-common:arm64 (2.38-4ubuntu2.10) ... +#7 97.84 Setting up x11-common (1:7.7+23ubuntu2) ... +#7 97.99 invoke-rc.d: could not determine current runlevel +#7 97.99 invoke-rc.d: policy-rc.d denied execution of start. +#7 98.04 Setting up libsensors-config (1:3.6.0-7ubuntu1) ... +#7 98.07 Setting up libnghttp2-14:arm64 (1.43.0-1ubuntu0.2) ... +#7 98.09 Setting up libdeflate0:arm64 (1.10-2) ... +#7 98.11 Setting up perl-openssl-defaults:arm64 (5build2) ... +#7 98.12 Setting up linux-libc-dev:arm64 (5.15.0-161.171) ... +#7 98.14 Setting up libctf-nobfd0:arm64 (2.38-4ubuntu2.10) ... +#7 98.16 Setting up libnss-systemd:arm64 (249.11-0ubuntu3.17) ... +#7 98.17 First installation detected... +#7 98.17 Checking NSS setup... +#7 98.18 Setting up xkb-data (2.33-1) ... +#7 98.19 Setting up libnpth0:arm64 (1.6-3build2) ... +#7 98.21 Setting up rubygems-integration (1.18) ... +#7 98.22 Setting up libzzip-0-13:arm64 (0.13.72+dfsg.1-1.1) ... +#7 98.24 Setting up fonts-urw-base35 (20200910-1) ... +#7 98.28 Setting up libassuan0:arm64 (2.5.5-1build1) ... +#7 98.30 Setting up libgomp1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 98.32 Setting up perl-modules-5.34 (5.34.0-3ubuntu1.5) ... +#7 98.35 Setting up libldap-common (2.5.19+dfsg-0ubuntu0.22.04.1) ... +#7 98.38 Setting up libjbig0:arm64 (2.1-3.1ubuntu0.22.04.1) ... +#7 98.40 Setting up libpcre2-16-0:arm64 (10.39-3ubuntu0.1) ... +#7 98.43 Setting up libcolord2:arm64 (1.4.6-1) ... +#7 98.45 Setting up xxd (2:8.2.3995-1ubuntu2.24) ... +#7 98.47 Setting up libfakeroot:arm64 (1.28-1ubuntu1) ... +#7 98.51 Setting up libasan6:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#7 98.54 Setting up poppler-data (0.4.11-1) ... +#7 98.61 Setting up libsasl2-modules-db:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... +#7 98.63 Setting up tzdata (2025b-0ubuntu0.22.04.1) ... +#7 98.69 +#7 98.69 Current default time zone: 'Etc/UTC' +#7 98.69 Local time is now: Wed Nov 5 18:26:32 UTC 2025. +#7 98.69 Universal Time is now: Wed Nov 5 18:26:32 UTC 2025. +#7 98.69 Run 'dpkg-reconfigure tzdata' if you wish to change it. +#7 98.69 +#7 98.83 Setting up fakeroot (1.28-1ubuntu1) ... +#7 99.28 update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode +#7 99.28 update-alternatives: warning: skip creation of /usr/share/man/man1/fakeroot.1.gz because associated file /usr/share/man/man1/fakeroot-sysv.1.gz (of link group fakeroot) doesn't exist +#7 99.28 update-alternatives: warning: skip creation of /usr/share/man/man1/faked.1.gz because associated file /usr/share/man/man1/faked-sysv.1.gz (of link group fakeroot) doesn't exist +#7 99.28 update-alternatives: warning: skip creation of /usr/share/man/es/man1/fakeroot.1.gz because associated file /usr/share/man/es/man1/fakeroot-sysv.1.gz (of link group fakeroot) doesn't exist +#7 99.28 update-alternatives: warning: skip creation of /usr/share/man/es/man1/faked.1.gz because associated file /usr/share/man/es/man1/faked-sysv.1.gz (of link group fakeroot) doesn't exist +#7 99.28 update-alternatives: warning: skip creation of /usr/share/man/fr/man1/fakeroot.1.gz because associated file /usr/share/man/fr/man1/fakeroot-sysv.1.gz (of link group fakeroot) doesn't exist +#7 99.28 update-alternatives: warning: skip creation of /usr/share/man/fr/man1/faked.1.gz because associated file /usr/share/man/fr/man1/faked-sysv.1.gz (of link group fakeroot) doesn't exist +#7 99.28 update-alternatives: warning: skip creation of /usr/share/man/sv/man1/fakeroot.1.gz because associated file /usr/share/man/sv/man1/fakeroot-sysv.1.gz (of link group fakeroot) doesn't exist +#7 99.28 update-alternatives: warning: skip creation of /usr/share/man/sv/man1/faked.1.gz because associated file /usr/share/man/sv/man1/faked-sysv.1.gz (of link group fakeroot) doesn't exist +#7 99.29 Setting up libdconf1:arm64 (0.40.0-3ubuntu0.1) ... +#7 99.30 Setting up zip (3.0-12build2) ... +#7 99.31 Setting up libfontenc1:arm64 (1:1.1.4-1build3) ... +#7 99.32 Setting up libpcre2-32-0:arm64 (10.39-3ubuntu0.1) ... +#7 99.33 Setting up libblas3:arm64 (3.10.0-2ubuntu1) ... +#7 99.34 update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode +#7 99.34 Setting up libglib2.0-data (2.72.4-0ubuntu2.6) ... +#7 99.35 Setting up libtirpc-dev:arm64 (1.3.2-2ubuntu0.1) ... +#7 99.37 Setting up libgmpxx4ldbl:arm64 (2:6.2.1+dfsg-3ubuntu1) ... +#7 99.38 Setting up rpcsvc-proto (1.4.2-0ubuntu6) ... +#7 99.42 Setting up vim-common (2:8.2.3995-1ubuntu2.24) ... +#7 99.43 Setting up libx11-data (2:1.7.5-1ubuntu0.3) ... +#7 99.47 Setting up make (4.3-4.1build1) ... +#7 99.47 Setting up libepoxy0:arm64 (1.5.10-1) ... +#7 99.48 Setting up libmpfr6:arm64 (4.1.0-3build3) ... +#7 99.48 Setting up gnupg-l10n (2.2.27-3ubuntu2.4) ... +#7 99.50 Setting up libjbig2dec0:arm64 (0.19-3build2) ... +#7 99.51 Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2build4) ... +#7 99.52 Setting up libteckit0:arm64 (2.5.11+ds1-1) ... +#7 99.52 Setting up libapache-pom-java (18-1) ... +#7 99.53 Setting up libavahi-common-data:arm64 (0.8-5ubuntu5.2) ... +#7 99.54 Setting up libdbus-1-3:arm64 (1.12.20-2ubuntu4.1) ... +#7 99.55 Setting up ruby-net-telnet (0.1.1-2) ... +#7 99.56 Setting up dbus (1.12.20-2ubuntu4.1) ... +#7 99.84 Setting up xz-utils (5.2.5-2ubuntu1) ... +#7 99.85 update-alternatives: using /usr/bin/xz to provide /usr/bin/lzma (lzma) in auto mode +#7 99.85 update-alternatives: warning: skip creation of /usr/share/man/man1/lzma.1.gz because associated file /usr/share/man/man1/xz.1.gz (of link group lzma) doesn't exist +#7 99.85 update-alternatives: warning: skip creation of /usr/share/man/man1/unlzma.1.gz because associated file /usr/share/man/man1/unxz.1.gz (of link group lzma) doesn't exist +#7 99.85 update-alternatives: warning: skip creation of /usr/share/man/man1/lzcat.1.gz because associated file /usr/share/man/man1/xzcat.1.gz (of link group lzma) doesn't exist +#7 99.85 update-alternatives: warning: skip creation of /usr/share/man/man1/lzmore.1.gz because associated file /usr/share/man/man1/xzmore.1.gz (of link group lzma) doesn't exist +#7 99.85 update-alternatives: warning: skip creation of /usr/share/man/man1/lzless.1.gz because associated file /usr/share/man/man1/xzless.1.gz (of link group lzma) doesn't exist +#7 99.85 update-alternatives: warning: skip creation of /usr/share/man/man1/lzdiff.1.gz because associated file /usr/share/man/man1/xzdiff.1.gz (of link group lzma) doesn't exist +#7 99.85 update-alternatives: warning: skip creation of /usr/share/man/man1/lzcmp.1.gz because associated file /usr/share/man/man1/xzcmp.1.gz (of link group lzma) doesn't exist +#7 99.85 update-alternatives: warning: skip creation of /usr/share/man/man1/lzgrep.1.gz because associated file /usr/share/man/man1/xzgrep.1.gz (of link group lzma) doesn't exist +#7 99.85 update-alternatives: warning: skip creation of /usr/share/man/man1/lzegrep.1.gz because associated file /usr/share/man/man1/xzegrep.1.gz (of link group lzma) doesn't exist +#7 99.85 update-alternatives: warning: skip creation of /usr/share/man/man1/lzfgrep.1.gz because associated file /usr/share/man/man1/xzfgrep.1.gz (of link group lzma) doesn't exist +#7 99.85 Setting up xfonts-encodings (1:1.0.5-0ubuntu2) ... +#7 99.86 Setting up libfribidi0:arm64 (1.0.8-2ubuntu3.1) ... +#7 99.86 Setting up t1utils (1.41-4build2) ... +#7 99.87 Setting up libssl-dev:arm64 (3.0.2-0ubuntu1.20) ... +#7 99.88 Setting up libpng16-16:arm64 (1.6.37-3build5) ... +#7 99.89 Setting up libpcre32-3:arm64 (2:8.39-13ubuntu0.22.04.1) ... +#7 99.91 Setting up libmpc3:arm64 (1.2.1-2build1) ... +#7 99.93 Setting up systemd-timesyncd (249.11-0ubuntu3.17) ... +#7 100.1 Created symlink /etc/systemd/system/dbus-org.freedesktop.timesync1.service → /lib/systemd/system/systemd-timesyncd.service. +#7 100.1 Created symlink /etc/systemd/system/sysinit.target.wants/systemd-timesyncd.service → /lib/systemd/system/systemd-timesyncd.service. +#7 100.1 Setting up libatomic1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 100.1 Setting up libidn12:arm64 (1.38-4ubuntu1) ... +#7 100.1 Setting up patch (2.7.6-7build2) ... +#7 100.1 Setting up libtcl8.6:arm64 (8.6.12+dfsg-1build1) ... +#7 100.1 Setting up ucf (3.0043) ... +#7 100.1 Setting up fonts-texgyre (20180621-3.1) ... +#7 100.2 Setting up libsensors5:arm64 (1:3.6.0-7ubuntu1) ... +#7 100.2 Setting up libjpeg-turbo8:arm64 (2.1.2-0ubuntu1) ... +#7 100.2 Setting up libglapi-mesa:arm64 (23.2.1-1ubuntu3.1~22.04.3) ... +#7 100.2 Setting up libkpathsea6:arm64 (2021.20210626.59705-1ubuntu0.2) ... +#7 100.2 Setting up libsasl2-2:arm64 (2.1.27+dfsg2-3ubuntu1.2) ... +#7 100.5 Setting up libssh-4:arm64 (0.9.6-2ubuntu0.22.04.5) ... +#7 100.5 Setting up libgfortran5:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 100.5 Setting up libwebp7:arm64 (1.2.2-2ubuntu0.22.04.2) ... +#7 100.5 Setting up ruby-webrick (1.7.0-3ubuntu0.2) ... +#7 100.6 Setting up liblzma-dev:arm64 (5.2.5-2ubuntu1) ... +#7 100.6 Setting up libubsan1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 100.6 Setting up libatk1.0-data (2.36.0-3build1) ... +#7 100.6 Setting up nano (6.2-1ubuntu0.1) ... +#7 100.6 update-alternatives: using /bin/nano to provide /usr/bin/editor (editor) in auto mode +#7 100.6 update-alternatives: warning: skip creation of /usr/share/man/man1/editor.1.gz because associated file /usr/share/man/man1/nano.1.gz (of link group editor) doesn't exist +#7 100.6 update-alternatives: using /bin/nano to provide /usr/bin/pico (pico) in auto mode +#7 100.6 update-alternatives: warning: skip creation of /usr/share/man/man1/pico.1.gz because associated file /usr/share/man/man1/nano.1.gz (of link group pico) doesn't exist +#7 100.6 Setting up libpcre2-posix3:arm64 (10.39-3ubuntu0.1) ... +#7 100.6 Setting up libmd0:arm64 (1.0.4-1build1) ... +#7 100.7 Setting up dmsetup (2:1.02.175-2.1ubuntu5) ... +#7 100.8 Setting up libnsl-dev:arm64 (1.3.0-2build2) ... +#7 100.8 Setting up libxshmfence1:arm64 (1.3-1build4) ... +#7 100.9 Setting up libhwasan0:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 100.9 Setting up libcrypt-dev:arm64 (1:4.4.27-1) ... +#7 101.0 Setting up libmpdec3:arm64 (2.5.1-2build2) ... +#7 101.0 Setting up libpam-systemd:arm64 (249.11-0ubuntu3.17) ... +#7 101.1 Setting up fonts-lmodern (2.004.5-6.1) ... +#7 101.1 Setting up libopenjp2-7:arm64 (2.4.0-6ubuntu0.4) ... +#7 101.1 Setting up libthai-data (0.1.29-1build1) ... +#7 101.2 Setting up libgirepository-1.0-1:arm64 (1.72.0-1) ... +#7 101.2 Setting up netbase (6.3) ... +#7 101.3 Setting up libatk1.0-0:arm64 (2.36.0-3build1) ... +#7 101.4 Setting up ruby3.0-doc (3.0.2-7ubuntu2.11) ... +#7 101.4 Setting up fonts-droid-fallback (1:6.0.1r16-1.1build1) ... +#7 101.5 Setting up libwayland-egl1:arm64 (1.20.0-1ubuntu0.1) ... +#7 101.5 Setting up libjs-jquery (3.6.0+dfsg+~3.5.13-1) ... +#7 101.5 Setting up libbinutils:arm64 (2.38-4ubuntu2.10) ... +#7 101.6 Setting up vim-runtime (2:8.2.3995-1ubuntu2.24) ... +#7 101.6 Setting up libisl23:arm64 (0.24-2build1) ... +#7 101.7 Setting up libc-dev-bin (2.35-0ubuntu3.11) ... +#7 101.7 Setting up libbsd0:arm64 (0.11.5-1) ... +#7 101.7 Setting up libdrm-common (2.4.113-2~ubuntu0.22.04.1) ... +#7 101.7 Setting up libelf1:arm64 (0.186-1ubuntu0.1) ... +#7 101.7 Setting up readline-common (8.1.2-1) ... +#7 101.7 Setting up ruby-xmlrpc (0.3.2-1ubuntu0.1) ... +#7 101.7 Setting up xdg-utils (1.1.3-4.1ubuntu3~22.04.1) ... +#7 101.7 update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode +#7 101.7 update-alternatives: warning: skip creation of /usr/share/man/man1/open.1.gz because associated file /usr/share/man/man1/xdg-open.1.gz (of link group open) doesn't exist +#7 101.7 Setting up libcc1-0:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 101.7 Setting up liblocale-gettext-perl (1.07-4build3) ... +#7 101.8 Setting up liblsan0:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 101.8 Setting up libblas-dev:arm64 (3.10.0-2ubuntu1) ... +#7 101.8 update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so to provide /usr/lib/aarch64-linux-gnu/libblas.so (libblas.so-aarch64-linux-gnu) in auto mode +#7 101.8 Setting up libitm1:arm64 (12.3.0-1ubuntu1~22.04.2) ... +#7 101.8 Setting up libsynctex2:arm64 (2021.20210626.59705-1ubuntu0.2) ... +#7 101.8 Setting up libgdbm6:arm64 (1.23-1) ... +#7 101.9 Setting up libicu70:arm64 (70.1-2) ... +#7 101.9 Setting up libtsan0:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#7 101.9 Setting up libxkbcommon0:arm64 (1.4.0-1) ... +#7 101.9 Setting up libwayland-client0:arm64 (1.20.0-1ubuntu0.1) ... +#7 101.9 Setting up libctf0:arm64 (2.38-4ubuntu2.10) ... +#7 101.9 Setting up libjpeg8:arm64 (8c-2ubuntu10) ... +#7 102.0 Setting up pinentry-curses (1.1.1-1build2) ... +#7 102.0 Setting up libgs9-common (9.55.0~dfsg1-0ubuntu5.13) ... +#7 102.0 Setting up teckit (2.5.11+ds1-1) ... +#7 102.0 Setting up cpp-11 (11.4.0-1ubuntu1~22.04.2) ... +#7 102.0 Setting up libpaper1:arm64 (1.1.28build2) ... +#7 102.1 +#7 102.1 Creating config file /etc/papersize with new version +#7 102.1 Setting up manpages-dev (5.10-1ubuntu1) ... +#7 102.1 Setting up libice6:arm64 (2:1.0.10-1build2) ... +#7 102.2 Setting up session-migration (0.3.6) ... +#7 102.2 Created symlink /etc/systemd/user/graphical-session-pre.target.wants/session-migration.service → /usr/lib/systemd/user/session-migration.service. +#7 102.2 Setting up libxdmcp6:arm64 (1:1.1.3-0ubuntu5) ... +#7 102.2 Setting up tcl8.6 (8.6.12+dfsg-1build1) ... +#7 102.2 Setting up liblapack3:arm64 (3.10.0-2ubuntu1) ... +#7 102.2 update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode +#7 102.2 Setting up libxcb1:arm64 (1.14-3ubuntu3) ... +#7 102.2 Setting up libgmp-dev:arm64 (2:6.2.1+dfsg-3ubuntu1) ... +#7 102.2 Setting up libxcb-xfixes0:arm64 (1.14-3ubuntu3) ... +#7 102.3 Setting up libpdfbox-java (1:1.8.16-2) ... +#7 102.3 Setting up libwoff1:arm64 (1.0.2-1build4) ... +#7 102.3 Setting up libpng-tools (1.6.37-3build5) ... +#7 102.3 Setting up libxcb-render0:arm64 (1.14-3ubuntu3) ... +#7 102.3 Setting up fontconfig-config (2.13.1-4.2ubuntu5) ... +#7 102.4 Setting up libxcb-glx0:arm64 (1.14-3ubuntu3) ... +#7 102.4 Setting up libedit2:arm64 (3.1-20210910-1build1) ... +#7 102.4 Setting up libreadline8:arm64 (8.1.2-1) ... +#7 102.4 Setting up libcommons-parent-java (43-1) ... +#7 102.4 Setting up libxcb-shape0:arm64 (1.14-3ubuntu3) ... +#7 102.5 Setting up libavahi-common3:arm64 (0.8-5ubuntu5.2) ... +#7 102.5 Setting up libcommons-logging-java (1.2-2) ... +#7 102.5 Setting up binutils-aarch64-linux-gnu (2.38-4ubuntu2.10) ... +#7 102.5 Setting up libxcb-shm0:arm64 (1.14-3ubuntu3) ... +#7 102.5 Setting up binutils (2.38-4ubuntu2.10) ... +#7 102.5 Setting up libpaper-utils (1.1.28build2) ... +#7 102.6 Setting up libldap-2.5-0:arm64 (2.5.19+dfsg-0ubuntu0.22.04.1) ... +#7 102.6 Setting up libxcb-present0:arm64 (1.14-3ubuntu3) ... +#7 102.6 Setting up libpython3.10-stdlib:arm64 (3.10.12-1~22.04.11) ... +#7 102.6 Setting up tex-common (6.17) ... +#7 102.7 update-language: texlive-base not installed and configured, doing nothing! +#7 102.8 Setting up libthai0:arm64 (0.1.29-1build1) ... +#7 102.8 Setting up dbus-user-session (1.12.20-2ubuntu4.1) ... +#7 102.8 Setting up libptexenc1:arm64 (2021.20210626.59705-1ubuntu0.2) ... +#7 102.8 Setting up libfreetype6:arm64 (2.11.1+dfsg-1ubuntu0.3) ... +#7 102.8 Setting up libxcb-sync1:arm64 (1.14-3ubuntu3) ... +#7 102.8 Setting up liblapack-dev:arm64 (3.10.0-2ubuntu1) ... +#7 102.8 update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so to provide /usr/lib/aarch64-linux-gnu/liblapack.so (liblapack.so-aarch64-linux-gnu) in auto mode +#7 102.8 Setting up icu-devtools (70.1-2) ... +#7 102.8 Setting up libgdbm-compat4:arm64 (1.23-1) ... +#7 102.8 Setting up gir1.2-glib-2.0:arm64 (1.72.0-1) ... +#7 102.8 Setting up libxcb-dri2-0:arm64 (1.14-3ubuntu3) ... +#7 102.9 Setting up libgcc-11-dev:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#7 102.9 Setting up libdrm2:arm64 (2.4.113-2~ubuntu0.22.04.1) ... +#7 102.9 Setting up gcc-11 (11.4.0-1ubuntu1~22.04.2) ... +#7 102.9 Setting up libwayland-cursor0:arm64 (1.20.0-1ubuntu0.1) ... +#7 102.9 Setting up libxcb-randr0:arm64 (1.14-3ubuntu3) ... +#7 102.9 Setting up cpp (4:11.2.0-1ubuntu1) ... +#7 102.9 Setting up tcl (8.6.11+1build2) ... +#7 102.9 Setting up gpgconf (2.2.27-3ubuntu2.4) ... +#7 102.9 Setting up libcurl4:arm64 (7.81.0-1ubuntu1.21) ... +#7 102.9 Setting up libc6-dev:arm64 (2.35-0ubuntu3.11) ... +#7 103.0 Setting up libx11-6:arm64 (2:1.7.5-1ubuntu0.3) ... +#7 103.0 Setting up libharfbuzz0b:arm64 (2.7.4-1ubuntu3.2) ... +#7 103.0 Setting up libtiff5:arm64 (4.3.0-6ubuntu0.12) ... +#7 103.0 Setting up curl (7.81.0-1ubuntu1.21) ... +#7 103.0 Setting up libfontconfig1:arm64 (2.13.1-4.2ubuntu5) ... +#7 103.1 Setting up libxkbfile1:arm64 (1:1.1.0-1build3) ... +#7 103.1 Setting up libxcomposite1:arm64 (1:0.4.5-1build2) ... +#7 103.1 Setting up libsm6:arm64 (2:1.2.3-1build2) ... +#7 103.1 Setting up libicu-dev:arm64 (70.1-2) ... +#7 103.1 Setting up libxml2:arm64 (2.9.13+dfsg-1ubuntu0.10) ... +#7 103.2 Setting up libavahi-client3:arm64 (0.8-5ubuntu5.2) ... +#7 103.2 Setting up libxmuu1:arm64 (2:1.1.3-3) ... +#7 103.2 Setting up gpg (2.2.27-3ubuntu2.4) ... +#7 103.2 Setting up libpython3-stdlib:arm64 (3.10.6-1~22.04.1) ... +#7 103.2 Setting up gnupg-utils (2.2.27-3ubuntu2.4) ... +#7 103.2 Setting up libdrm-amdgpu1:arm64 (2.4.113-2~ubuntu0.22.04.1) ... +#7 103.2 Setting up libbz2-dev:arm64 (1.0.8-5build1) ... +#7 103.3 Setting up libxcb-dri3-0:arm64 (1.14-3ubuntu3) ... +#7 103.3 Setting up libx11-xcb1:arm64 (2:1.7.5-1ubuntu0.3) ... +#7 103.3 Setting up libpython3.10:arm64 (3.10.12-1~22.04.11) ... +#7 103.3 Setting up fontconfig (2.13.1-4.2ubuntu5) ... +#7 103.3 Regenerating fonts cache... done. +#7 105.8 Setting up libjpeg-turbo8-dev:arm64 (2.1.2-0ubuntu1) ... +#7 105.8 Setting up libperl5.34:arm64 (5.34.0-3ubuntu1.5) ... +#7 105.8 Setting up libncurses-dev:arm64 (6.3-2ubuntu0.1) ... +#7 105.8 Setting up libdrm-nouveau2:arm64 (2.4.113-2~ubuntu0.22.04.1) ... +#7 105.8 Setting up vim (2:8.2.3995-1ubuntu2.24) ... +#7 105.8 update-alternatives: using /usr/bin/vim.basic to provide /usr/bin/vim (vim) in auto mode +#7 105.8 update-alternatives: using /usr/bin/vim.basic to provide /usr/bin/vimdiff (vimdiff) in auto mode +#7 105.8 update-alternatives: using /usr/bin/vim.basic to provide /usr/bin/rvim (rvim) in auto mode +#7 105.8 update-alternatives: using /usr/bin/vim.basic to provide /usr/bin/rview (rview) in auto mode +#7 105.8 update-alternatives: using /usr/bin/vim.basic to provide /usr/bin/vi (vi) in auto mode +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/da/man1/vi.1.gz because associated file /usr/share/man/da/man1/vim.1.gz (of link group vi) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/de/man1/vi.1.gz because associated file /usr/share/man/de/man1/vim.1.gz (of link group vi) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/fr/man1/vi.1.gz because associated file /usr/share/man/fr/man1/vim.1.gz (of link group vi) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/it/man1/vi.1.gz because associated file /usr/share/man/it/man1/vim.1.gz (of link group vi) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/ja/man1/vi.1.gz because associated file /usr/share/man/ja/man1/vim.1.gz (of link group vi) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/pl/man1/vi.1.gz because associated file /usr/share/man/pl/man1/vim.1.gz (of link group vi) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/ru/man1/vi.1.gz because associated file /usr/share/man/ru/man1/vim.1.gz (of link group vi) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/man1/vi.1.gz because associated file /usr/share/man/man1/vim.1.gz (of link group vi) doesn't exist +#7 105.8 update-alternatives: using /usr/bin/vim.basic to provide /usr/bin/view (view) in auto mode +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/da/man1/view.1.gz because associated file /usr/share/man/da/man1/vim.1.gz (of link group view) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/de/man1/view.1.gz because associated file /usr/share/man/de/man1/vim.1.gz (of link group view) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/fr/man1/view.1.gz because associated file /usr/share/man/fr/man1/vim.1.gz (of link group view) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/it/man1/view.1.gz because associated file /usr/share/man/it/man1/vim.1.gz (of link group view) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/ja/man1/view.1.gz because associated file /usr/share/man/ja/man1/vim.1.gz (of link group view) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/pl/man1/view.1.gz because associated file /usr/share/man/pl/man1/vim.1.gz (of link group view) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/ru/man1/view.1.gz because associated file /usr/share/man/ru/man1/vim.1.gz (of link group view) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/man1/view.1.gz because associated file /usr/share/man/man1/vim.1.gz (of link group view) doesn't exist +#7 105.8 update-alternatives: using /usr/bin/vim.basic to provide /usr/bin/ex (ex) in auto mode +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/da/man1/ex.1.gz because associated file /usr/share/man/da/man1/vim.1.gz (of link group ex) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/de/man1/ex.1.gz because associated file /usr/share/man/de/man1/vim.1.gz (of link group ex) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/fr/man1/ex.1.gz because associated file /usr/share/man/fr/man1/vim.1.gz (of link group ex) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/it/man1/ex.1.gz because associated file /usr/share/man/it/man1/vim.1.gz (of link group ex) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/ja/man1/ex.1.gz because associated file /usr/share/man/ja/man1/vim.1.gz (of link group ex) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/pl/man1/ex.1.gz because associated file /usr/share/man/pl/man1/vim.1.gz (of link group ex) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/ru/man1/ex.1.gz because associated file /usr/share/man/ru/man1/vim.1.gz (of link group ex) doesn't exist +#7 105.8 update-alternatives: warning: skip creation of /usr/share/man/man1/ex.1.gz because associated file /usr/share/man/man1/vim.1.gz (of link group ex) doesn't exist +#7 105.8 Setting up libxdamage1:arm64 (1:1.1.5-2build2) ... +#7 105.9 Setting up gpg-agent (2.2.27-3ubuntu2.4) ... +#7 105.9 Created symlink /etc/systemd/user/sockets.target.wants/gpg-agent-browser.socket → /usr/lib/systemd/user/gpg-agent-browser.socket. +#7 106.0 Created symlink /etc/systemd/user/sockets.target.wants/gpg-agent-extra.socket → /usr/lib/systemd/user/gpg-agent-extra.socket. +#7 106.0 Created symlink /etc/systemd/user/sockets.target.wants/gpg-agent-ssh.socket → /usr/lib/systemd/user/gpg-agent-ssh.socket. +#7 106.1 Created symlink /etc/systemd/user/sockets.target.wants/gpg-agent.socket → /usr/lib/systemd/user/gpg-agent.socket. +#7 106.1 Setting up python3.10 (3.10.12-1~22.04.11) ... +#7 106.4 Setting up libxpm4:arm64 (1:3.5.12-1ubuntu0.22.04.2) ... +#7 106.4 Setting up libpcre2-dev:arm64 (10.39-3ubuntu0.1) ... +#7 106.5 Setting up libxrender1:arm64 (1:0.9.10-1build4) ... +#7 106.5 Setting up libpcre3-dev:arm64 (2:8.39-13ubuntu0.22.04.1) ... +#7 106.5 Setting up libgfortran-11-dev:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#7 106.5 Setting up libdrm-radeon1:arm64 (2.4.113-2~ubuntu0.22.04.1) ... +#7 106.5 Setting up preview-latex-style (12.2-1ubuntu1) ... +#7 106.5 Setting up gpgsm (2.2.27-3ubuntu2.4) ... +#7 106.5 Setting up libpango-1.0-0:arm64 (1.50.6+ds-2ubuntu1) ... +#7 106.6 Setting up libxext6:arm64 (2:1.3.4-1build1) ... +#7 106.6 Setting up dconf-service (0.40.0-3ubuntu0.1) ... +#7 106.6 Setting up python3 (3.10.6-1~22.04.1) ... +#7 106.6 Setting up libreadline-dev:arm64 (8.1.2-1) ... +#7 106.6 Setting up xfonts-utils (1:7.7+6build2) ... +#7 106.6 Setting up libcairo2:arm64 (1.16.0-5ubuntu2) ... +#7 106.7 Setting up gcc (4:11.2.0-1ubuntu1) ... +#7 106.7 Setting up libxxf86vm1:arm64 (1:1.1.4-1build3) ... +#7 106.7 Setting up dirmngr (2.2.27-3ubuntu2.4) ... +#7 106.8 Created symlink /etc/systemd/user/sockets.target.wants/dirmngr.socket → /usr/lib/systemd/user/dirmngr.socket. +#7 106.8 Setting up perl (5.34.0-3ubuntu1.5) ... +#7 106.8 Setting up libxml2-dev:arm64 (2.9.13+dfsg-1ubuntu0.10) ... +#7 106.8 Setting up libllvm11:arm64 (1:11.1.0-6) ... +#7 106.8 Setting up libdata-dump-perl (1.25-1) ... +#7 106.8 Setting up libxfixes3:arm64 (1:6.0.0-1) ... +#7 106.8 Setting up libcurl4-openssl-dev:arm64 (7.81.0-1ubuntu1.21) ... +#7 106.8 Setting up libipc-system-simple-perl (1.30-1) ... +#7 106.8 Setting up libxml-xpathengine-perl (0.14-1) ... +#7 106.8 Setting up python3-gi (3.42.1-0ubuntu1) ... +#7 106.9 Setting up shared-mime-info (2.1-2) ... +#7 107.9 Setting up libxinerama1:arm64 (2:1.1.4-3) ... +#7 107.9 Setting up libgd3:arm64 (2.3.0-2ubuntu2.3) ... +#7 108.0 Setting up libxv1:arm64 (2:1.0.11-1build2) ... +#7 108.0 Setting up libio-html-perl (1.004-2) ... +#7 108.0 Setting up libxrandr2:arm64 (2:1.5.2-1build1) ... +#7 108.0 Setting up libxt6:arm64 (1:1.2.1-1) ... +#7 108.0 Setting up libdpkg-perl (1.21.1ubuntu2.6) ... +#7 108.0 Setting up gfortran-11 (11.4.0-1ubuntu1~22.04.2) ... +#7 108.0 Setting up libtimedate-perl (2.3300-2) ... +#7 108.0 Setting up libstdc++-11-dev:arm64 (11.4.0-1ubuntu1~22.04.2) ... +#7 108.0 Setting up gpg-wks-server (2.2.27-3ubuntu2.4) ... +#7 108.0 Setting up libcups2:arm64 (2.4.1op1-1ubuntu4.12) ... +#7 108.1 Setting up zlib1g-dev:arm64 (1:1.2.11.dfsg-2ubuntu9.2) ... +#7 108.1 Setting up xauth (1:1.1-1build2) ... +#7 108.1 Setting up lmodern (2.004.5-6.1) ... +#7 108.2 Setting up libllvm15:arm64 (1:15.0.7-0ubuntu0.22.04.3) ... +#7 108.2 Setting up libncurses5-dev:arm64 (6.3-2ubuntu0.1) ... +#7 108.2 Setting up libgdk-pixbuf-2.0-0:arm64 (2.42.8+dfsg-1ubuntu0.4) ... +#7 108.2 Setting up libcairo-gobject2:arm64 (1.16.0-5ubuntu2) ... +#7 108.2 Setting up libxss1:arm64 (1:1.2.3-1build2) ... +#7 108.2 Setting up libpangoft2-1.0-0:arm64 (1.50.6+ds-2ubuntu1) ... +#7 108.2 Setting up libjpeg8-dev:arm64 (8c-2ubuntu10) ... +#7 108.2 Setting up tex-gyre (20180621-3.1) ... +#7 108.3 Setting up liburi-perl (5.10-1) ... +#7 108.4 Setting up libx11-protocol-perl (0.56-7.1) ... +#7 108.4 Setting up libpangocairo-1.0-0:arm64 (1.50.6+ds-2ubuntu1) ... +#7 108.4 Setting up libc-devtools (2.35-0ubuntu3.11) ... +#7 108.4 Setting up libnet-ssleay-perl:arm64 (1.92-1build2) ... +#7 108.4 Setting up libgl1-amber-dri:arm64 (21.3.9-0ubuntu1~22.04.1) ... +#7 108.4 Setting up gtk-update-icon-cache (3.24.33-1ubuntu2.2) ... +#7 108.5 Setting up libhttp-date-perl (6.05-1) ... +#7 108.5 Setting up python3-dbus (1.2.18-3build1) ... +#7 108.5 Setting up libxft2:arm64 (2.3.4-1) ... +#7 108.5 Setting up libxmu6:arm64 (2:1.1.3-3) ... +#7 108.5 Setting up libfile-basedir-perl (0.09-1) ... +#7 108.6 Setting up libtie-ixhash-perl (1.23-2.1) ... +#7 108.6 Setting up libphobos2-ldc-shared98:arm64 (1:1.28.0-1ubuntu1) ... +#7 108.6 Setting up libfile-listing-perl (6.14-1) ... +#7 108.6 Setting up libgs9:arm64 (9.55.0~dfsg1-0ubuntu5.13) ... +#7 108.6 Setting up libxi6:arm64 (2:1.8-1build1) ... +#7 108.6 Setting up gpg-wks-client (2.2.27-3ubuntu2.4) ... +#7 108.6 Setting up dconf-gsettings-backend:arm64 (0.40.0-3ubuntu0.1) ... +#7 108.6 Setting up libfont-afm-perl (1.20-3) ... +#7 108.6 Setting up g++-11 (11.4.0-1ubuntu1~22.04.2) ... +#7 108.7 Setting up libfile-fcntllock-perl (0.22-3build7) ... +#7 108.7 Setting up libclone-perl (0.45-1build3) ... +#7 108.7 Setting up libalgorithm-diff-perl (1.201-1) ... +#7 108.7 Setting up libio-stringy-perl (2.111-3) ... +#7 108.7 Setting up libxtst6:arm64 (2:1.2.3-1build4) ... +#7 108.8 Setting up libhtml-tagset-perl (3.20-4) ... +#7 108.8 Setting up libauthen-sasl-perl (2.1600-1.1) ... +#7 108.8 Setting up libtk8.6:arm64 (8.6.12-1build1) ... +#7 108.8 Setting up libxcursor1:arm64 (1:1.2.0-2build4) ... +#7 108.8 Setting up liblwp-mediatypes-perl (6.04-1) ... +#7 108.9 Setting up libgl1-mesa-dri:arm64 (23.2.1-1ubuntu3.1~22.04.3) ... +#7 108.9 Setting up libpng-dev:arm64 (1.6.37-3build5) ... +#7 108.9 Setting up libtry-tiny-perl (0.31-1) ... +#7 108.9 Setting up libjpeg-dev:arm64 (8c-2ubuntu10) ... +#7 108.9 Setting up dvisvgm (2.13.1-1) ... +#7 108.9 Setting up libxxf86dga1:arm64 (2:1.1.5-0ubuntu3) ... +#7 108.9 Setting up libnet-http-perl (6.22-1) ... +#7 108.9 Setting up libencode-locale-perl (1.05-1.1) ... +#7 108.9 Setting up libxaw7:arm64 (2:1.0.14-1) ... +#7 109.0 Setting up libatspi2.0-0:arm64 (2.44.0-3) ... +#7 109.0 Setting up x11-xserver-utils (7.7+9build1) ... +#7 109.0 Setting up gfortran (4:11.2.0-1ubuntu1) ... +#7 109.0 update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode +#7 109.0 update-alternatives: warning: skip creation of /usr/share/man/man1/f95.1.gz because associated file /usr/share/man/man1/gfortran.1.gz (of link group f95) doesn't exist +#7 109.0 update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode +#7 109.0 update-alternatives: warning: skip creation of /usr/share/man/man1/f77.1.gz because associated file /usr/share/man/man1/gfortran.1.gz (of link group f77) doesn't exist +#7 109.0 Setting up dpkg-dev (1.21.1ubuntu2.6) ... +#7 109.0 Setting up librsvg2-2:arm64 (2.52.5+dfsg-3ubuntu0.2) ... +#7 109.0 Setting up libatk-bridge2.0-0:arm64 (2.38.0-3) ... +#7 109.0 Setting up r-base-core (4.1.2-1ubuntu2) ... +#7 109.1 +#7 109.1 Creating config file /etc/R/Renviron with new version +#7 109.2 Setting up pkg-config (0.29.2-1ubuntu3) ... +#7 109.2 Setting up librsvg2-common:arm64 (2.52.5+dfsg-3ubuntu0.2) ... +#7 109.2 Setting up r-cran-lattice (0.20-45-1) ... +#7 109.2 Setting up r-cran-nlme (3.1.155-1) ... +#7 109.2 Setting up libfile-desktopentry-perl (0.22-2) ... +#7 109.3 Setting up libwww-robotrules-perl (6.02-1) ... +#7 109.3 Setting up g++ (4:11.2.0-1ubuntu1) ... +#7 109.3 update-alternatives: using /usr/bin/g++ to provide /usr/bin/c++ (c++) in auto mode +#7 109.3 update-alternatives: warning: skip creation of /usr/share/man/man1/c++.1.gz because associated file /usr/share/man/man1/g++.1.gz (of link group c++) doesn't exist +#7 109.3 Setting up texlive-binaries (2021.20210626.59705-1ubuntu0.2) ... +#7 109.4 update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode +#7 109.4 update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode +#7 109.4 update-alternatives: warning: skip creation of /usr/share/man/man1/bibtex.1.gz because associated file /usr/share/man/man1/bibtex.original.1.gz (of link group bibtex) doesn't exist +#7 109.4 Setting up libgdk-pixbuf2.0-bin (2.42.8+dfsg-1ubuntu0.4) ... +#7 109.4 Setting up libhtml-parser-perl:arm64 (3.76-1build2) ... +#7 109.4 Setting up r-cran-cluster (2.1.2-2) ... +#7 109.4 Setting up gnupg (2.2.27-3ubuntu2.4) ... +#7 109.4 Setting up build-essential (12.9ubuntu3) ... +#7 109.4 Setting up r-cran-nnet (7.3-17-1) ... +#7 109.4 Setting up texlive-base (2021.20220204-1) ... +#7 109.5 /usr/bin/ucfr +#7 109.5 /usr/bin/ucfr +#7 109.5 /usr/bin/ucfr +#7 109.6 /usr/bin/ucfr +#7 109.7 tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps +#7 109.8 tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg +#7 ... + +#10 [rust-builder 5/6] RUN TEMP=. curl -L https://raw.githubusercontent.com/metabarcoding/obitools4/master/install_obitools.sh | bash -s -- --install-dir /home/jovyan/obitools-build && cp /home/jovyan/obitools-build/bin/* /usr/local/bin +#10 0.121 % Total % Received % Xferd Average Speed Time Time Time Current +#10 0.121 Dload Upload Total Spent Left Speed +#10 0.121 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 3569 100 3569 0 0 15923 0 --:--:-- --:--:-- --:--:-- 15933 +#10 0.348 WORK_DIR=obitools4.8GkIIZ +#10 0.348 INSTALL_DIR=/home/jovyan/obitools-build +#10 0.348 OBITOOLS_PREFIX= +#10 0.348 ~/obitools4.8GkIIZ ~ +#10 0.351 % Total % Received % Xferd Average Speed Time Time Time Current +#10 0.351 Dload Upload Total Spent Left Speed +#10 0.351 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 2 2551k 2 69340 0 0 90392 0 0:00:28 --:--:-- 0:00:28 90286 100 2551k 100 2551k 0 0 2016k 0 0:00:01 0:00:01 --:--:-- 2016k +#10 1.621 % Total % Received % Xferd Average Speed Time Time Time Current +#10 1.621 Dload Upload Total Spent Left Speed +#10 1.621 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 75 100 75 0 0 310 0 --:--:-- --:--:-- --:--:-- 311 +#10 1.864 Install GO from : https://dl.google.com/go/go1.25.3.linux-arm64.tar.gz +#10 1.867 % Total % Received % Xferd Average Speed Time Time Time Current +#10 1.867 Dload Upload Total Spent Left Speed +#10 1.867 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 0 54.6M 0 8546 0 0 29312 0 0:32:33 --:--:-- 0:32:33 29267 62 54.6M 62 34.1M 0 0 27.1M 0 0:00:02 0:00:01 0:00:01 27.1M 100 54.6M 100 54.6M 0 0 28.5M 0 0:00:01 0:00:01 --:--:-- 28.5M +#10 3.798 % Total % Received % Xferd Average Speed Time Time Time Current +#10 3.798 Dload Upload Total Spent Left Speed +#10 3.798 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 +#10 4.111 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 555k 0 555k 0 0 312k 0 --:--:-- 0:00:01 --:--:-- 379k 100 555k 0 555k 0 0 199k 0 --:--:-- 0:00:02 --:--:-- 225k 100 2754k 0 2754k 0 0 828k 0 --:--:-- 0:00:03 --:--:-- 914k 100 6841k 0 6841k 0 0 1585k 0 --:--:-- 0:00:04 --:--:-- 1709k 100 10.7M 0 10.7M 0 0 2066k 0 --:--:-- 0:00:05 --:--:-- 2195k 100 14.8M 0 14.8M 0 0 2413k 0 --:--:-- 0:00:06 --:--:-- 3236k +#10 ... + +#7 [stage-1 2/11] RUN apt-get update && apt-get install -y r-base libcurl4-openssl-dev libssl-dev libxml2-dev curl texlive-xetex texlive-fonts-recommended texlive-plain-generic ruby ruby-dev vim nano && apt-get clean && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* +#7 109.9 tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper +#7 110.0 tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex +#7 110.3 tl-paper: setting paper size for dvipdfmx to letter: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg +#7 110.3 tl-paper: setting paper size for dvips to letter: /var/lib/texmf/dvips/config/config-paper.ps +#7 110.3 tl-paper: setting paper size for pdftex to letter: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex +#7 110.3 tl-paper: setting paper size for xdvi to letter: /var/lib/texmf/xdvi/XDvi-paper +#7 110.4 Setting up libalgorithm-diff-xs-perl (0.04-6build3) ... +#7 110.4 Setting up libio-socket-ssl-perl (2.074-2) ... +#7 110.4 Setting up libgtk-3-common (3.24.33-1ubuntu2.2) ... +#7 110.4 Setting up libalgorithm-merge-perl (0.08-3) ... +#7 110.4 Setting up libhttp-message-perl (6.36-1) ... +#7 110.4 Setting up libhtml-form-perl (6.07-1) ... +#7 110.4 Setting up networkd-dispatcher (2.1-2ubuntu0.22.04.2) ... +#7 110.5 Created symlink /etc/systemd/system/multi-user.target.wants/networkd-dispatcher.service → /lib/systemd/system/networkd-dispatcher.service. +#7 110.5 Setting up gsettings-desktop-schemas (42.0-1ubuntu1) ... +#7 110.5 Setting up tk8.6 (8.6.12-1build1) ... +#7 110.5 Setting up libfile-mimeinfo-perl (0.31-1) ... +#7 110.5 Setting up r-cran-codetools (0.2-18-1) ... +#7 110.5 Setting up r-cran-boot (1.3-28-2) ... +#7 110.6 Setting up libhttp-negotiate-perl (6.01-1) ... +#7 110.6 Setting up libglx-mesa0:arm64 (23.2.1-1ubuntu3.1~22.04.3) ... +#7 110.6 Setting up r-base-dev (4.1.2-1ubuntu2) ... +#7 110.6 Setting up libglx0:arm64 (1.4.0-1) ... +#7 110.6 Setting up libhttp-cookies-perl (6.10-1) ... +#7 110.6 Setting up r-cran-spatial (7.3-15-1) ... +#7 110.6 Setting up libhtml-tree-perl (5.07-2) ... +#7 110.7 Setting up texlive-plain-generic (2021.20220204-1) ... +#7 110.7 Setting up r-cran-mass (7.3-55-1) ... +#7 110.7 Setting up libhtml-format-perl (2.12-1.1) ... +#7 110.7 Setting up r-cran-foreign (0.8.82-1) ... +#7 110.7 Setting up libgl1:arm64 (1.4.0-1) ... +#7 110.7 Setting up r-base-html (4.1.2-1ubuntu2) ... +#7 110.7 Setting up libnet-smtp-ssl-perl (1.04-1) ... +#7 110.8 Setting up texlive-latex-base (2021.20220204-1) ... +#7 110.8 Setting up libmailtools-perl (2.21-1) ... +#7 110.8 Setting up texlive-latex-recommended (2021.20220204-1) ... +#7 110.8 Setting up r-cran-matrix (1.4-0-1) ... +#7 110.8 Setting up texlive-pictures (2021.20220204-1) ... +#7 110.9 Setting up r-cran-kernsmooth (2.23-20-1) ... +#7 110.9 Setting up r-cran-mgcv (1.8-39-1) ... +#7 110.9 Setting up libhttp-daemon-perl (6.13-1ubuntu0.1) ... +#7 110.9 Setting up at-spi2-core (2.44.0-3) ... +#7 110.9 Setting up texlive-fonts-recommended (2021.20220204-1) ... +#7 110.9 Setting up x11-utils (7.7+5build2) ... +#7 110.9 Setting up tipa (2:1.3-21) ... +#7 110.9 Setting up tk (8.6.11+1build2) ... +#7 110.9 Setting up r-cran-class (7.3-20-1) ... +#7 110.9 Setting up r-cran-survival (3.2-13-1) ... +#7 110.9 Setting up texlive-latex-extra (2021.20220204-1) ... +#7 111.0 Setting up texlive-xetex (2021.20220204-1) ... +#7 111.0 Setting up r-cran-rpart (4.1.16-1) ... +#7 111.0 Setting up r-recommended (4.1.2-1ubuntu2) ... +#7 111.0 Setting up r-base (4.1.2-1ubuntu2) ... +#7 111.0 Setting up libruby3.0:arm64 (3.0.2-7ubuntu2.11) ... +#7 111.0 Setting up libwww-perl (6.61-1) ... +#7 111.1 Setting up adwaita-icon-theme (41.0-1ubuntu1) ... +#7 111.1 update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode +#7 111.1 Setting up ruby3.0-dev:arm64 (3.0.2-7ubuntu2.11) ... +#7 111.1 Setting up ruby3.0 (3.0.2-7ubuntu2.11) ... +#7 111.1 Setting up liblwp-protocol-https-perl (6.10-1) ... +#7 111.1 Setting up libxml-parser-perl:arm64 (2.46-3build1) ... +#7 111.2 Setting up libgtk-3-0:arm64 (3.24.33-1ubuntu2.2) ... +#7 111.2 Setting up libxml-twig-perl (1:3.52-1) ... +#7 111.2 Setting up libnet-dbus-perl (1.2.0-1build3) ... +#7 111.2 Setting up ruby-dev:arm64 (1:3.0~exp1) ... +#7 111.2 Setting up libgtk-3-bin (3.24.33-1ubuntu2.2) ... +#7 111.2 Setting up libvte-2.91-0:arm64 (0.68.0-1ubuntu0.1) ... +#7 111.2 Setting up ruby (1:3.0~exp1) ... +#7 111.3 Setting up humanity-icon-theme (0.6.16) ... +#7 111.3 Setting up rake (13.0.6-2) ... +#7 111.3 Setting up libvted-3-0:arm64 (3.10.0-1ubuntu1) ... +#7 111.3 Setting up libgtkd-3-0:arm64 (3.10.0-1ubuntu1) ... +#7 111.4 Setting up tilix (1.9.4-2build1) ... +#7 111.4 update-alternatives: using /usr/bin/tilix.wrapper to provide /usr/bin/x-terminal-emulator (x-terminal-emulator) in auto mode +#7 111.4 update-alternatives: warning: skip creation of /usr/share/man/man1/x-terminal-emulator.1.gz because associated file /usr/share/man/man1/tilix.1.gz (of link group x-terminal-emulator) doesn't exist +#7 111.4 Setting up ubuntu-mono (20.10-0ubuntu2) ... +#7 111.4 Setting up ruby-rubygems (3.3.5-2ubuntu1.2) ... +#7 111.4 Processing triggers for libc-bin (2.35-0ubuntu3.4) ... +#7 111.4 Processing triggers for tex-common (6.17) ... +#7 111.5 Running updmap-sys. This may take some time... done. +#7 111.7 Running mktexlsr /var/lib/texmf ... done. +#7 111.7 Building format(s) --all. +#7 111.7 This may take some time... done. +#7 117.4 Processing triggers for libgdk-pixbuf-2.0-0:arm64 (2.42.8+dfsg-1ubuntu0.4) ... +#7 DONE 118.7s + +#10 [rust-builder 5/6] RUN TEMP=. curl -L https://raw.githubusercontent.com/metabarcoding/obitools4/master/install_obitools.sh | bash -s -- --install-dir /home/jovyan/obitools-build && cp /home/jovyan/obitools-build/bin/* /usr/local/bin +#10 4.111 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 555k 0 555k 0 0 312k 0 --:--:-- 0:00:01 --:--:-- 379k 100 555k 0 555k 0 0 199k 0 --:--:-- 0:00:02 --:--:-- 225k 100 2754k 0 2754k 0 0 828k 0 --:--:-- 0:00:03 --:--:-- 914k 100 6841k 0 6841k 0 0 1585k 0 --:--:-- 0:00:04 --:--:-- 1709k 100 10.7M 0 10.7M 0 0 2066k 0 --:--:-- 0:00:05 --:--:-- 2195k 100 14.8M 0 14.8M 0 0 2413k 0 --:--:-- 0:00:06 --:--:-- 3236k 100 18.8M 0 18.8M 0 0 2638k 0 --:--:-- 0:00:07 --:--:-- 4132k 100 23.2M 0 23.2M 0 0 2860k 0 --:--:-- 0:00:08 --:--:-- 4215k 100 27.2M 0 27.2M 0 0 2989k 0 --:--:-- 0:00:09 --:--:-- 4199k 100 31.6M 0 31.6M 0 0 3138k 0 --:--:-- 0:00:10 --:--:-- 4279k 100 34.7M 0 34.7M 0 0 3139k 0 --:--:-- 0:00:11 --:--:-- 4055k 100 38.0M 0 38.0M 0 0 3160k 0 --:--:-- 0:00:12 --:--:-- 3924k 100 42.1M 0 42.1M 0 0 3242k 0 --:--:-- 0:00:13 --:--:-- 3878k 100 45.7M 0 45.7M 0 0 3274k 0 --:--:-- 0:00:14 --:--:-- 3805k +#10 ... + +#11 [stage-1 3/11] RUN R -e "install.packages(c('IRkernel','tidyverse','vegan','ade4','BiocManager','remotes'), repos='http://cran.rstudio.com/')" && R -e "BiocManager::install('biomformat')" && R -e "remotes::install_github('metabaRfactory/metabaR')" && R -e "IRkernel::installspec(user = FALSE)" && rm -rf /tmp/Rtmp* +#11 0.119 +#11 0.119 R version 4.1.2 (2021-11-01) -- "Bird Hippie" +#11 0.119 Copyright (C) 2021 The R Foundation for Statistical Computing +#11 0.119 Platform: aarch64-unknown-linux-gnu (64-bit) +#11 0.119 +#11 0.119 R is free software and comes with ABSOLUTELY NO WARRANTY. +#11 0.119 You are welcome to redistribute it under certain conditions. +#11 0.119 Type 'license()' or 'licence()' for distribution details. +#11 0.119 +#11 0.119 Natural language support but running in an English locale +#11 0.119 +#11 0.119 R is a collaborative project with many contributors. +#11 0.119 Type 'contributors()' for more information and +#11 0.119 'citation()' on how to cite R or R packages in publications. +#11 0.119 +#11 0.119 Type 'demo()' for some demos, 'help()' for on-line help, or +#11 0.119 'help.start()' for an HTML browser interface to help. +#11 0.119 Type 'q()' to quit R. +#11 0.119 +#11 0.154 > install.packages(c('IRkernel','tidyverse','vegan','ade4','BiocManager','remotes'), repos='http://cran.rstudio.com/') +#11 0.155 Installing packages into ‘/usr/local/lib/R/site-library’ +#11 0.155 (as ‘lib’ is unspecified) +#11 0.811 also installing the dependencies ‘sys’, ‘bit’, ‘ps’, ‘sass’, ‘fastmap’, ‘cachem’, ‘farver’, ‘labeling’, ‘RColorBrewer’, ‘viridisLite’, ‘rappdirs’, ‘rematch’, ‘askpass’, ‘bit64’, ‘prettyunits’, ‘processx’, ‘highr’, ‘xfun’, ‘yaml’, ‘bslib’, ‘fontawesome’, ‘jquerylib’, ‘tinytex’, ‘htmltools’, ‘base64enc’, ‘backports’, ‘generics’, ‘glue’, ‘lifecycle’, ‘memoise’, ‘blob’, ‘DBI’, ‘R6’, ‘tidyselect’, ‘vctrs’, ‘withr’, ‘data.table’, ‘gtable’, ‘isoband’, ‘S7’, ‘scales’, ‘gargle’, ‘cellranger’, ‘curl’, ‘ids’, ‘rematch2’, ‘cpp11’, ‘pkgconfig’, ‘mime’, ‘openssl’, ‘timechange’, ‘utf8’, ‘systemfonts’, ‘textshaping’, ‘clipr’, ‘vroom’, ‘tzdb’, ‘progress’, ‘callr’, ‘fs’, ‘knitr’, ‘rmarkdown’, ‘selectr’, ‘stringi’, ‘repr’, ‘evaluate’, ‘IRdisplay’, ‘pbdZMQ’, ‘crayon’, ‘jsonlite’, ‘uuid’, ‘digest’, ‘broom’, ‘conflicted’, ‘cli’, ‘dbplyr’, ‘dplyr’, ‘dtplyr’, ‘forcats’, ‘ggplot2’, ‘googledrive’, ‘googlesheets4’, ‘haven’, ‘hms’, ‘httr’, ‘lubridate’, ‘magrittr’, ‘modelr’, ‘pillar’, ‘purrr’, ‘ragg’, ‘readr’, ‘readxl’, ‘reprex’, ‘rlang’, ‘rstudioapi’, ‘rvest’, ‘stringr’, ‘tibble’, ‘tidyr’, ‘xml2’, ‘permute’, ‘pixmap’, ‘sp’, ‘Rcpp’, ‘RcppArmadillo’ +#11 0.811 +#11 0.812 trying URL 'http://cran.rstudio.com/src/contrib/sys_3.4.3.tar.gz' +#11 0.942 Content type 'application/x-gzip' length 19936 bytes (19 KB) +#11 0.942 ================================================== +#11 0.942 downloaded 19 KB +#11 0.942 +#11 0.943 trying URL 'http://cran.rstudio.com/src/contrib/bit_4.6.0.tar.gz' +#11 1.069 Content type 'application/x-gzip' length 304585 bytes (297 KB) +#11 1.069 ================================================== +#11 1.119 downloaded 297 KB +#11 1.119 +#11 1.120 trying URL 'http://cran.rstudio.com/src/contrib/ps_1.9.1.tar.gz' +#11 1.248 Content type 'application/x-gzip' length 167920 bytes (163 KB) +#11 1.248 ================================================== +#11 1.283 downloaded 163 KB +#11 1.283 +#11 1.285 trying URL 'http://cran.rstudio.com/src/contrib/sass_0.4.10.tar.gz' +#11 1.428 Content type 'application/x-gzip' length 3025163 bytes (2.9 MB) +#11 1.445 ================================================== +#11 1.547 downloaded 2.9 MB +#11 1.547 +#11 1.548 trying URL 'http://cran.rstudio.com/src/contrib/fastmap_1.2.0.tar.gz' +#11 1.707 Content type 'application/x-gzip' length 46710 bytes (45 KB) +#11 1.707 ================================================== +#11 1.723 downloaded 45 KB +#11 1.723 +#11 1.725 trying URL 'http://cran.rstudio.com/src/contrib/cachem_1.1.0.tar.gz' +#11 1.959 Content type 'application/x-gzip' length 27192 bytes (26 KB) +#11 1.959 ================================================== +#11 1.961 downloaded 26 KB +#11 1.961 +#11 1.964 trying URL 'http://cran.rstudio.com/src/contrib/farver_2.1.2.tar.gz' +#11 2.192 Content type 'application/x-gzip' length 1275981 bytes (1.2 MB) +#11 2.197 ================================================== +#11 2.268 downloaded 1.2 MB +#11 2.268 +#11 2.271 trying URL 'http://cran.rstudio.com/src/contrib/labeling_0.4.3.tar.gz' +#11 2.400 Content type 'application/x-gzip' length 10167 bytes +#11 2.401 ================================================== +#11 2.401 downloaded 10167 bytes +#11 2.401 +#11 2.401 trying URL 'http://cran.rstudio.com/src/contrib/RColorBrewer_1.1-3.tar.gz' +#11 2.432 Content type 'application/x-gzip' length 11638 bytes (11 KB) +#11 2.433 ================================================== +#11 2.433 downloaded 11 KB +#11 2.433 +#11 2.434 trying URL 'http://cran.rstudio.com/src/contrib/viridisLite_0.4.2.tar.gz' +#11 2.634 Content type 'application/x-gzip' length 1267121 bytes (1.2 MB) +#11 2.637 ================================================== +#11 2.720 downloaded 1.2 MB +#11 2.720 +#11 2.743 trying URL 'http://cran.rstudio.com/src/contrib/rappdirs_0.3.3.tar.gz' +#11 3.100 Content type 'application/x-gzip' length 12288 bytes (12 KB) +#11 3.100 ================================================== +#11 3.100 downloaded 12 KB +#11 3.100 +#11 3.103 trying URL 'http://cran.rstudio.com/src/contrib/rematch_2.0.0.tar.gz' +#11 3.359 Content type 'application/x-gzip' length 4781 bytes +#11 3.359 ================================================== +#11 3.359 downloaded 4781 bytes +#11 3.359 +#11 3.362 trying URL 'http://cran.rstudio.com/src/contrib/askpass_1.2.1.tar.gz' +#11 3.595 Content type 'application/x-gzip' length 6058 bytes +#11 3.603 ================================================== +#11 3.603 downloaded 6058 bytes +#11 3.603 +#11 3.603 trying URL 'http://cran.rstudio.com/src/contrib/bit64_4.6.0-1.tar.gz' +#11 3.837 Content type 'application/x-gzip' length 142045 bytes (138 KB) +#11 3.837 ================================================== +#11 3.869 downloaded 138 KB +#11 3.869 +#11 3.872 trying URL 'http://cran.rstudio.com/src/contrib/prettyunits_1.2.0.tar.gz' +#11 4.000 Content type 'application/x-gzip' length 97496 bytes (95 KB) +#11 4.000 ================================================== +#11 4.020 downloaded 95 KB +#11 4.020 +#11 4.022 trying URL 'http://cran.rstudio.com/src/contrib/processx_3.8.6.tar.gz' +#11 4.277 Content type 'application/x-gzip' length 165190 bytes (161 KB) +#11 4.277 ================================================== +#11 4.285 downloaded 161 KB +#11 4.285 +#11 4.286 trying URL 'http://cran.rstudio.com/src/contrib/highr_0.11.tar.gz' +#11 4.413 Content type 'application/x-gzip' length 13851 bytes (13 KB) +#11 4.413 ================================================== +#11 4.413 downloaded 13 KB +#11 4.413 +#11 4.416 trying URL 'http://cran.rstudio.com/src/contrib/xfun_0.54.tar.gz' +#11 4.554 Content type 'application/x-gzip' length 169161 bytes (165 KB) +#11 4.554 ================================================== +#11 4.588 downloaded 165 KB +#11 4.588 +#11 4.592 trying URL 'http://cran.rstudio.com/src/contrib/yaml_2.3.10.tar.gz' +#11 4.822 Content type 'application/x-gzip' length 94556 bytes (92 KB) +#11 4.823 ================================================== +#11 4.843 downloaded 92 KB +#11 4.843 +#11 4.845 trying URL 'http://cran.rstudio.com/src/contrib/bslib_0.9.0.tar.gz' +#11 4.992 Content type 'application/x-gzip' length 5428353 bytes (5.2 MB) +#11 5.101 ================================================== +#11 5.166 downloaded 5.2 MB +#11 5.166 +#11 5.167 trying URL 'http://cran.rstudio.com/src/contrib/fontawesome_0.5.3.tar.gz' +#11 5.299 Content type 'application/x-gzip' length 1320479 bytes (1.3 MB) +#11 5.300 ================================================== +#11 5.390 downloaded 1.3 MB +#11 5.390 +#11 5.392 trying URL 'http://cran.rstudio.com/src/contrib/jquerylib_0.1.4.tar.gz' +#11 5.536 Content type 'application/x-gzip' length 520207 bytes (508 KB) +#11 5.536 ================================================== +#11 5.596 downloaded 508 KB +#11 5.596 +#11 5.597 trying URL 'http://cran.rstudio.com/src/contrib/tinytex_0.57.tar.gz' +#11 5.641 Content type 'application/x-gzip' length 36295 bytes (35 KB) +#11 5.641 ================================================== +#11 5.654 downloaded 35 KB +#11 5.654 +#11 5.656 trying URL 'http://cran.rstudio.com/src/contrib/htmltools_0.5.8.1.tar.gz' +#11 5.779 Content type 'application/x-gzip' length 135134 bytes (131 KB) +#11 5.782 ================================================== +#11 5.814 downloaded 131 KB +#11 5.814 +#11 5.814 trying URL 'http://cran.rstudio.com/src/contrib/base64enc_0.1-3.tar.gz' +#11 5.950 Content type 'application/x-gzip' length 7833 bytes +#11 5.950 ================================================== +#11 5.950 downloaded 7833 bytes +#11 5.950 +#11 5.952 trying URL 'http://cran.rstudio.com/src/contrib/backports_1.5.0.tar.gz' +#11 6.082 Content type 'application/x-gzip' length 30687 bytes (29 KB) +#11 6.082 ================================================== +#11 6.083 downloaded 29 KB +#11 6.083 +#11 6.085 trying URL 'http://cran.rstudio.com/src/contrib/generics_0.1.4.tar.gz' +#11 6.216 Content type 'application/x-gzip' length 47224 bytes (46 KB) +#11 6.216 ================================================== +#11 6.233 downloaded 46 KB +#11 6.233 +#11 6.235 trying URL 'http://cran.rstudio.com/src/contrib/glue_1.8.0.tar.gz' +#11 6.361 Content type 'application/x-gzip' length 126682 bytes (123 KB) +#11 6.362 ================================================== +#11 6.394 downloaded 123 KB +#11 6.394 +#11 6.394 trying URL 'http://cran.rstudio.com/src/contrib/lifecycle_1.0.4.tar.gz' +#11 6.442 Content type 'application/x-gzip' length 107656 bytes (105 KB) +#11 6.442 ================================================== +#11 6.471 downloaded 105 KB +#11 6.471 +#11 6.473 trying URL 'http://cran.rstudio.com/src/contrib/memoise_2.0.1.tar.gz' +#11 6.597 Content type 'application/x-gzip' length 17852 bytes (17 KB) +#11 6.597 ================================================== +#11 6.598 downloaded 17 KB +#11 6.598 +#11 6.600 trying URL 'http://cran.rstudio.com/src/contrib/blob_1.2.4.tar.gz' +#11 6.830 Content type 'application/x-gzip' length 10620 bytes (10 KB) +#11 6.830 ================================================== +#11 6.830 downloaded 10 KB +#11 6.830 +#11 6.833 trying URL 'http://cran.rstudio.com/src/contrib/DBI_1.2.3.tar.gz' +#11 6.985 Content type 'application/x-gzip' length 1137307 bytes (1.1 MB) +#11 6.989 ================================================== +#11 7.063 downloaded 1.1 MB +#11 7.063 +#11 7.065 trying URL 'http://cran.rstudio.com/src/contrib/R6_2.6.1.tar.gz' +#11 7.197 Content type 'application/x-gzip' length 64507 bytes (62 KB) +#11 7.197 ================================================== +#11 7.218 downloaded 62 KB +#11 7.218 +#11 7.219 trying URL 'http://cran.rstudio.com/src/contrib/tidyselect_1.2.1.tar.gz' +#11 7.352 Content type 'application/x-gzip' length 103591 bytes (101 KB) +#11 7.352 ================================================== +#11 7.375 downloaded 101 KB +#11 7.375 +#11 7.379 trying URL 'http://cran.rstudio.com/src/contrib/vctrs_0.6.5.tar.gz' +#11 7.615 Content type 'application/x-gzip' length 969066 bytes (946 KB) +#11 7.616 ================================================== +#11 7.692 downloaded 946 KB +#11 7.692 +#11 7.692 trying URL 'http://cran.rstudio.com/src/contrib/withr_3.0.2.tar.gz' +#11 7.925 Content type 'application/x-gzip' length 103240 bytes (100 KB) +#11 7.925 ================================================== +#11 7.949 downloaded 100 KB +#11 7.949 +#11 7.952 trying URL 'http://cran.rstudio.com/src/contrib/data.table_1.17.8.tar.gz' +#11 8.207 Content type 'application/x-gzip' length 5808720 bytes (5.5 MB) +#11 8.220 ================================================== +#11 8.368 downloaded 5.5 MB +#11 8.368 +#11 8.371 trying URL 'http://cran.rstudio.com/src/contrib/gtable_0.3.6.tar.gz' +#11 8.412 Content type 'application/x-gzip' length 148148 bytes (144 KB) +#11 8.415 ================================================== +#11 8.446 downloaded 144 KB +#11 8.446 +#11 8.448 trying URL 'http://cran.rstudio.com/src/contrib/isoband_0.2.7.tar.gz' +#11 8.575 Content type 'application/x-gzip' length 1591812 bytes (1.5 MB) +#11 8.580 ================================================== +#11 8.674 downloaded 1.5 MB +#11 8.674 +#11 8.677 trying URL 'http://cran.rstudio.com/src/contrib/S7_0.2.0.tar.gz' +#11 8.727 Content type 'application/x-gzip' length 183153 bytes (178 KB) +#11 8.727 ================================================== +#11 8.764 downloaded 178 KB +#11 8.764 +#11 8.764 trying URL 'http://cran.rstudio.com/src/contrib/scales_1.4.0.tar.gz' +#11 8.809 Content type 'application/x-gzip' length 328671 bytes (320 KB) +#11 8.809 ================================================== +#11 8.861 downloaded 320 KB +#11 8.861 +#11 8.862 trying URL 'http://cran.rstudio.com/src/contrib/gargle_1.6.0.tar.gz' +#11 8.988 Content type 'application/x-gzip' length 473137 bytes (462 KB) +#11 8.990 ================================================== +#11 9.045 downloaded 462 KB +#11 9.045 +#11 9.048 trying URL 'http://cran.rstudio.com/src/contrib/cellranger_1.1.0.tar.gz' +#11 9.278 Content type 'application/x-gzip' length 63857 bytes (62 KB) +#11 9.278 ================================================== +#11 9.295 downloaded 62 KB +#11 9.295 +#11 9.296 trying URL 'http://cran.rstudio.com/src/contrib/curl_7.0.0.tar.gz' +#11 9.552 Content type 'application/x-gzip' length 731109 bytes (713 KB) +#11 9.552 ================================================== +#11 9.591 downloaded 713 KB +#11 9.591 +#11 9.594 trying URL 'http://cran.rstudio.com/src/contrib/ids_1.0.1.tar.gz' +#11 9.722 Content type 'application/x-gzip' length 91213 bytes (89 KB) +#11 9.722 ================================================== +#11 9.744 downloaded 89 KB +#11 9.744 +#11 9.745 trying URL 'http://cran.rstudio.com/src/contrib/rematch2_2.1.2.tar.gz' +#11 9.872 Content type 'application/x-gzip' length 13366 bytes (13 KB) +#11 9.872 ================================================== +#11 9.872 downloaded 13 KB +#11 9.872 +#11 9.874 trying URL 'http://cran.rstudio.com/src/contrib/cpp11_0.5.2.tar.gz' +#11 10.03 Content type 'application/x-gzip' length 291993 bytes (285 KB) +#11 10.03 ================================================== +#11 10.08 downloaded 285 KB +#11 10.08 +#11 10.08 trying URL 'http://cran.rstudio.com/src/contrib/pkgconfig_2.0.3.tar.gz' +#11 10.21 Content type 'application/x-gzip' length 6080 bytes +#11 10.21 ================================================== +#11 10.21 downloaded 6080 bytes +#11 10.21 +#11 10.21 trying URL 'http://cran.rstudio.com/src/contrib/mime_0.13.tar.gz' +#11 10.33 Content type 'application/x-gzip' length 21950 bytes (21 KB) +#11 ... + +#10 [rust-builder 5/6] RUN TEMP=. curl -L https://raw.githubusercontent.com/metabarcoding/obitools4/master/install_obitools.sh | bash -s -- --install-dir /home/jovyan/obitools-build && cp /home/jovyan/obitools-build/bin/* /usr/local/bin +#10 4.111 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 555k 0 555k 0 0 312k 0 --:--:-- 0:00:01 --:--:-- 379k 100 555k 0 555k 0 0 199k 0 --:--:-- 0:00:02 --:--:-- 225k 100 2754k 0 2754k 0 0 828k 0 --:--:-- 0:00:03 --:--:-- 914k 100 6841k 0 6841k 0 0 1585k 0 --:--:-- 0:00:04 --:--:-- 1709k 100 10.7M 0 10.7M 0 0 2066k 0 --:--:-- 0:00:05 --:--:-- 2195k 100 14.8M 0 14.8M 0 0 2413k 0 --:--:-- 0:00:06 --:--:-- 3236k 100 18.8M 0 18.8M 0 0 2638k 0 --:--:-- 0:00:07 --:--:-- 4132k 100 23.2M 0 23.2M 0 0 2860k 0 --:--:-- 0:00:08 --:--:-- 4215k 100 27.2M 0 27.2M 0 0 2989k 0 --:--:-- 0:00:09 --:--:-- 4199k 100 31.6M 0 31.6M 0 0 3138k 0 --:--:-- 0:00:10 --:--:-- 4279k 100 34.7M 0 34.7M 0 0 3139k 0 --:--:-- 0:00:11 --:--:-- 4055k 100 38.0M 0 38.0M 0 0 3160k 0 --:--:-- 0:00:12 --:--:-- 3924k 100 42.1M 0 42.1M 0 0 3242k 0 --:--:-- 0:00:13 --:--:-- 3878k 100 45.7M 0 45.7M 0 0 3274k 0 --:--:-- 0:00:14 --:--:-- 3805k 100 50.1M 0 50.1M 0 0 3351k 0 --:--:-- 0:00:15 --:--:-- 3791k 100 53.5M 0 53.5M 0 0 3359k 0 --:--:-- 0:00:16 --:--:-- 3856k 100 55.2M 0 55.2M 0 0 3268k 0 --:--:-- 0:00:17 --:--:-- 3534k 100 58.0M 0 58.0M 0 0 3244k 0 --:--:-- 0:00:18 --:--:-- 3248k 100 61.0M 0 61.0M 0 0 3237k 0 --:--:-- 0:00:19 --:--:-- 3134k 100 64.7M 0 64.7M 0 0 3263k 0 --:--:-- 0:00:20 --:--:-- 2993k 100 67.0M 0 67.0M 0 0 3220k 0 --:--:-- 0:00:21 --:--:-- 2767k 100 69.8M 0 69.8M 0 0 3204k 0 --:--:-- 0:00:22 --:--:-- 2983k 100 73.1M 0 73.1M 0 0 3211k 0 --:--:-- 0:00:23 --:--:-- 3093k 100 74.4M 0 74.4M 0 0 3137k 0 --:--:-- 0:00:24 --:--:-- 2746k 100 76.7M 0 76.7M 0 0 3105k 0 --:--:-- 0:00:25 --:--:-- 2463k +#10 ... + +#11 [stage-1 3/11] RUN R -e "install.packages(c('IRkernel','tidyverse','vegan','ade4','BiocManager','remotes'), repos='http://cran.rstudio.com/')" && R -e "BiocManager::install('biomformat')" && R -e "remotes::install_github('metabaRfactory/metabaR')" && R -e "IRkernel::installspec(user = FALSE)" && rm -rf /tmp/Rtmp* +#11 10.33 ================================================== +#11 10.33 downloaded 21 KB +#11 10.33 +#11 10.34 trying URL 'http://cran.rstudio.com/src/contrib/openssl_2.3.4.tar.gz' +#11 10.47 Content type 'application/x-gzip' length 1208445 bytes (1.2 MB) +#11 10.47 ================================================== +#11 10.54 downloaded 1.2 MB +#11 10.54 +#11 10.54 trying URL 'http://cran.rstudio.com/src/contrib/timechange_0.3.0.tar.gz' +#11 10.68 Content type 'application/x-gzip' length 103439 bytes (101 KB) +#11 10.68 ================================================== +#11 10.71 downloaded 101 KB +#11 10.71 +#11 10.71 trying URL 'http://cran.rstudio.com/src/contrib/utf8_1.2.6.tar.gz' +#11 10.94 Content type 'application/x-gzip' length 243856 bytes (238 KB) +#11 10.94 ================================================== +#11 10.99 downloaded 238 KB +#11 10.99 +#11 10.99 trying URL 'http://cran.rstudio.com/src/contrib/systemfonts_1.3.1.tar.gz' +#11 11.13 Content type 'application/x-gzip' length 593311 bytes (579 KB) +#11 11.13 ================================================== +#11 11.19 downloaded 579 KB +#11 11.19 +#11 11.19 trying URL 'http://cran.rstudio.com/src/contrib/textshaping_1.0.4.tar.gz' +#11 11.32 Content type 'application/x-gzip' length 76738 bytes (74 KB) +#11 11.32 ================================================== +#11 11.34 downloaded 74 KB +#11 11.34 +#11 11.34 trying URL 'http://cran.rstudio.com/src/contrib/clipr_0.8.0.tar.gz' +#11 11.47 Content type 'application/x-gzip' length 21898 bytes (21 KB) +#11 11.47 ================================================== +#11 11.47 downloaded 21 KB +#11 11.47 +#11 11.47 trying URL 'http://cran.rstudio.com/src/contrib/vroom_1.6.6.tar.gz' +#11 11.60 Content type 'application/x-gzip' length 626219 bytes (611 KB) +#11 11.60 ================================================== +#11 11.68 downloaded 611 KB +#11 11.68 +#11 11.68 trying URL 'http://cran.rstudio.com/src/contrib/tzdb_0.5.0.tar.gz' +#11 11.82 Content type 'application/x-gzip' length 600718 bytes (586 KB) +#11 11.82 ================================================== +#11 11.99 downloaded 586 KB +#11 11.99 +#11 11.99 trying URL 'http://cran.rstudio.com/src/contrib/progress_1.2.3.tar.gz' +#11 12.12 Content type 'application/x-gzip' length 30499 bytes (29 KB) +#11 12.12 ================================================== +#11 12.12 downloaded 29 KB +#11 12.12 +#11 12.13 trying URL 'http://cran.rstudio.com/src/contrib/callr_3.7.6.tar.gz' +#11 12.26 Content type 'application/x-gzip' length 104358 bytes (101 KB) +#11 12.26 ================================================== +#11 12.28 downloaded 101 KB +#11 12.28 +#11 12.28 trying URL 'http://cran.rstudio.com/src/contrib/fs_1.6.6.tar.gz' +#11 12.41 Content type 'application/x-gzip' length 1201011 bytes (1.1 MB) +#11 12.41 ================================================== +#11 12.49 downloaded 1.1 MB +#11 12.49 +#11 12.49 trying URL 'http://cran.rstudio.com/src/contrib/knitr_1.50.tar.gz' +#11 12.53 Content type 'application/x-gzip' length 534264 bytes (521 KB) +#11 12.53 ================================================== +#11 12.59 downloaded 521 KB +#11 12.59 +#11 12.59 trying URL 'http://cran.rstudio.com/src/contrib/rmarkdown_2.30.tar.gz' +#11 12.64 Content type 'application/x-gzip' length 2200008 bytes (2.1 MB) +#11 12.65 ================================================== +#11 12.75 downloaded 2.1 MB +#11 12.75 +#11 12.75 trying URL 'http://cran.rstudio.com/src/contrib/selectr_0.4-2.tar.gz' +#11 12.87 Content type 'application/x-gzip' length 41371 bytes (40 KB) +#11 12.87 ================================================== +#11 12.89 downloaded 40 KB +#11 12.89 +#11 12.89 trying URL 'http://cran.rstudio.com/src/contrib/stringi_1.8.7.tar.gz' +#11 13.12 Content type 'application/x-gzip' length 11910646 bytes (11.4 MB) +#11 13.17 ================================================== +#11 13.39 downloaded 11.4 MB +#11 13.39 +#11 13.39 trying URL 'http://cran.rstudio.com/src/contrib/repr_1.1.7.tar.gz' +#11 13.53 Content type 'application/x-gzip' length 32736 bytes (31 KB) +#11 13.53 ================================================== +#11 13.54 downloaded 31 KB +#11 13.54 +#11 13.54 trying URL 'http://cran.rstudio.com/src/contrib/evaluate_1.0.5.tar.gz' +#11 13.67 Content type 'application/x-gzip' length 39322 bytes (38 KB) +#11 13.67 ================================================== +#11 13.68 downloaded 38 KB +#11 13.68 +#11 13.68 trying URL 'http://cran.rstudio.com/src/contrib/IRdisplay_1.1.tar.gz' +#11 14.09 Content type 'application/x-gzip' length 8286 bytes +#11 14.09 ================================================== +#11 14.09 downloaded 8286 bytes +#11 14.09 +#11 14.09 trying URL 'http://cran.rstudio.com/src/contrib/pbdZMQ_0.3-14.tar.gz' +#11 14.22 Content type 'application/x-gzip' length 1214077 bytes (1.2 MB) +#11 14.22 ================================================== +#11 14.30 downloaded 1.2 MB +#11 14.30 +#11 14.30 trying URL 'http://cran.rstudio.com/src/contrib/crayon_1.5.3.tar.gz' +#11 14.35 Content type 'application/x-gzip' length 40396 bytes (39 KB) +#11 14.35 ================================================== +#11 14.36 downloaded 39 KB +#11 14.36 +#11 14.36 trying URL 'http://cran.rstudio.com/src/contrib/jsonlite_2.0.0.tar.gz' +#11 14.49 Content type 'application/x-gzip' length 1055849 bytes (1.0 MB) +#11 14.49 ================================================== +#11 14.57 downloaded 1.0 MB +#11 14.57 +#11 14.57 trying URL 'http://cran.rstudio.com/src/contrib/uuid_1.2-1.tar.gz' +#11 14.81 Content type 'application/x-gzip' length 80662 bytes (78 KB) +#11 14.81 ================================================== +#11 14.82 downloaded 78 KB +#11 14.82 +#11 14.83 trying URL 'http://cran.rstudio.com/src/contrib/digest_0.6.37.tar.gz' +#11 15.06 Content type 'application/x-gzip' length 232306 bytes (226 KB) +#11 15.07 ================================================== +#11 15.11 downloaded 226 KB +#11 15.11 +#11 15.11 trying URL 'http://cran.rstudio.com/src/contrib/broom_1.0.10.tar.gz' +#11 15.27 Content type 'application/x-gzip' length 651285 bytes (636 KB) +#11 15.27 ================================================== +#11 15.33 downloaded 636 KB +#11 15.33 +#11 15.33 trying URL 'http://cran.rstudio.com/src/contrib/conflicted_1.2.0.tar.gz' +#11 15.63 Content type 'application/x-gzip' length 17071 bytes (16 KB) +#11 15.63 ================================================== +#11 15.63 downloaded 16 KB +#11 15.63 +#11 15.64 trying URL 'http://cran.rstudio.com/src/contrib/cli_3.6.5.tar.gz' +#11 15.94 Content type 'application/x-gzip' length 640240 bytes (625 KB) +#11 15.94 ================================================== +#11 15.95 downloaded 625 KB +#11 15.95 +#11 15.95 trying URL 'http://cran.rstudio.com/src/contrib/dbplyr_2.5.1.tar.gz' +#11 16.08 Content type 'application/x-gzip' length 553713 bytes (540 KB) +#11 16.08 ================================================== +#11 16.14 downloaded 540 KB +#11 16.14 +#11 16.14 trying URL 'http://cran.rstudio.com/src/contrib/dplyr_1.1.4.tar.gz' +#11 16.38 Content type 'application/x-gzip' length 1207521 bytes (1.2 MB) +#11 16.38 ================================================== +#11 16.46 downloaded 1.2 MB +#11 16.46 +#11 16.46 trying URL 'http://cran.rstudio.com/src/contrib/dtplyr_1.3.2.tar.gz' +#11 16.59 Content type 'application/x-gzip' length 200286 bytes (195 KB) +#11 16.59 ================================================== +#11 16.63 downloaded 195 KB +#11 16.63 +#11 16.63 trying URL 'http://cran.rstudio.com/src/contrib/forcats_1.0.1.tar.gz' +#11 16.87 Content type 'application/x-gzip' length 294628 bytes (287 KB) +#11 16.87 ================================================== +#11 16.91 downloaded 287 KB +#11 16.91 +#11 16.92 trying URL 'http://cran.rstudio.com/src/contrib/ggplot2_4.0.0.tar.gz' +#11 16.96 Content type 'application/x-gzip' length 3810397 bytes (3.6 MB) +#11 16.98 ================================================== +#11 17.11 downloaded 3.6 MB +#11 17.11 +#11 17.11 trying URL 'http://cran.rstudio.com/src/contrib/googledrive_2.1.2.tar.gz' +#11 17.23 Content type 'application/x-gzip' length 1615911 bytes (1.5 MB) +#11 17.23 ================================================== +#11 17.33 downloaded 1.5 MB +#11 17.33 +#11 17.33 trying URL 'http://cran.rstudio.com/src/contrib/googlesheets4_1.1.2.tar.gz' +#11 17.46 Content type 'application/x-gzip' length 231280 bytes (225 KB) +#11 17.46 ================================================== +#11 17.50 downloaded 225 KB +#11 17.50 +#11 17.50 trying URL 'http://cran.rstudio.com/src/contrib/haven_2.5.5.tar.gz' +#11 17.64 Content type 'application/x-gzip' length 316909 bytes (309 KB) +#11 17.64 ================================================== +#11 17.69 downloaded 309 KB +#11 17.69 +#11 17.69 trying URL 'http://cran.rstudio.com/src/contrib/hms_1.1.4.tar.gz' +#11 17.99 Content type 'application/x-gzip' length 44793 bytes (43 KB) +#11 17.99 ================================================== +#11 17.99 downloaded 43 KB +#11 17.99 +#11 17.99 trying URL 'http://cran.rstudio.com/src/contrib/httr_1.4.7.tar.gz' +#11 18.13 Content type 'application/x-gzip' length 118500 bytes (115 KB) +#11 18.13 ================================================== +#11 18.16 downloaded 115 KB +#11 18.16 +#11 18.16 trying URL 'http://cran.rstudio.com/src/contrib/lubridate_1.9.4.tar.gz' +#11 18.29 Content type 'application/x-gzip' length 429341 bytes (419 KB) +#11 18.29 ================================================== +#11 18.35 downloaded 419 KB +#11 18.35 +#11 18.35 trying URL 'http://cran.rstudio.com/src/contrib/magrittr_2.0.4.tar.gz' +#11 18.48 Content type 'application/x-gzip' length 281790 bytes (275 KB) +#11 18.48 ================================================== +#11 18.53 downloaded 275 KB +#11 18.53 +#11 18.53 trying URL 'http://cran.rstudio.com/src/contrib/modelr_0.1.11.tar.gz' +#11 18.78 Content type 'application/x-gzip' length 121480 bytes (118 KB) +#11 18.78 ================================================== +#11 18.79 downloaded 118 KB +#11 18.79 +#11 18.79 trying URL 'http://cran.rstudio.com/src/contrib/pillar_1.11.1.tar.gz' +#11 18.92 Content type 'application/x-gzip' length 409508 bytes (399 KB) +#11 18.92 ================================================== +#11 18.98 downloaded 399 KB +#11 18.98 +#11 18.98 trying URL 'http://cran.rstudio.com/src/contrib/purrr_1.2.0.tar.gz' +#11 19.24 Content type 'application/x-gzip' length 278251 bytes (271 KB) +#11 19.24 ================================================== +#11 19.25 downloaded 271 KB +#11 19.25 +#11 19.26 trying URL 'http://cran.rstudio.com/src/contrib/ragg_1.5.0.tar.gz' +#11 19.39 Content type 'application/x-gzip' length 436949 bytes (426 KB) +#11 19.39 ================================================== +#11 19.45 downloaded 426 KB +#11 19.45 +#11 19.45 trying URL 'http://cran.rstudio.com/src/contrib/readr_2.1.5.tar.gz' +#11 19.58 Content type 'application/x-gzip' length 298065 bytes (291 KB) +#11 19.58 ================================================== +#11 19.62 downloaded 291 KB +#11 19.62 +#11 19.63 trying URL 'http://cran.rstudio.com/src/contrib/readxl_1.4.5.tar.gz' +#11 19.77 Content type 'application/x-gzip' length 1636512 bytes (1.6 MB) +#11 19.77 ================================================== +#11 19.90 downloaded 1.6 MB +#11 19.90 +#11 19.90 trying URL 'http://cran.rstudio.com/src/contrib/reprex_2.1.1.tar.gz' +#11 20.03 Content type 'application/x-gzip' length 1089023 bytes (1.0 MB) +#11 20.03 ================================================== +#11 20.11 downloaded 1.0 MB +#11 20.11 +#11 20.11 trying URL 'http://cran.rstudio.com/src/contrib/rlang_1.1.6.tar.gz' +#11 20.15 Content type 'application/x-gzip' length 767928 bytes (749 KB) +#11 20.15 ================================================== +#11 20.22 downloaded 749 KB +#11 20.22 +#11 20.23 trying URL 'http://cran.rstudio.com/src/contrib/rstudioapi_0.17.1.tar.gz' +#11 20.45 Content type 'application/x-gzip' length 118455 bytes (115 KB) +#11 20.46 ================================================== +#11 20.49 downloaded 115 KB +#11 20.49 +#11 20.49 trying URL 'http://cran.rstudio.com/src/contrib/rvest_1.0.5.tar.gz' +#11 20.72 Content type 'application/x-gzip' length 121721 bytes (118 KB) +#11 20.72 ================================================== +#11 20.75 downloaded 118 KB +#11 20.75 +#11 20.75 trying URL 'http://cran.rstudio.com/src/contrib/stringr_1.6.0.tar.gz' +#11 20.88 Content type 'application/x-gzip' length 195833 bytes (191 KB) +#11 20.88 ================================================== +#11 20.92 downloaded 191 KB +#11 20.92 +#11 20.92 trying URL 'http://cran.rstudio.com/src/contrib/tibble_3.3.0.tar.gz' +#11 21.05 Content type 'application/x-gzip' length 588671 bytes (574 KB) +#11 21.05 ================================================== +#11 21.11 downloaded 574 KB +#11 21.11 +#11 21.11 trying URL 'http://cran.rstudio.com/src/contrib/tidyr_1.3.1.tar.gz' +#11 ... + +#10 [rust-builder 5/6] RUN TEMP=. curl -L https://raw.githubusercontent.com/metabarcoding/obitools4/master/install_obitools.sh | bash -s -- --install-dir /home/jovyan/obitools-build && cp /home/jovyan/obitools-build/bin/* /usr/local/bin +#10 4.111 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 555k 0 555k 0 0 312k 0 --:--:-- 0:00:01 --:--:-- 379k 100 555k 0 555k 0 0 199k 0 --:--:-- 0:00:02 --:--:-- 225k 100 2754k 0 2754k 0 0 828k 0 --:--:-- 0:00:03 --:--:-- 914k 100 6841k 0 6841k 0 0 1585k 0 --:--:-- 0:00:04 --:--:-- 1709k 100 10.7M 0 10.7M 0 0 2066k 0 --:--:-- 0:00:05 --:--:-- 2195k 100 14.8M 0 14.8M 0 0 2413k 0 --:--:-- 0:00:06 --:--:-- 3236k 100 18.8M 0 18.8M 0 0 2638k 0 --:--:-- 0:00:07 --:--:-- 4132k 100 23.2M 0 23.2M 0 0 2860k 0 --:--:-- 0:00:08 --:--:-- 4215k 100 27.2M 0 27.2M 0 0 2989k 0 --:--:-- 0:00:09 --:--:-- 4199k 100 31.6M 0 31.6M 0 0 3138k 0 --:--:-- 0:00:10 --:--:-- 4279k 100 34.7M 0 34.7M 0 0 3139k 0 --:--:-- 0:00:11 --:--:-- 4055k 100 38.0M 0 38.0M 0 0 3160k 0 --:--:-- 0:00:12 --:--:-- 3924k 100 42.1M 0 42.1M 0 0 3242k 0 --:--:-- 0:00:13 --:--:-- 3878k 100 45.7M 0 45.7M 0 0 3274k 0 --:--:-- 0:00:14 --:--:-- 3805k 100 50.1M 0 50.1M 0 0 3351k 0 --:--:-- 0:00:15 --:--:-- 3791k 100 53.5M 0 53.5M 0 0 3359k 0 --:--:-- 0:00:16 --:--:-- 3856k 100 55.2M 0 55.2M 0 0 3268k 0 --:--:-- 0:00:17 --:--:-- 3534k 100 58.0M 0 58.0M 0 0 3244k 0 --:--:-- 0:00:18 --:--:-- 3248k 100 61.0M 0 61.0M 0 0 3237k 0 --:--:-- 0:00:19 --:--:-- 3134k 100 64.7M 0 64.7M 0 0 3263k 0 --:--:-- 0:00:20 --:--:-- 2993k 100 67.0M 0 67.0M 0 0 3220k 0 --:--:-- 0:00:21 --:--:-- 2767k 100 69.8M 0 69.8M 0 0 3204k 0 --:--:-- 0:00:22 --:--:-- 2983k 100 73.1M 0 73.1M 0 0 3211k 0 --:--:-- 0:00:23 --:--:-- 3093k 100 74.4M 0 74.4M 0 0 3137k 0 --:--:-- 0:00:24 --:--:-- 2746k 100 76.7M 0 76.7M 0 0 3105k 0 --:--:-- 0:00:25 --:--:-- 2463k 100 80.0M 0 80.0M 0 0 3112k 0 --:--:-- 0:00:26 --:--:-- 2649k 100 83.4M 0 83.4M 0 0 3129k 0 --:--:-- 0:00:27 --:--:-- 2793k 100 86.5M 0 86.5M 0 0 3130k 0 --:--:-- 0:00:28 --:--:-- 2750k 100 88.1M 0 88.1M 0 0 3076k 0 --:--:-- 0:00:29 --:--:-- 2780k 100 90.8M 0 90.8M 0 0 3067k 0 --:--:-- 0:00:30 --:--:-- 2877k 100 94.8M 0 94.8M 0 0 3099k 0 --:--:-- 0:00:31 --:--:-- 3031k 100 96.9M 0 96.9M 0 0 3071k 0 --:--:-- 0:00:32 --:--:-- 2755k 100 98.8M 0 98.8M 0 0 3036k 0 --:--:-- 0:00:33 --:--:-- 2504k 100 101M 0 101M 0 0 3039k 0 --:--:-- 0:00:34 --:--:-- 2822k 100 105M 0 105M 0 0 3057k 0 --:--:-- 0:00:35 --:--:-- 2991k 100 108M 0 108M 0 0 3064k 0 --:--:-- 0:00:36 --:--:-- 2846k +#10 ... + +#11 [stage-1 3/11] RUN R -e "install.packages(c('IRkernel','tidyverse','vegan','ade4','BiocManager','remotes'), repos='http://cran.rstudio.com/')" && R -e "BiocManager::install('biomformat')" && R -e "remotes::install_github('metabaRfactory/metabaR')" && R -e "IRkernel::installspec(user = FALSE)" && rm -rf /tmp/Rtmp* +#11 21.23 Content type 'application/x-gzip' length 809058 bytes (790 KB) +#11 21.23 ================================================== +#11 21.32 downloaded 790 KB +#11 21.32 +#11 21.32 trying URL 'http://cran.rstudio.com/src/contrib/xml2_1.4.1.tar.gz' +#11 21.57 Content type 'application/x-gzip' length 153629 bytes (150 KB) +#11 21.57 ================================================== +#11 21.58 downloaded 150 KB +#11 21.58 +#11 21.58 trying URL 'http://cran.rstudio.com/src/contrib/permute_0.9-8.tar.gz' +#11 21.71 Content type 'application/x-gzip' length 119505 bytes (116 KB) +#11 21.72 ================================================== +#11 21.74 downloaded 116 KB +#11 21.74 +#11 21.75 trying URL 'http://cran.rstudio.com/src/contrib/pixmap_0.4-14.tar.gz' +#11 21.87 Content type 'application/x-gzip' length 37054 bytes (36 KB) +#11 21.87 ================================================== +#11 21.89 downloaded 36 KB +#11 21.89 +#11 21.89 trying URL 'http://cran.rstudio.com/src/contrib/sp_2.2-0.tar.gz' +#11 22.03 Content type 'application/x-gzip' length 4474033 bytes (4.3 MB) +#11 22.05 ================================================== +#11 22.18 downloaded 4.3 MB +#11 22.18 +#11 22.18 trying URL 'http://cran.rstudio.com/src/contrib/Rcpp_1.1.0.tar.gz' +#11 22.32 Content type 'application/x-gzip' length 3107035 bytes (3.0 MB) +#11 22.33 ================================================== +#11 22.48 downloaded 3.0 MB +#11 22.48 +#11 22.48 trying URL 'http://cran.rstudio.com/src/contrib/RcppArmadillo_15.0.2-2.tar.gz' +#11 22.61 Content type 'application/x-gzip' length 2118381 bytes (2.0 MB) +#11 22.62 ================================================== +#11 22.71 downloaded 2.0 MB +#11 22.71 +#11 22.72 trying URL 'http://cran.rstudio.com/src/contrib/IRkernel_1.3.2.tar.gz' +#11 22.85 Content type 'application/x-gzip' length 45172 bytes (44 KB) +#11 22.85 ================================================== +#11 22.87 downloaded 44 KB +#11 22.87 +#11 22.87 trying URL 'http://cran.rstudio.com/src/contrib/tidyverse_2.0.0.tar.gz' +#11 23.00 Content type 'application/x-gzip' length 704618 bytes (688 KB) +#11 23.00 ================================================== +#11 23.06 downloaded 688 KB +#11 23.06 +#11 23.07 trying URL 'http://cran.rstudio.com/src/contrib/vegan_2.7-2.tar.gz' +#11 23.19 Content type 'application/x-gzip' length 1457126 bytes (1.4 MB) +#11 23.20 ================================================== +#11 23.29 downloaded 1.4 MB +#11 23.29 +#11 23.29 trying URL 'http://cran.rstudio.com/src/contrib/ade4_1.7-23.tar.gz' +#11 23.42 Content type 'application/x-gzip' length 3372316 bytes (3.2 MB) +#11 23.44 ================================================== +#11 23.56 downloaded 3.2 MB +#11 23.56 +#11 23.56 trying URL 'http://cran.rstudio.com/src/contrib/BiocManager_1.30.26.tar.gz' +#11 23.82 Content type 'application/x-gzip' length 594489 bytes (580 KB) +#11 23.82 ================================================== +#11 23.86 downloaded 580 KB +#11 23.86 +#11 23.86 trying URL 'http://cran.rstudio.com/src/contrib/remotes_2.5.0.tar.gz' +#11 23.99 Content type 'application/x-gzip' length 164496 bytes (160 KB) +#11 23.99 ================================================== +#11 24.03 downloaded 160 KB +#11 24.03 +#11 24.14 * installing *source* package ‘sys’ ... +#11 24.14 ** package ‘sys’ successfully unpacked and MD5 sums checked +#11 24.14 ** using staged installation +#11 24.15 ** libs +#11 24.15 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c exec.c -o exec.o +#11 24.25 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 24.28 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o sys.so exec.o init.o -L/usr/lib/R/lib -lR +#11 24.29 installing to /usr/local/lib/R/site-library/00LOCK-sys/00new/sys/libs +#11 24.29 ** R +#11 24.29 ** inst +#11 24.29 ** byte-compile and prepare package for lazy loading +#11 24.39 ** help +#11 24.40 *** installing help indices +#11 24.41 ** building package indices +#11 24.48 ** testing if installed package can be loaded from temporary location +#11 24.55 ** checking absolute paths in shared objects and dynamic libraries +#11 24.55 ** testing if installed package can be loaded from final location +#11 24.61 ** testing if installed package keeps a record of temporary installation path +#11 24.61 * DONE (sys) +#11 24.72 * installing *source* package ‘bit’ ... +#11 24.72 ** package ‘bit’ successfully unpacked and MD5 sums checked +#11 24.72 ** using staged installation +#11 24.73 ** libs +#11 24.73 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c attrutil.c -o attrutil.o +#11 24.75 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bit.c -o bit.o +#11 25.28 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c chunkutil.c -o chunkutil.o +#11 25.30 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c clone.c -o clone.o +#11 25.32 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 25.34 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c integerutil.c -o integerutil.o +#11 25.42 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c merge.c -o merge.o +#11 25.91 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rle.c -o rle.o +#11 25.96 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sort.c -o sort.o +#11 26.01 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o bit.so attrutil.o bit.o chunkutil.o clone.o init.o integerutil.o merge.o rle.o sort.o -L/usr/lib/R/lib -lR +#11 26.02 installing to /usr/local/lib/R/site-library/00LOCK-bit/00new/bit/libs +#11 26.02 ** R +#11 26.03 ** inst +#11 26.03 ** byte-compile and prepare package for lazy loading +#11 26.60 ** help +#11 26.67 *** installing help indices +#11 26.72 ** building package indices +#11 26.83 ** installing vignettes +#11 26.84 ** testing if installed package can be loaded from temporary location +#11 26.91 ** checking absolute paths in shared objects and dynamic libraries +#11 26.91 ** testing if installed package can be loaded from final location +#11 26.99 ** testing if installed package keeps a record of temporary installation path +#11 26.99 * DONE (bit) +#11 27.10 * installing *source* package ‘ps’ ... +#11 27.10 ** package ‘ps’ successfully unpacked and MD5 sums checked +#11 27.10 ** using staged installation +#11 27.18 ** libs +#11 27.18 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wall px.c -o px +#11 27.32 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 27.35 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c api-common.c -o api-common.o +#11 27.38 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c common.c -o common.o +#11 27.40 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c extra.c -o extra.o +#11 27.48 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dummy.c -o dummy.o +#11 27.51 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c error-codes.c -o error-codes.o +#11 27.65 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cleancall.c -o cleancall.o +#11 27.70 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c posix.c -o posix.o +#11 27.86 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c api-posix.c -o api-posix.o +#11 27.98 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c linux.c -o linux.o +#11 28.02 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c api-linux.c -o api-linux.o +#11 28.30 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o ps.so init.o api-common.o common.o extra.o dummy.o error-codes.o cleancall.o posix.o api-posix.o linux.o api-linux.o -L/usr/lib/R/lib -lR +#11 28.31 installing via 'install.libs.R' to /usr/local/lib/R/site-library/00LOCK-ps/00new/ps +#11 28.31 ** R +#11 28.32 ** inst +#11 28.32 ** byte-compile and prepare package for lazy loading +#11 28.86 ** help +#11 28.92 *** installing help indices +#11 28.96 ** building package indices +#11 29.06 ** testing if installed package can be loaded from temporary location +#11 29.13 ** checking absolute paths in shared objects and dynamic libraries +#11 29.14 ** testing if installed package can be loaded from final location +#11 29.22 ** testing if installed package keeps a record of temporary installation path +#11 29.22 * DONE (ps) +#11 29.30 * installing *source* package ‘fastmap’ ... +#11 29.30 ** package ‘fastmap’ successfully unpacked and MD5 sums checked +#11 29.30 ** using staged installation +#11 29.30 ** libs +#11 29.30 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Ilib/ -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fastmap.cpp -o fastmap.o +#11 30.01 gcc -I"/usr/share/R/include" -DNDEBUG -Ilib/ -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 30.03 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o fastmap.so fastmap.o init.o -L/usr/lib/R/lib -lR +#11 30.05 installing to /usr/local/lib/R/site-library/00LOCK-fastmap/00new/fastmap/libs +#11 30.05 ** R +#11 30.05 ** byte-compile and prepare package for lazy loading +#11 30.19 ** help +#11 30.20 *** installing help indices +#11 30.20 ** building package indices +#11 30.28 ** testing if installed package can be loaded from temporary location +#11 30.35 ** checking absolute paths in shared objects and dynamic libraries +#11 30.35 ** testing if installed package can be loaded from final location +#11 30.42 ** testing if installed package keeps a record of temporary installation path +#11 30.42 * DONE (fastmap) +#11 30.53 * installing *source* package ‘farver’ ... +#11 30.53 ** package ‘farver’ successfully unpacked and MD5 sums checked +#11 30.53 ** using staged installation +#11 30.53 ** libs +#11 30.54 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ColorSpace.cpp -o ColorSpace.o +#11 30.66 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Comparison.cpp -o Comparison.o +#11 30.73 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Conversion.cpp -o Conversion.o +#11 30.89 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c encode.cpp -o encode.o +#11 ... + +#10 [rust-builder 5/6] RUN TEMP=. curl -L https://raw.githubusercontent.com/metabarcoding/obitools4/master/install_obitools.sh | bash -s -- --install-dir /home/jovyan/obitools-build && cp /home/jovyan/obitools-build/bin/* /usr/local/bin +#10 4.111 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 555k 0 555k 0 0 312k 0 --:--:-- 0:00:01 --:--:-- 379k 100 555k 0 555k 0 0 199k 0 --:--:-- 0:00:02 --:--:-- 225k 100 2754k 0 2754k 0 0 828k 0 --:--:-- 0:00:03 --:--:-- 914k 100 6841k 0 6841k 0 0 1585k 0 --:--:-- 0:00:04 --:--:-- 1709k 100 10.7M 0 10.7M 0 0 2066k 0 --:--:-- 0:00:05 --:--:-- 2195k 100 14.8M 0 14.8M 0 0 2413k 0 --:--:-- 0:00:06 --:--:-- 3236k 100 18.8M 0 18.8M 0 0 2638k 0 --:--:-- 0:00:07 --:--:-- 4132k 100 23.2M 0 23.2M 0 0 2860k 0 --:--:-- 0:00:08 --:--:-- 4215k 100 27.2M 0 27.2M 0 0 2989k 0 --:--:-- 0:00:09 --:--:-- 4199k 100 31.6M 0 31.6M 0 0 3138k 0 --:--:-- 0:00:10 --:--:-- 4279k 100 34.7M 0 34.7M 0 0 3139k 0 --:--:-- 0:00:11 --:--:-- 4055k 100 38.0M 0 38.0M 0 0 3160k 0 --:--:-- 0:00:12 --:--:-- 3924k 100 42.1M 0 42.1M 0 0 3242k 0 --:--:-- 0:00:13 --:--:-- 3878k 100 45.7M 0 45.7M 0 0 3274k 0 --:--:-- 0:00:14 --:--:-- 3805k 100 50.1M 0 50.1M 0 0 3351k 0 --:--:-- 0:00:15 --:--:-- 3791k 100 53.5M 0 53.5M 0 0 3359k 0 --:--:-- 0:00:16 --:--:-- 3856k 100 55.2M 0 55.2M 0 0 3268k 0 --:--:-- 0:00:17 --:--:-- 3534k 100 58.0M 0 58.0M 0 0 3244k 0 --:--:-- 0:00:18 --:--:-- 3248k 100 61.0M 0 61.0M 0 0 3237k 0 --:--:-- 0:00:19 --:--:-- 3134k 100 64.7M 0 64.7M 0 0 3263k 0 --:--:-- 0:00:20 --:--:-- 2993k 100 67.0M 0 67.0M 0 0 3220k 0 --:--:-- 0:00:21 --:--:-- 2767k 100 69.8M 0 69.8M 0 0 3204k 0 --:--:-- 0:00:22 --:--:-- 2983k 100 73.1M 0 73.1M 0 0 3211k 0 --:--:-- 0:00:23 --:--:-- 3093k 100 74.4M 0 74.4M 0 0 3137k 0 --:--:-- 0:00:24 --:--:-- 2746k 100 76.7M 0 76.7M 0 0 3105k 0 --:--:-- 0:00:25 --:--:-- 2463k 100 80.0M 0 80.0M 0 0 3112k 0 --:--:-- 0:00:26 --:--:-- 2649k 100 83.4M 0 83.4M 0 0 3129k 0 --:--:-- 0:00:27 --:--:-- 2793k 100 86.5M 0 86.5M 0 0 3130k 0 --:--:-- 0:00:28 --:--:-- 2750k 100 88.1M 0 88.1M 0 0 3076k 0 --:--:-- 0:00:29 --:--:-- 2780k 100 90.8M 0 90.8M 0 0 3067k 0 --:--:-- 0:00:30 --:--:-- 2877k 100 94.8M 0 94.8M 0 0 3099k 0 --:--:-- 0:00:31 --:--:-- 3031k 100 96.9M 0 96.9M 0 0 3071k 0 --:--:-- 0:00:32 --:--:-- 2755k 100 98.8M 0 98.8M 0 0 3036k 0 --:--:-- 0:00:33 --:--:-- 2504k 100 101M 0 101M 0 0 3039k 0 --:--:-- 0:00:34 --:--:-- 2822k 100 105M 0 105M 0 0 3057k 0 --:--:-- 0:00:35 --:--:-- 2991k 100 108M 0 108M 0 0 3064k 0 --:--:-- 0:00:36 --:--:-- 2846k 100 111M 0 111M 0 0 3070k 0 --:--:-- 0:00:37 --:--:-- 3066k 100 115M 0 115M 0 0 3084k 0 --:--:-- 0:00:38 --:--:-- 3404k 100 118M 0 118M 0 0 3093k 0 --:--:-- 0:00:39 --:--:-- 3464k 100 122M 0 122M 0 0 3106k 0 --:--:-- 0:00:40 --:--:-- 3455k 100 126M 0 126M 0 0 3139k 0 --:--:-- 0:00:41 --:--:-- 3684k 100 129M 0 129M 0 0 3142k 0 --:--:-- 0:00:42 --:--:-- 3676k 100 133M 0 133M 0 0 3159k 0 --:--:-- 0:00:43 --:--:-- 3736k 100 137M 0 137M 0 0 3173k 0 --:--:-- 0:00:44 --:--:-- 3802k 100 141M 0 141M 0 0 3202k 0 --:--:-- 0:00:45 --:--:-- 3978k 100 145M 0 145M 0 0 3227k 0 --:--:-- 0:00:46 --:--:-- 3954k 100 149M 0 149M 0 0 3231k 0 --:--:-- 0:00:47 --:--:-- 3984k +#10 ... + +#11 [stage-1 3/11] RUN R -e "install.packages(c('IRkernel','tidyverse','vegan','ade4','BiocManager','remotes'), repos='http://cran.rstudio.com/')" && R -e "BiocManager::install('biomformat')" && R -e "remotes::install_github('metabaRfactory/metabaR')" && R -e "IRkernel::installspec(user = FALSE)" && rm -rf /tmp/Rtmp* +#11 32.74 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c farver.cpp -o farver.o +#11 ... + +#10 [rust-builder 5/6] RUN TEMP=. curl -L https://raw.githubusercontent.com/metabarcoding/obitools4/master/install_obitools.sh | bash -s -- --install-dir /home/jovyan/obitools-build && cp /home/jovyan/obitools-build/bin/* /usr/local/bin +#10 4.111 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 555k 0 555k 0 0 312k 0 --:--:-- 0:00:01 --:--:-- 379k 100 555k 0 555k 0 0 199k 0 --:--:-- 0:00:02 --:--:-- 225k 100 2754k 0 2754k 0 0 828k 0 --:--:-- 0:00:03 --:--:-- 914k 100 6841k 0 6841k 0 0 1585k 0 --:--:-- 0:00:04 --:--:-- 1709k 100 10.7M 0 10.7M 0 0 2066k 0 --:--:-- 0:00:05 --:--:-- 2195k 100 14.8M 0 14.8M 0 0 2413k 0 --:--:-- 0:00:06 --:--:-- 3236k 100 18.8M 0 18.8M 0 0 2638k 0 --:--:-- 0:00:07 --:--:-- 4132k 100 23.2M 0 23.2M 0 0 2860k 0 --:--:-- 0:00:08 --:--:-- 4215k 100 27.2M 0 27.2M 0 0 2989k 0 --:--:-- 0:00:09 --:--:-- 4199k 100 31.6M 0 31.6M 0 0 3138k 0 --:--:-- 0:00:10 --:--:-- 4279k 100 34.7M 0 34.7M 0 0 3139k 0 --:--:-- 0:00:11 --:--:-- 4055k 100 38.0M 0 38.0M 0 0 3160k 0 --:--:-- 0:00:12 --:--:-- 3924k 100 42.1M 0 42.1M 0 0 3242k 0 --:--:-- 0:00:13 --:--:-- 3878k 100 45.7M 0 45.7M 0 0 3274k 0 --:--:-- 0:00:14 --:--:-- 3805k 100 50.1M 0 50.1M 0 0 3351k 0 --:--:-- 0:00:15 --:--:-- 3791k 100 53.5M 0 53.5M 0 0 3359k 0 --:--:-- 0:00:16 --:--:-- 3856k 100 55.2M 0 55.2M 0 0 3268k 0 --:--:-- 0:00:17 --:--:-- 3534k 100 58.0M 0 58.0M 0 0 3244k 0 --:--:-- 0:00:18 --:--:-- 3248k 100 61.0M 0 61.0M 0 0 3237k 0 --:--:-- 0:00:19 --:--:-- 3134k 100 64.7M 0 64.7M 0 0 3263k 0 --:--:-- 0:00:20 --:--:-- 2993k 100 67.0M 0 67.0M 0 0 3220k 0 --:--:-- 0:00:21 --:--:-- 2767k 100 69.8M 0 69.8M 0 0 3204k 0 --:--:-- 0:00:22 --:--:-- 2983k 100 73.1M 0 73.1M 0 0 3211k 0 --:--:-- 0:00:23 --:--:-- 3093k 100 74.4M 0 74.4M 0 0 3137k 0 --:--:-- 0:00:24 --:--:-- 2746k 100 76.7M 0 76.7M 0 0 3105k 0 --:--:-- 0:00:25 --:--:-- 2463k 100 80.0M 0 80.0M 0 0 3112k 0 --:--:-- 0:00:26 --:--:-- 2649k 100 83.4M 0 83.4M 0 0 3129k 0 --:--:-- 0:00:27 --:--:-- 2793k 100 86.5M 0 86.5M 0 0 3130k 0 --:--:-- 0:00:28 --:--:-- 2750k 100 88.1M 0 88.1M 0 0 3076k 0 --:--:-- 0:00:29 --:--:-- 2780k 100 90.8M 0 90.8M 0 0 3067k 0 --:--:-- 0:00:30 --:--:-- 2877k 100 94.8M 0 94.8M 0 0 3099k 0 --:--:-- 0:00:31 --:--:-- 3031k 100 96.9M 0 96.9M 0 0 3071k 0 --:--:-- 0:00:32 --:--:-- 2755k 100 98.8M 0 98.8M 0 0 3036k 0 --:--:-- 0:00:33 --:--:-- 2504k 100 101M 0 101M 0 0 3039k 0 --:--:-- 0:00:34 --:--:-- 2822k 100 105M 0 105M 0 0 3057k 0 --:--:-- 0:00:35 --:--:-- 2991k 100 108M 0 108M 0 0 3064k 0 --:--:-- 0:00:36 --:--:-- 2846k 100 111M 0 111M 0 0 3070k 0 --:--:-- 0:00:37 --:--:-- 3066k 100 115M 0 115M 0 0 3084k 0 --:--:-- 0:00:38 --:--:-- 3404k 100 118M 0 118M 0 0 3093k 0 --:--:-- 0:00:39 --:--:-- 3464k 100 122M 0 122M 0 0 3106k 0 --:--:-- 0:00:40 --:--:-- 3455k 100 126M 0 126M 0 0 3139k 0 --:--:-- 0:00:41 --:--:-- 3684k 100 129M 0 129M 0 0 3142k 0 --:--:-- 0:00:42 --:--:-- 3676k 100 133M 0 133M 0 0 3159k 0 --:--:-- 0:00:43 --:--:-- 3736k 100 137M 0 137M 0 0 3173k 0 --:--:-- 0:00:44 --:--:-- 3802k 100 141M 0 141M 0 0 3202k 0 --:--:-- 0:00:45 --:--:-- 3978k 100 145M 0 145M 0 0 3227k 0 --:--:-- 0:00:46 --:--:-- 3954k 100 149M 0 149M 0 0 3231k 0 --:--:-- 0:00:47 --:--:-- 3984k 100 152M 0 152M 0 0 3234k 0 --:--:-- 0:00:48 --:--:-- 3881k 100 155M 0 155M 0 0 3238k 0 --:--:-- 0:00:49 --:--:-- 3816k 100 159M 0 159M 0 0 3240k 0 --:--:-- 0:00:50 --:--:-- 3580k 100 163M 0 163M 0 0 3257k 0 --:--:-- 0:00:51 --:--:-- 3533k 100 167M 0 167M 0 0 3272k 0 --:--:-- 0:00:52 --:--:-- 3660k 100 171M 0 171M 0 0 3286k 0 --:--:-- 0:00:53 --:--:-- 3786k 100 174M 0 174M 0 0 3284k 0 --:--:-- 0:00:54 --:--:-- 3733k +#10 ... + +#11 [stage-1 3/11] RUN R -e "install.packages(c('IRkernel','tidyverse','vegan','ade4','BiocManager','remotes'), repos='http://cran.rstudio.com/')" && R -e "BiocManager::install('biomformat')" && R -e "remotes::install_github('metabaRfactory/metabaR')" && R -e "IRkernel::installspec(user = FALSE)" && rm -rf /tmp/Rtmp* +#11 39.69 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.cpp -o init.o +#11 39.80 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o farver.so ColorSpace.o Comparison.o Conversion.o encode.o farver.o init.o -L/usr/lib/R/lib -lR +#11 39.85 installing to /usr/local/lib/R/site-library/00LOCK-farver/00new/farver/libs +#11 39.85 ** R +#11 39.85 ** byte-compile and prepare package for lazy loading +#11 39.96 ** help +#11 39.97 *** installing help indices +#11 39.98 *** copying figures +#11 39.98 ** building package indices +#11 40.06 ** testing if installed package can be loaded from temporary location +#11 40.13 ** checking absolute paths in shared objects and dynamic libraries +#11 40.13 ** testing if installed package can be loaded from final location +#11 40.20 ** testing if installed package keeps a record of temporary installation path +#11 40.20 * DONE (farver) +#11 40.27 * installing *source* package ‘labeling’ ... +#11 40.28 ** package ‘labeling’ successfully unpacked and MD5 sums checked +#11 40.28 ** using staged installation +#11 40.28 ** R +#11 40.28 ** byte-compile and prepare package for lazy loading +#11 40.48 ** help +#11 40.49 *** installing help indices +#11 40.50 ** building package indices +#11 40.58 ** testing if installed package can be loaded from temporary location +#11 40.64 ** testing if installed package can be loaded from final location +#11 40.71 ** testing if installed package keeps a record of temporary installation path +#11 40.71 * DONE (labeling) +#11 40.79 * installing *source* package ‘RColorBrewer’ ... +#11 40.79 ** package ‘RColorBrewer’ successfully unpacked and MD5 sums checked +#11 40.79 ** using staged installation +#11 40.79 ** R +#11 40.79 ** inst +#11 40.79 ** byte-compile and prepare package for lazy loading +#11 41.04 ** help +#11 41.05 *** installing help indices +#11 41.06 ** building package indices +#11 41.13 ** testing if installed package can be loaded from temporary location +#11 41.20 ** testing if installed package can be loaded from final location +#11 41.27 ** testing if installed package keeps a record of temporary installation path +#11 41.27 * DONE (RColorBrewer) +#11 41.36 * installing *source* package ‘viridisLite’ ... +#11 41.37 ** package ‘viridisLite’ successfully unpacked and MD5 sums checked +#11 41.37 ** using staged installation +#11 41.37 ** R +#11 41.38 ** inst +#11 41.38 ** byte-compile and prepare package for lazy loading +#11 41.47 ** help +#11 41.48 *** installing help indices +#11 41.49 *** copying figures +#11 41.49 ** building package indices +#11 41.56 ** testing if installed package can be loaded from temporary location +#11 41.63 ** testing if installed package can be loaded from final location +#11 41.69 ** testing if installed package keeps a record of temporary installation path +#11 41.69 * DONE (viridisLite) +#11 41.77 * installing *source* package ‘rappdirs’ ... +#11 41.77 ** package ‘rappdirs’ successfully unpacked and MD5 sums checked +#11 41.77 ** using staged installation +#11 41.78 ** libs +#11 41.78 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 41.80 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c win-path.c -o win-path.o +#11 41.82 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o rappdirs.so init.o win-path.o -L/usr/lib/R/lib -lR +#11 41.82 installing to /usr/local/lib/R/site-library/00LOCK-rappdirs/00new/rappdirs/libs +#11 41.82 ** R +#11 41.83 ** byte-compile and prepare package for lazy loading +#11 41.94 ** help +#11 41.94 *** installing help indices +#11 41.95 ** building package indices +#11 42.03 ** testing if installed package can be loaded from temporary location +#11 42.09 ** checking absolute paths in shared objects and dynamic libraries +#11 42.10 ** testing if installed package can be loaded from final location +#11 42.16 ** testing if installed package keeps a record of temporary installation path +#11 42.16 * DONE (rappdirs) +#11 42.23 * installing *source* package ‘rematch’ ... +#11 42.23 ** package ‘rematch’ successfully unpacked and MD5 sums checked +#11 42.23 ** using staged installation +#11 42.24 ** R +#11 42.24 ** byte-compile and prepare package for lazy loading +#11 42.33 ** help +#11 42.34 *** installing help indices +#11 42.34 ** building package indices +#11 42.41 ** testing if installed package can be loaded from temporary location +#11 42.48 ** testing if installed package can be loaded from final location +#11 42.55 ** testing if installed package keeps a record of temporary installation path +#11 42.55 * DONE (rematch) +#11 42.63 * installing *source* package ‘prettyunits’ ... +#11 42.63 ** package ‘prettyunits’ successfully unpacked and MD5 sums checked +#11 42.63 ** using staged installation +#11 42.63 ** R +#11 42.65 ** byte-compile and prepare package for lazy loading +#11 42.84 ** help +#11 42.85 *** installing help indices +#11 42.86 ** building package indices +#11 42.93 ** testing if installed package can be loaded from temporary location +#11 43.00 ** testing if installed package can be loaded from final location +#11 43.10 ** testing if installed package keeps a record of temporary installation path +#11 43.10 * DONE (prettyunits) +#11 43.21 * installing *source* package ‘xfun’ ... +#11 43.22 ** package ‘xfun’ successfully unpacked and MD5 sums checked +#11 43.22 ** using staged installation +#11 43.22 ** libs +#11 43.23 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c base64.c -o base64.o +#11 43.27 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 43.28 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rand_lcg.c -o rand_lcg.o +#11 43.30 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o xfun.so base64.o init.o rand_lcg.o -L/usr/lib/R/lib -lR +#11 43.31 installing to /usr/local/lib/R/site-library/00LOCK-xfun/00new/xfun/libs +#11 43.31 ** R +#11 43.32 ** inst +#11 43.32 ** byte-compile and prepare package for lazy loading +#11 44.14 ** help +#11 44.22 *** installing help indices +#11 44.28 ** building package indices +#11 44.39 ** installing vignettes +#11 44.40 ** testing if installed package can be loaded from temporary location +#11 44.46 ** checking absolute paths in shared objects and dynamic libraries +#11 44.46 ** testing if installed package can be loaded from final location +#11 44.54 ** testing if installed package keeps a record of temporary installation path +#11 44.55 * DONE (xfun) +#11 44.64 * installing *source* package ‘yaml’ ... +#11 44.64 ** package ‘yaml’ successfully unpacked and MD5 sums checked +#11 44.64 ** using staged installation +#11 44.64 ** libs +#11 44.64 gcc -I"/usr/share/R/include" -DNDEBUG -I. -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c api.c -o api.o +#11 44.77 gcc -I"/usr/share/R/include" -DNDEBUG -I. -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dumper.c -o dumper.o +#11 44.82 gcc -I"/usr/share/R/include" -DNDEBUG -I. -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c emitter.c -o emitter.o +#11 45.23 gcc -I"/usr/share/R/include" -DNDEBUG -I. -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c implicit.c -o implicit.o +#11 45.30 gcc -I"/usr/share/R/include" -DNDEBUG -I. -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c loader.c -o loader.o +#11 45.37 gcc -I"/usr/share/R/include" -DNDEBUG -I. -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c parser.c -o parser.o +#11 45.53 gcc -I"/usr/share/R/include" -DNDEBUG -I. -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c r_emit.c -o r_emit.o +#11 45.65 gcc -I"/usr/share/R/include" -DNDEBUG -I. -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c r_ext.c -o r_ext.o +#11 45.70 gcc -I"/usr/share/R/include" -DNDEBUG -I. -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c r_parse.c -o r_parse.o +#11 45.88 gcc -I"/usr/share/R/include" -DNDEBUG -I. -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c reader.c -o reader.o +#11 45.93 gcc -I"/usr/share/R/include" -DNDEBUG -I. -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c scanner.c -o scanner.o +#11 46.48 gcc -I"/usr/share/R/include" -DNDEBUG -I. -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c writer.c -o writer.o +#11 46.50 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o yaml.so api.o dumper.o emitter.o implicit.o loader.o parser.o r_emit.o r_ext.o r_parse.o reader.o scanner.o writer.o -L/usr/lib/R/lib -lR +#11 46.51 installing to /usr/local/lib/R/site-library/00LOCK-yaml/00new/yaml/libs +#11 46.51 ** R +#11 46.51 ** inst +#11 46.52 ** byte-compile and prepare package for lazy loading +#11 46.60 ** help +#11 46.61 *** installing help indices +#11 46.62 ** building package indices +#11 46.69 ** testing if installed package can be loaded from temporary location +#11 46.75 ** checking absolute paths in shared objects and dynamic libraries +#11 46.76 ** testing if installed package can be loaded from final location +#11 46.82 ** testing if installed package keeps a record of temporary installation path +#11 46.82 * DONE (yaml) +#11 46.89 * installing *source* package ‘base64enc’ ... +#11 46.89 ** package ‘base64enc’ successfully unpacked and MD5 sums checked +#11 46.89 ** using staged installation +#11 46.89 ** libs +#11 46.89 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c base64.c -o base64.o +#11 46.94 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c uriencode.c -o uriencode.o +#11 46.97 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8.c -o utf8.o +#11 47.00 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o base64enc.so base64.o uriencode.o utf8.o -L/usr/lib/R/lib -lR +#11 47.01 installing to /usr/local/lib/R/site-library/00LOCK-base64enc/00new/base64enc/libs +#11 47.01 ** R +#11 47.01 ** byte-compile and prepare package for lazy loading +#11 47.10 ** help +#11 47.10 *** installing help indices +#11 47.11 ** building package indices +#11 47.18 ** testing if installed package can be loaded from temporary location +#11 47.24 ** checking absolute paths in shared objects and dynamic libraries +#11 47.24 ** testing if installed package can be loaded from final location +#11 47.31 ** testing if installed package keeps a record of temporary installation path +#11 47.31 * DONE (base64enc) +#11 47.40 * installing *source* package ‘backports’ ... +#11 47.40 ** package ‘backports’ successfully unpacked and MD5 sums checked +#11 47.40 ** using staged installation +#11 47.40 ** libs +#11 47.41 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dotsElt.c -o dotsElt.o +#11 47.42 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dotsLength.c -o dotsLength.o +#11 47.44 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dotsNames.c -o dotsNames.o +#11 47.46 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 47.47 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o backports.so dotsElt.o dotsLength.o dotsNames.o init.o -L/usr/lib/R/lib -lR +#11 47.48 installing to /usr/local/lib/R/site-library/00LOCK-backports/00new/backports/libs +#11 47.48 ** R +#11 47.48 ** byte-compile and prepare package for lazy loading +#11 47.66 ** help +#11 47.68 *** installing help indices +#11 47.70 ** building package indices +#11 47.79 ** testing if installed package can be loaded from temporary location +#11 47.86 ** checking absolute paths in shared objects and dynamic libraries +#11 47.86 ** testing if installed package can be loaded from final location +#11 47.93 ** testing if installed package keeps a record of temporary installation path +#11 47.93 * DONE (backports) +#11 48.03 * installing *source* package ‘generics’ ... +#11 48.03 ** package ‘generics’ successfully unpacked and MD5 sums checked +#11 48.03 ** using staged installation +#11 48.04 ** R +#11 48.04 ** byte-compile and prepare package for lazy loading +#11 48.15 ** help +#11 48.19 *** installing help indices +#11 48.21 ** building package indices +#11 48.30 ** testing if installed package can be loaded from temporary location +#11 48.37 ** testing if installed package can be loaded from final location +#11 48.43 ** testing if installed package keeps a record of temporary installation path +#11 48.43 * DONE (generics) +#11 48.53 * installing *source* package ‘glue’ ... +#11 48.53 ** package ‘glue’ successfully unpacked and MD5 sums checked +#11 48.53 ** using staged installation +#11 48.53 ** libs +#11 48.53 gcc -I"/usr/share/R/include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c glue.c -o glue.o +#11 48.59 gcc -I"/usr/share/R/include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 48.61 gcc -I"/usr/share/R/include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c trim.c -o trim.o +#11 48.64 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o glue.so glue.o init.o trim.o -L/usr/lib/R/lib -lR +#11 48.65 installing to /usr/local/lib/R/site-library/00LOCK-glue/00new/glue/libs +#11 48.65 ** R +#11 48.65 ** inst +#11 48.65 ** byte-compile and prepare package for lazy loading +#11 48.82 ** help +#11 48.84 *** installing help indices +#11 48.85 *** copying figures +#11 48.85 ** building package indices +#11 48.92 ** installing vignettes +#11 48.92 ** testing if installed package can be loaded from temporary location +#11 49.01 ** checking absolute paths in shared objects and dynamic libraries +#11 49.01 ** testing if installed package can be loaded from final location +#11 49.10 ** testing if installed package keeps a record of temporary installation path +#11 49.10 * DONE (glue) +#11 49.25 * installing *source* package ‘DBI’ ... +#11 49.25 ** package ‘DBI’ successfully unpacked and MD5 sums checked +#11 49.25 ** using staged installation +#11 49.26 ** R +#11 49.27 ** inst +#11 49.27 ** byte-compile and prepare package for lazy loading +#11 49.99 ** help +#11 50.16 *** installing help indices +#11 50.23 *** copying figures +#11 50.23 ** building package indices +#11 50.35 ** installing vignettes +#11 ... + +#10 [rust-builder 5/6] RUN TEMP=. curl -L https://raw.githubusercontent.com/metabarcoding/obitools4/master/install_obitools.sh | bash -s -- --install-dir /home/jovyan/obitools-build && cp /home/jovyan/obitools-build/bin/* /usr/local/bin +#10 4.111 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 555k 0 555k 0 0 312k 0 --:--:-- 0:00:01 --:--:-- 379k 100 555k 0 555k 0 0 199k 0 --:--:-- 0:00:02 --:--:-- 225k 100 2754k 0 2754k 0 0 828k 0 --:--:-- 0:00:03 --:--:-- 914k 100 6841k 0 6841k 0 0 1585k 0 --:--:-- 0:00:04 --:--:-- 1709k 100 10.7M 0 10.7M 0 0 2066k 0 --:--:-- 0:00:05 --:--:-- 2195k 100 14.8M 0 14.8M 0 0 2413k 0 --:--:-- 0:00:06 --:--:-- 3236k 100 18.8M 0 18.8M 0 0 2638k 0 --:--:-- 0:00:07 --:--:-- 4132k 100 23.2M 0 23.2M 0 0 2860k 0 --:--:-- 0:00:08 --:--:-- 4215k 100 27.2M 0 27.2M 0 0 2989k 0 --:--:-- 0:00:09 --:--:-- 4199k 100 31.6M 0 31.6M 0 0 3138k 0 --:--:-- 0:00:10 --:--:-- 4279k 100 34.7M 0 34.7M 0 0 3139k 0 --:--:-- 0:00:11 --:--:-- 4055k 100 38.0M 0 38.0M 0 0 3160k 0 --:--:-- 0:00:12 --:--:-- 3924k 100 42.1M 0 42.1M 0 0 3242k 0 --:--:-- 0:00:13 --:--:-- 3878k 100 45.7M 0 45.7M 0 0 3274k 0 --:--:-- 0:00:14 --:--:-- 3805k 100 50.1M 0 50.1M 0 0 3351k 0 --:--:-- 0:00:15 --:--:-- 3791k 100 53.5M 0 53.5M 0 0 3359k 0 --:--:-- 0:00:16 --:--:-- 3856k 100 55.2M 0 55.2M 0 0 3268k 0 --:--:-- 0:00:17 --:--:-- 3534k 100 58.0M 0 58.0M 0 0 3244k 0 --:--:-- 0:00:18 --:--:-- 3248k 100 61.0M 0 61.0M 0 0 3237k 0 --:--:-- 0:00:19 --:--:-- 3134k 100 64.7M 0 64.7M 0 0 3263k 0 --:--:-- 0:00:20 --:--:-- 2993k 100 67.0M 0 67.0M 0 0 3220k 0 --:--:-- 0:00:21 --:--:-- 2767k 100 69.8M 0 69.8M 0 0 3204k 0 --:--:-- 0:00:22 --:--:-- 2983k 100 73.1M 0 73.1M 0 0 3211k 0 --:--:-- 0:00:23 --:--:-- 3093k 100 74.4M 0 74.4M 0 0 3137k 0 --:--:-- 0:00:24 --:--:-- 2746k 100 76.7M 0 76.7M 0 0 3105k 0 --:--:-- 0:00:25 --:--:-- 2463k 100 80.0M 0 80.0M 0 0 3112k 0 --:--:-- 0:00:26 --:--:-- 2649k 100 83.4M 0 83.4M 0 0 3129k 0 --:--:-- 0:00:27 --:--:-- 2793k 100 86.5M 0 86.5M 0 0 3130k 0 --:--:-- 0:00:28 --:--:-- 2750k 100 88.1M 0 88.1M 0 0 3076k 0 --:--:-- 0:00:29 --:--:-- 2780k 100 90.8M 0 90.8M 0 0 3067k 0 --:--:-- 0:00:30 --:--:-- 2877k 100 94.8M 0 94.8M 0 0 3099k 0 --:--:-- 0:00:31 --:--:-- 3031k 100 96.9M 0 96.9M 0 0 3071k 0 --:--:-- 0:00:32 --:--:-- 2755k 100 98.8M 0 98.8M 0 0 3036k 0 --:--:-- 0:00:33 --:--:-- 2504k 100 101M 0 101M 0 0 3039k 0 --:--:-- 0:00:34 --:--:-- 2822k 100 105M 0 105M 0 0 3057k 0 --:--:-- 0:00:35 --:--:-- 2991k 100 108M 0 108M 0 0 3064k 0 --:--:-- 0:00:36 --:--:-- 2846k 100 111M 0 111M 0 0 3070k 0 --:--:-- 0:00:37 --:--:-- 3066k 100 115M 0 115M 0 0 3084k 0 --:--:-- 0:00:38 --:--:-- 3404k 100 118M 0 118M 0 0 3093k 0 --:--:-- 0:00:39 --:--:-- 3464k 100 122M 0 122M 0 0 3106k 0 --:--:-- 0:00:40 --:--:-- 3455k 100 126M 0 126M 0 0 3139k 0 --:--:-- 0:00:41 --:--:-- 3684k 100 129M 0 129M 0 0 3142k 0 --:--:-- 0:00:42 --:--:-- 3676k 100 133M 0 133M 0 0 3159k 0 --:--:-- 0:00:43 --:--:-- 3736k 100 137M 0 137M 0 0 3173k 0 --:--:-- 0:00:44 --:--:-- 3802k 100 141M 0 141M 0 0 3202k 0 --:--:-- 0:00:45 --:--:-- 3978k 100 145M 0 145M 0 0 3227k 0 --:--:-- 0:00:46 --:--:-- 3954k 100 149M 0 149M 0 0 3231k 0 --:--:-- 0:00:47 --:--:-- 3984k 100 152M 0 152M 0 0 3234k 0 --:--:-- 0:00:48 --:--:-- 3881k 100 155M 0 155M 0 0 3238k 0 --:--:-- 0:00:49 --:--:-- 3816k 100 159M 0 159M 0 0 3240k 0 --:--:-- 0:00:50 --:--:-- 3580k 100 163M 0 163M 0 0 3257k 0 --:--:-- 0:00:51 --:--:-- 3533k 100 167M 0 167M 0 0 3272k 0 --:--:-- 0:00:52 --:--:-- 3660k 100 171M 0 171M 0 0 3286k 0 --:--:-- 0:00:53 --:--:-- 3786k 100 174M 0 174M 0 0 3284k 0 --:--:-- 0:00:54 --:--:-- 3733k 100 178M 0 178M 0 0 3297k 0 --:--:-- 0:00:55 --:--:-- 3876k 100 181M 0 181M 0 0 3305k 0 --:--:-- 0:00:56 --:--:-- 3798k 100 184M 0 184M 0 0 3296k 0 --:--:-- 0:00:57 --:--:-- 3545k 100 186M 0 186M 0 0 3282k 0 --:--:-- 0:00:58 --:--:-- 3238k 100 189M 0 189M 0 0 3275k 0 --:--:-- 0:00:59 --:--:-- 3177k 100 192M 0 192M 0 0 3274k 0 --:--:-- 0:01:00 --:--:-- 3019k 100 195M 0 195M 0 0 3271k 0 --:--:-- 0:01:01 --:--:-- 2887k 100 198M 0 198M 0 0 3269k 0 --:--:-- 0:01:02 --:--:-- 2964k 100 202M 0 202M 0 0 3280k 0 --:--:-- 0:01:03 --:--:-- 3258k 100 207M 0 207M 0 0 3306k 0 --:--:-- 0:01:04 --:--:-- 3679k 100 212M 0 212M 0 0 3330k 0 --:--:-- 0:01:05 --:--:-- 4006k +#10 ... + +#11 [stage-1 3/11] RUN R -e "install.packages(c('IRkernel','tidyverse','vegan','ade4','BiocManager','remotes'), repos='http://cran.rstudio.com/')" && R -e "BiocManager::install('biomformat')" && R -e "remotes::install_github('metabaRfactory/metabaR')" && R -e "IRkernel::installspec(user = FALSE)" && rm -rf /tmp/Rtmp* +#11 50.36 ** testing if installed package can be loaded from temporary location +#11 50.45 ** testing if installed package can be loaded from final location +#11 50.57 ** testing if installed package keeps a record of temporary installation path +#11 50.57 * DONE (DBI) +#11 50.65 * installing *source* package ‘R6’ ... +#11 50.65 ** package ‘R6’ successfully unpacked and MD5 sums checked +#11 50.65 ** using staged installation +#11 50.66 ** R +#11 50.66 ** byte-compile and prepare package for lazy loading +#11 50.85 ** help +#11 50.86 *** installing help indices +#11 50.87 *** copying figures +#11 50.87 ** building package indices +#11 50.94 ** testing if installed package can be loaded from temporary location +#11 51.00 ** testing if installed package can be loaded from final location +#11 51.07 ** testing if installed package keeps a record of temporary installation path +#11 51.07 * DONE (R6) +#11 51.17 * installing *source* package ‘withr’ ... +#11 51.17 ** package ‘withr’ successfully unpacked and MD5 sums checked +#11 51.17 ** using staged installation +#11 51.18 ** R +#11 51.18 ** inst +#11 51.18 ** byte-compile and prepare package for lazy loading +#11 51.42 ** help +#11 51.44 *** installing help indices +#11 51.46 *** copying figures +#11 51.46 ** building package indices +#11 51.55 ** installing vignettes +#11 51.55 ** testing if installed package can be loaded from temporary location +#11 51.62 ** testing if installed package can be loaded from final location +#11 51.69 ** testing if installed package keeps a record of temporary installation path +#11 51.69 * DONE (withr) +#11 52.05 * installing *source* package ‘data.table’ ... +#11 52.09 ** package ‘data.table’ successfully unpacked and MD5 sums checked +#11 52.09 ** using staged installation +#11 52.10 gcc 11.4.0 +#11 52.11 zlib 1.2.11 is available ok +#11 52.11 * checking if R installation supports OpenMP without any extra hints... yes +#11 52.17 ** libs +#11 52.17 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c assign.c -o assign.o +#11 52.79 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c between.c -o between.o +#11 52.91 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bmerge.c -o bmerge.o +#11 53.16 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c chmatch.c -o chmatch.o +#11 53.22 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cj.c -o cj.o +#11 53.28 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c coalesce.c -o coalesce.o +#11 53.36 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dogroups.c -o dogroups.o +#11 53.55 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fastmean.c -o fastmean.o +#11 53.59 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fcast.c -o fcast.o +#11 53.64 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fifelse.c -o fifelse.o +#11 53.78 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fmelt.c -o fmelt.o +#11 54.01 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c forder.c -o forder.o +#11 54.49 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c frank.c -o frank.o +#11 54.57 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fread.c -o fread.o +#11 55.29 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c freadR.c -o freadR.o +#11 55.46 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c froll.c -o froll.o +#11 55.60 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c frollR.c -o frollR.o +#11 55.69 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c frolladaptive.c -o frolladaptive.o +#11 55.82 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fsort.c -o fsort.o +#11 55.90 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fwrite.c -o fwrite.o +#11 56.11 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fwriteR.c -o fwriteR.o +#11 56.19 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gsumm.c -o gsumm.o +#11 56.79 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c idatetime.c -o idatetime.o +#11 56.83 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ijoin.c -o ijoin.o +#11 57.01 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 57.06 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c inrange.c -o inrange.o +#11 57.08 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c nafill.c -o nafill.o +#11 57.16 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c negate.c -o negate.o +#11 57.18 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c nqrecreateindices.c -o nqrecreateindices.o +#11 57.20 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c openmp-utils.c -o openmp-utils.o +#11 57.25 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c programming.c -o programming.o +#11 57.28 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c quickselect.c -o quickselect.o +#11 57.32 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rbindlist.c -o rbindlist.o +#11 57.55 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c reorder.c -o reorder.o +#11 57.61 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c shift.c -o shift.o +#11 57.70 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c snprintf.c -o snprintf.o +#11 57.76 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c subset.c -o subset.o +#11 57.91 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c transpose.c -o transpose.o +#11 57.95 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c types.c -o types.o +#11 57.99 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c uniqlist.c -o uniqlist.o +#11 58.13 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils.c -o utils.o +#11 58.23 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vecseq.c -o vecseq.o +#11 58.26 gcc -I"/usr/share/R/include" -DNDEBUG -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c wrappers.c -o wrappers.o +#11 58.31 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o data.table.so assign.o between.o bmerge.o chmatch.o cj.o coalesce.o dogroups.o fastmean.o fcast.o fifelse.o fmelt.o forder.o frank.o fread.o freadR.o froll.o frollR.o frolladaptive.o fsort.o fwrite.o fwriteR.o gsumm.o idatetime.o ijoin.o init.o inrange.o nafill.o negate.o nqrecreateindices.o openmp-utils.o programming.o quickselect.o rbindlist.o reorder.o shift.o snprintf.o subset.o transpose.o types.o uniqlist.o utils.o vecseq.o wrappers.o -fopenmp -lz -L/usr/lib/R/lib -lR +#11 58.33 PKG_CFLAGS = -fopenmp +#11 58.33 PKG_LIBS = -fopenmp -lz +#11 58.33 if [ "data.table.so" != "data_table.so" ]; then mv data.table.so data_table.so; fi +#11 58.33 if [ "" != "Windows_NT" ] && [ `uname -s` = 'Darwin' ]; then install_name_tool -id data_table.so data_table.so; fi +#11 58.33 installing to /usr/local/lib/R/site-library/00LOCK-data.table/00new/data.table/libs +#11 58.33 ** R +#11 58.35 ** inst +#11 58.36 ** byte-compile and prepare package for lazy loading +#11 ... + +#10 [rust-builder 5/6] RUN TEMP=. curl -L https://raw.githubusercontent.com/metabarcoding/obitools4/master/install_obitools.sh | bash -s -- --install-dir /home/jovyan/obitools-build && cp /home/jovyan/obitools-build/bin/* /usr/local/bin +#10 4.111 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 555k 0 555k 0 0 312k 0 --:--:-- 0:00:01 --:--:-- 379k 100 555k 0 555k 0 0 199k 0 --:--:-- 0:00:02 --:--:-- 225k 100 2754k 0 2754k 0 0 828k 0 --:--:-- 0:00:03 --:--:-- 914k 100 6841k 0 6841k 0 0 1585k 0 --:--:-- 0:00:04 --:--:-- 1709k 100 10.7M 0 10.7M 0 0 2066k 0 --:--:-- 0:00:05 --:--:-- 2195k 100 14.8M 0 14.8M 0 0 2413k 0 --:--:-- 0:00:06 --:--:-- 3236k 100 18.8M 0 18.8M 0 0 2638k 0 --:--:-- 0:00:07 --:--:-- 4132k 100 23.2M 0 23.2M 0 0 2860k 0 --:--:-- 0:00:08 --:--:-- 4215k 100 27.2M 0 27.2M 0 0 2989k 0 --:--:-- 0:00:09 --:--:-- 4199k 100 31.6M 0 31.6M 0 0 3138k 0 --:--:-- 0:00:10 --:--:-- 4279k 100 34.7M 0 34.7M 0 0 3139k 0 --:--:-- 0:00:11 --:--:-- 4055k 100 38.0M 0 38.0M 0 0 3160k 0 --:--:-- 0:00:12 --:--:-- 3924k 100 42.1M 0 42.1M 0 0 3242k 0 --:--:-- 0:00:13 --:--:-- 3878k 100 45.7M 0 45.7M 0 0 3274k 0 --:--:-- 0:00:14 --:--:-- 3805k 100 50.1M 0 50.1M 0 0 3351k 0 --:--:-- 0:00:15 --:--:-- 3791k 100 53.5M 0 53.5M 0 0 3359k 0 --:--:-- 0:00:16 --:--:-- 3856k 100 55.2M 0 55.2M 0 0 3268k 0 --:--:-- 0:00:17 --:--:-- 3534k 100 58.0M 0 58.0M 0 0 3244k 0 --:--:-- 0:00:18 --:--:-- 3248k 100 61.0M 0 61.0M 0 0 3237k 0 --:--:-- 0:00:19 --:--:-- 3134k 100 64.7M 0 64.7M 0 0 3263k 0 --:--:-- 0:00:20 --:--:-- 2993k 100 67.0M 0 67.0M 0 0 3220k 0 --:--:-- 0:00:21 --:--:-- 2767k 100 69.8M 0 69.8M 0 0 3204k 0 --:--:-- 0:00:22 --:--:-- 2983k 100 73.1M 0 73.1M 0 0 3211k 0 --:--:-- 0:00:23 --:--:-- 3093k 100 74.4M 0 74.4M 0 0 3137k 0 --:--:-- 0:00:24 --:--:-- 2746k 100 76.7M 0 76.7M 0 0 3105k 0 --:--:-- 0:00:25 --:--:-- 2463k 100 80.0M 0 80.0M 0 0 3112k 0 --:--:-- 0:00:26 --:--:-- 2649k 100 83.4M 0 83.4M 0 0 3129k 0 --:--:-- 0:00:27 --:--:-- 2793k 100 86.5M 0 86.5M 0 0 3130k 0 --:--:-- 0:00:28 --:--:-- 2750k 100 88.1M 0 88.1M 0 0 3076k 0 --:--:-- 0:00:29 --:--:-- 2780k 100 90.8M 0 90.8M 0 0 3067k 0 --:--:-- 0:00:30 --:--:-- 2877k 100 94.8M 0 94.8M 0 0 3099k 0 --:--:-- 0:00:31 --:--:-- 3031k 100 96.9M 0 96.9M 0 0 3071k 0 --:--:-- 0:00:32 --:--:-- 2755k 100 98.8M 0 98.8M 0 0 3036k 0 --:--:-- 0:00:33 --:--:-- 2504k 100 101M 0 101M 0 0 3039k 0 --:--:-- 0:00:34 --:--:-- 2822k 100 105M 0 105M 0 0 3057k 0 --:--:-- 0:00:35 --:--:-- 2991k 100 108M 0 108M 0 0 3064k 0 --:--:-- 0:00:36 --:--:-- 2846k 100 111M 0 111M 0 0 3070k 0 --:--:-- 0:00:37 --:--:-- 3066k 100 115M 0 115M 0 0 3084k 0 --:--:-- 0:00:38 --:--:-- 3404k 100 118M 0 118M 0 0 3093k 0 --:--:-- 0:00:39 --:--:-- 3464k 100 122M 0 122M 0 0 3106k 0 --:--:-- 0:00:40 --:--:-- 3455k 100 126M 0 126M 0 0 3139k 0 --:--:-- 0:00:41 --:--:-- 3684k 100 129M 0 129M 0 0 3142k 0 --:--:-- 0:00:42 --:--:-- 3676k 100 133M 0 133M 0 0 3159k 0 --:--:-- 0:00:43 --:--:-- 3736k 100 137M 0 137M 0 0 3173k 0 --:--:-- 0:00:44 --:--:-- 3802k 100 141M 0 141M 0 0 3202k 0 --:--:-- 0:00:45 --:--:-- 3978k 100 145M 0 145M 0 0 3227k 0 --:--:-- 0:00:46 --:--:-- 3954k 100 149M 0 149M 0 0 3231k 0 --:--:-- 0:00:47 --:--:-- 3984k 100 152M 0 152M 0 0 3234k 0 --:--:-- 0:00:48 --:--:-- 3881k 100 155M 0 155M 0 0 3238k 0 --:--:-- 0:00:49 --:--:-- 3816k 100 159M 0 159M 0 0 3240k 0 --:--:-- 0:00:50 --:--:-- 3580k 100 163M 0 163M 0 0 3257k 0 --:--:-- 0:00:51 --:--:-- 3533k 100 167M 0 167M 0 0 3272k 0 --:--:-- 0:00:52 --:--:-- 3660k 100 171M 0 171M 0 0 3286k 0 --:--:-- 0:00:53 --:--:-- 3786k 100 174M 0 174M 0 0 3284k 0 --:--:-- 0:00:54 --:--:-- 3733k 100 178M 0 178M 0 0 3297k 0 --:--:-- 0:00:55 --:--:-- 3876k 100 181M 0 181M 0 0 3305k 0 --:--:-- 0:00:56 --:--:-- 3798k 100 184M 0 184M 0 0 3296k 0 --:--:-- 0:00:57 --:--:-- 3545k 100 186M 0 186M 0 0 3282k 0 --:--:-- 0:00:58 --:--:-- 3238k 100 189M 0 189M 0 0 3275k 0 --:--:-- 0:00:59 --:--:-- 3177k 100 192M 0 192M 0 0 3274k 0 --:--:-- 0:01:00 --:--:-- 3019k 100 195M 0 195M 0 0 3271k 0 --:--:-- 0:01:01 --:--:-- 2887k 100 198M 0 198M 0 0 3269k 0 --:--:-- 0:01:02 --:--:-- 2964k 100 202M 0 202M 0 0 3280k 0 --:--:-- 0:01:03 --:--:-- 3258k 100 207M 0 207M 0 0 3306k 0 --:--:-- 0:01:04 --:--:-- 3679k 100 212M 0 212M 0 0 3330k 0 --:--:-- 0:01:05 --:--:-- 4006k 100 216M 0 216M 0 0 3349k 0 --:--:-- 0:01:06 --:--:-- 4315k 100 221M 0 221M 0 0 3366k 0 --:--:-- 0:01:07 --:--:-- 4570k 100 224M 0 224M 0 0 3365k 0 --:--:-- 0:01:08 --:--:-- 4443k 100 227M 0 227M 0 0 3360k 0 --:--:-- 0:01:09 --:--:-- 4059k 100 231M 0 231M 0 0 3372k 0 --:--:-- 0:01:10 --:--:-- 3924k 100 235M 0 235M 0 0 3381k 0 --:--:-- 0:01:11 --:--:-- 3800k 100 238M 0 238M 0 0 3377k 0 --:--:-- 0:01:12 --:--:-- 3524k 100 241M 0 241M 0 0 3378k 0 --:--:-- 0:01:13 --:--:-- 3562k 100 245M 0 245M 0 0 3377k 0 --:--:-- 0:01:14 --:--:-- 3604k 100 249M 0 249M 0 0 3395k 0 --:--:-- 0:01:15 --:--:-- 3710k 100 250M 0 250M 0 0 3398k 0 --:--:-- 0:01:15 --:--:-- 3691k +#10 79.23 Archive: master.zip +#10 79.23 432da366e299d29aeb630739385e3b60309d0fe3 +#10 79.23 creating: obitools4-master/ +#10 79.23 creating: obitools4-master/.github/ +#10 79.23 creating: obitools4-master/.github/workflows/ +#10 79.23 inflating: obitools4-master/.github/workflows/obitest.yml +#10 79.23 inflating: obitools4-master/.gitignore +#10 79.23 inflating: obitools4-master/.gitlab-ci.yml +#10 79.23 inflating: obitools4-master/LICENCE-CECILL-2.1.txt +#10 79.23 inflating: obitools4-master/Makefile +#10 79.23 inflating: obitools4-master/README.md +#10 79.23 inflating: obitools4-master/Release-notes.md +#10 79.23 creating: obitools4-master/cmd/ +#10 79.23 creating: obitools4-master/cmd/obitools/ +#10 79.23 creating: obitools4-master/cmd/obitools/obiannotate/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obiannotate/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obiclean/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obiclean/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obicleandb/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obicleandb/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obicomplement/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obicomplement/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obiconsensus/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obiconsensus/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obiconvert/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obiconvert/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obicount/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obicount/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obicsv/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obicsv/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obidemerge/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obidemerge/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obidistribute/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obidistribute/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obigrep/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obigrep/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obijoin/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obijoin/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obikmermatch/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obikmermatch/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obikmersimcount/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obikmersimcount/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obilandmark/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obilandmark/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obimatrix/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obimatrix/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obimicrosat/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obimicrosat/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obimultiplex/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obimultiplex/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obipairing/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obipairing/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obipcr/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obipcr/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obireffamidx/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obireffamidx/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obirefidx/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obirefidx/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obiscript/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obiscript/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obisplit/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obisplit/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obisummary/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obisummary/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obitag/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obitag/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obitagpcr/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obitagpcr/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obitaxonomy/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obitaxonomy/main.go +#10 79.23 creating: obitools4-master/cmd/obitools/obiuniq/ +#10 79.23 inflating: obitools4-master/cmd/obitools/obiuniq/main.go +#10 79.23 creating: obitools4-master/cmd/test/ +#10 79.23 inflating: obitools4-master/cmd/test/main.go +#10 79.23 inflating: obitools4-master/devnotes.md +#10 79.23 creating: obitools4-master/doc/ +#10 79.23 extracting: obitools4-master/doc/.gitignore +#10 79.23 inflating: obitools4-master/doc/Makefile +#10 79.23 creating: obitools4-master/doc/book/ +#10 79.23 extracting: obitools4-master/doc/book/.gitignore +#10 79.23 creating: obitools4-master/doc/book/.ipynb_checkpoints/ +#10 79.23 inflating: obitools4-master/doc/book/.ipynb_checkpoints/Untitled-checkpoint.ipynb +#10 79.23 inflating: obitools4-master/doc/book/Makefile +#10 79.23 inflating: obitools4-master/doc/book/OBITools-V4.tex +#10 79.23 inflating: obitools4-master/doc/book/Probabilitymetrics.png +#10 79.23 inflating: obitools4-master/doc/book/Untitled.ipynb +#10 79.23 creating: obitools4-master/doc/book/_freeze/ +#10 79.23 creating: obitools4-master/doc/book/_freeze/comm_computation/ +#10 79.23 creating: obitools4-master/doc/book/_freeze/comm_computation/execute-results/ +#10 79.23 inflating: obitools4-master/doc/book/_freeze/comm_computation/execute-results/epub.json +#10 79.23 inflating: obitools4-master/doc/book/_freeze/comm_computation/execute-results/html.json +#10 79.23 inflating: obitools4-master/doc/book/_freeze/comm_computation/execute-results/tex.json +#10 79.23 creating: obitools4-master/doc/book/_freeze/comm_computation/figure-epub/ +#10 79.23 inflating: obitools4-master/doc/book/_freeze/comm_computation/figure-epub/unnamed-chunk-1-1.png +#10 79.23 creating: obitools4-master/doc/book/_freeze/comm_computation/figure-html/ +#10 79.23 inflating: obitools4-master/doc/book/_freeze/comm_computation/figure-html/unnamed-chunk-1-1.png +#10 79.23 creating: obitools4-master/doc/book/_freeze/comm_computation/figure-pdf/ +#10 79.23 inflating: obitools4-master/doc/book/_freeze/comm_computation/figure-pdf/unnamed-chunk-1-1.pdf +#10 79.24 creating: obitools4-master/doc/book/_freeze/commands/ +#10 79.24 creating: obitools4-master/doc/book/_freeze/commands/execute-results/ +#10 79.24 inflating: obitools4-master/doc/book/_freeze/commands/execute-results/epub.json +#10 79.24 inflating: obitools4-master/doc/book/_freeze/commands/execute-results/html.json +#10 79.24 inflating: obitools4-master/doc/book/_freeze/commands/execute-results/tex.json +#10 79.24 creating: obitools4-master/doc/book/_freeze/commands/figure-epub/ +#10 79.24 inflating: obitools4-master/doc/book/_freeze/commands/figure-epub/unnamed-chunk-1-1.png +#10 79.24 creating: obitools4-master/doc/book/_freeze/commands/figure-html/ +#10 79.24 inflating: obitools4-master/doc/book/_freeze/commands/figure-html/unnamed-chunk-1-1.png +#10 79.24 creating: obitools4-master/doc/book/_freeze/commands/figure-pdf/ +#10 79.24 inflating: obitools4-master/doc/book/_freeze/commands/figure-pdf/unnamed-chunk-1-1.pdf +#10 79.24 creating: obitools4-master/doc/book/_freeze/formats/ +#10 79.24 creating: obitools4-master/doc/book/_freeze/formats/execute-results/ +#10 79.24 inflating: obitools4-master/doc/book/_freeze/formats/execute-results/epub.json +#10 79.24 inflating: obitools4-master/doc/book/_freeze/formats/execute-results/html.json +#10 79.24 inflating: obitools4-master/doc/book/_freeze/formats/execute-results/tex.json +#10 79.24 creating: obitools4-master/doc/book/_freeze/index/ +#10 79.24 creating: obitools4-master/doc/book/_freeze/index/execute-results/ +#10 79.24 inflating: obitools4-master/doc/book/_freeze/index/execute-results/epub.json +#10 79.24 inflating: obitools4-master/doc/book/_freeze/index/execute-results/html.json +#10 79.24 inflating: obitools4-master/doc/book/_freeze/index/execute-results/tex.json +#10 79.24 creating: obitools4-master/doc/book/_freeze/installation/ +#10 79.24 creating: obitools4-master/doc/book/_freeze/installation/execute-results/ +#10 79.24 inflating: obitools4-master/doc/book/_freeze/installation/execute-results/epub.json +#10 79.24 inflating: obitools4-master/doc/book/_freeze/installation/execute-results/html.json +#10 79.24 inflating: obitools4-master/doc/book/_freeze/installation/execute-results/tex.json +#10 79.24 creating: obitools4-master/doc/book/_freeze/site_libs/ +#10 79.24 creating: obitools4-master/doc/book/_freeze/site_libs/clipboard/ +#10 79.24 inflating: obitools4-master/doc/book/_freeze/site_libs/clipboard/clipboard.min.js +#10 79.24 creating: obitools4-master/doc/book/_freeze/tutorial/ +#10 79.24 creating: obitools4-master/doc/book/_freeze/tutorial/execute-results/ +#10 79.24 inflating: obitools4-master/doc/book/_freeze/tutorial/execute-results/epub.json +#10 79.24 inflating: obitools4-master/doc/book/_freeze/tutorial/execute-results/html.json +#10 79.24 inflating: obitools4-master/doc/book/_freeze/tutorial/execute-results/tex.json +#10 79.24 creating: obitools4-master/doc/book/_freeze/tutorial/figure-epub/ +#10 79.24 inflating: obitools4-master/doc/book/_freeze/tutorial/figure-epub/unnamed-chunk-10-1.png +#10 79.24 inflating: obitools4-master/doc/book/_freeze/tutorial/figure-epub/unnamed-chunk-9-1.png +#10 79.24 creating: obitools4-master/doc/book/_freeze/tutorial/figure-html/ +#10 79.24 inflating: obitools4-master/doc/book/_freeze/tutorial/figure-html/unnamed-chunk-10-1.png +#10 79.24 inflating: obitools4-master/doc/book/_freeze/tutorial/figure-html/unnamed-chunk-9-1.png +#10 79.24 creating: obitools4-master/doc/book/_freeze/tutorial/figure-pdf/ +#10 79.24 inflating: obitools4-master/doc/book/_freeze/tutorial/figure-pdf/unnamed-chunk-10-1.pdf +#10 79.24 inflating: obitools4-master/doc/book/_freeze/tutorial/figure-pdf/unnamed-chunk-9-1.pdf +#10 79.24 inflating: obitools4-master/doc/book/_quarto.yml +#10 79.24 inflating: obitools4-master/doc/book/annexes.qmd +#10 79.24 inflating: obitools4-master/doc/book/comm_annotation.qmd +#10 79.24 inflating: obitools4-master/doc/book/comm_computation.qmd +#10 79.24 inflating: obitools4-master/doc/book/comm_metabarcode_design.qmd +#10 79.24 inflating: obitools4-master/doc/book/comm_reformat.qmd +#10 79.24 inflating: obitools4-master/doc/book/comm_sampling.qmd +#10 79.24 inflating: obitools4-master/doc/book/comm_utilities.qmd +#10 79.24 extracting: obitools4-master/doc/book/commands.qmd +#10 79.24 creating: obitools4-master/doc/book/commands_files/ +#10 79.24 creating: obitools4-master/doc/book/commands_files/figure-epub/ +#10 79.24 inflating: obitools4-master/doc/book/commands_files/figure-epub/unnamed-chunk-1-1.png +#10 79.24 creating: obitools4-master/doc/book/commands_files/figure-html/ +#10 79.24 inflating: obitools4-master/doc/book/commands_files/figure-html/unnamed-chunk-1-1.png +#10 79.24 inflating: obitools4-master/doc/book/common_options.qmd +#10 79.24 extracting: obitools4-master/doc/book/epub.css +#10 79.24 inflating: obitools4-master/doc/book/expressions.qmd +#10 79.24 inflating: obitools4-master/doc/book/formats.qmd +#10 79.24 inflating: obitools4-master/doc/book/index.qmd +#10 79.24 inflating: obitools4-master/doc/book/installation.qmd +#10 79.24 inflating: obitools4-master/doc/book/intro.qmd +#10 79.24 inflating: obitools4-master/doc/book/inupt.qmd +#10 79.24 inflating: obitools4-master/doc/book/library.qmd +#10 79.24 inflating: obitools4-master/doc/book/output.qmd +#10 79.24 inflating: obitools4-master/doc/book/references.qmd +#10 79.24 inflating: obitools4-master/doc/book/summary.qmd +#10 79.24 inflating: obitools4-master/doc/book/tutorial.qmd +#10 79.24 creating: obitools4-master/doc/book/tutorial_files/ +#10 79.24 creating: obitools4-master/doc/book/tutorial_files/figure-epub/ +#10 79.24 inflating: obitools4-master/doc/book/tutorial_files/figure-epub/unnamed-chunk-10-1.png +#10 79.24 inflating: obitools4-master/doc/book/tutorial_files/figure-epub/unnamed-chunk-9-1.png +#10 79.24 creating: obitools4-master/doc/book/tutorial_files/figure-html/ +#10 79.24 inflating: obitools4-master/doc/book/tutorial_files/figure-html/unnamed-chunk-10-1.png +#10 79.24 inflating: obitools4-master/doc/book/tutorial_files/figure-html/unnamed-chunk-9-1.png +#10 79.24 creating: obitools4-master/doc/book/wolf_data/ +#10 79.24 inflating: obitools4-master/doc/book/wolf_data/download_gb.sh +#10 79.24 inflating: obitools4-master/doc/book/wolf_data/download_gb_order.sh +#10 79.24 inflating: obitools4-master/doc/book/wolf_data/sort_gb_order.sh +#10 79.24 inflating: obitools4-master/doc/book/wolf_data/taxdump.tar.gz +#10 ... + +#11 [stage-1 3/11] RUN R -e "install.packages(c('IRkernel','tidyverse','vegan','ade4','BiocManager','remotes'), repos='http://cran.rstudio.com/')" && R -e "BiocManager::install('biomformat')" && R -e "remotes::install_github('metabaRfactory/metabaR')" && R -e "IRkernel::installspec(user = FALSE)" && rm -rf /tmp/Rtmp* +#11 60.52 ** help +#11 60.66 *** installing help indices +#11 60.73 ** building package indices +#11 60.86 ** installing vignettes +#11 60.86 ** testing if installed package can be loaded from temporary location +#11 60.95 ** checking absolute paths in shared objects and dynamic libraries +#11 60.96 ** testing if installed package can be loaded from final location +#11 61.20 ** testing if installed package keeps a record of temporary installation path +#11 61.20 * DONE (data.table) +#11 61.32 * installing *source* package ‘isoband’ ... +#11 61.32 ** package ‘isoband’ successfully unpacked and MD5 sums checked +#11 61.32 ** using staged installation +#11 61.33 ** libs +#11 61.33 g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c clip-lines.cpp -o clip-lines.o +#11 61.56 g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.cpp -o init.o +#11 61.60 g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c isoband.cpp -o isoband.o +#11 62.27 g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c polygon.cpp -o polygon.o +#11 62.39 g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c separate-polygons.cpp -o separate-polygons.o +#11 62.83 g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c test-clip-lines.cpp -o test-clip-lines.o +#11 62.83 g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c test-runner.cpp -o test-runner.o +#11 62.84 g++ -std=gnu++11 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c test-separate-polygons.cpp -o test-separate-polygons.o +#11 62.84 g++ -std=gnu++11 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o isoband.so clip-lines.o init.o isoband.o polygon.o separate-polygons.o test-clip-lines.o test-runner.o test-separate-polygons.o -L/usr/lib/R/lib -lR +#11 62.87 installing to /usr/local/lib/R/site-library/00LOCK-isoband/00new/isoband/libs +#11 62.87 ** R +#11 62.87 ** inst +#11 62.87 ** byte-compile and prepare package for lazy loading +#11 63.04 ** help +#11 63.06 *** installing help indices +#11 63.07 *** copying figures +#11 63.07 ** building package indices +#11 63.14 ** installing vignettes +#11 63.15 ** testing if installed package can be loaded from temporary location +#11 63.22 ** checking absolute paths in shared objects and dynamic libraries +#11 63.22 ** testing if installed package can be loaded from final location +#11 63.29 ** testing if installed package keeps a record of temporary installation path +#11 63.29 * DONE (isoband) +#11 63.40 * installing *source* package ‘S7’ ... +#11 63.40 ** package ‘S7’ successfully unpacked and MD5 sums checked +#11 63.40 ** using staged installation +#11 63.41 ** libs +#11 63.41 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 63.43 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c method-dispatch.c -o method-dispatch.o +#11 63.48 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c prop.c -o prop.o +#11 63.55 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o S7.so init.o method-dispatch.o prop.o -L/usr/lib/R/lib -lR +#11 63.55 installing to /usr/local/lib/R/site-library/00LOCK-S7/00new/S7/libs +#11 63.55 ** R +#11 63.56 ** inst +#11 63.56 ** byte-compile and prepare package for lazy loading +#11 64.05 ** help +#11 64.08 *** installing help indices +#11 64.10 ** building package indices +#11 64.18 ** installing vignettes +#11 64.19 ** testing if installed package can be loaded from temporary location +#11 64.26 ** checking absolute paths in shared objects and dynamic libraries +#11 64.27 ** testing if installed package can be loaded from final location +#11 64.35 ** testing if installed package keeps a record of temporary installation path +#11 64.35 * DONE (S7) +#11 64.48 * installing *source* package ‘curl’ ... +#11 64.48 ** package ‘curl’ successfully unpacked and MD5 sums checked +#11 64.48 ** using staged installation +#11 64.49 Found pkg-config cflags and libs! +#11 64.51 Using PKG_CFLAGS=-I/usr/include/aarch64-linux-gnu +#11 64.51 Using PKG_LIBS=-lcurl +#11 64.53 ** libs +#11 64.53 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c callbacks.c -o callbacks.o +#11 64.57 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c curl.c -o curl.o +#11 64.63 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c download.c -o download.o +#11 64.67 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dryrun.c -o dryrun.o +#11 64.70 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c escape.c -o escape.o +#11 64.72 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fetch.c -o fetch.o +#11 64.77 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c findport.c -o findport.o +#11 64.80 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c form.c -o form.o +#11 64.83 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c getdate.c -o getdate.o +#11 64.85 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c handle.c -o handle.o +#11 65.08 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ieproxy.c -o ieproxy.o +#11 65.10 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 65.13 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c interrupt.c -o interrupt.o +#11 65.16 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c multi.c -o multi.o +#11 65.25 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c nslookup.c -o nslookup.o +#11 65.27 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c options.c -o options.o +#11 65.30 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c reflist.c -o reflist.o +#11 65.33 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c split.c -o split.o +#11 65.34 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ssl.c -o ssl.o +#11 65.36 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c typechecking.c -o typechecking.o +#11 65.38 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c urlparser.c -o urlparser.o +#11 65.43 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils.c -o utils.o +#11 65.48 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c version.c -o version.o +#11 65.51 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c winidn.c -o winidn.o +#11 65.52 gcc -I"/usr/share/R/include" -DNDEBUG -I/usr/include/aarch64-linux-gnu -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c writer.c -o writer.o +#11 65.55 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o curl.so callbacks.o curl.o download.o dryrun.o escape.o fetch.o findport.o form.o getdate.o handle.o ieproxy.o init.o interrupt.o multi.o nslookup.o options.o reflist.o split.o ssl.o typechecking.o urlparser.o utils.o version.o winidn.o writer.o -lcurl -L/usr/lib/R/lib -lR +#11 65.56 installing to /usr/local/lib/R/site-library/00LOCK-curl/00new/curl/libs +#11 65.56 ** R +#11 65.57 ** inst +#11 65.57 ** byte-compile and prepare package for lazy loading +#11 65.85 ** help +#11 65.88 *** installing help indices +#11 65.90 ** building package indices +#11 66.01 ** installing vignettes +#11 66.01 ** testing if installed package can be loaded from temporary location +#11 66.10 ** checking absolute paths in shared objects and dynamic libraries +#11 66.12 ** testing if installed package can be loaded from final location +#11 66.24 ** testing if installed package keeps a record of temporary installation path +#11 66.25 * DONE (curl) +#11 ... + +#10 [rust-builder 5/6] RUN TEMP=. curl -L https://raw.githubusercontent.com/metabarcoding/obitools4/master/install_obitools.sh | bash -s -- --install-dir /home/jovyan/obitools-build && cp /home/jovyan/obitools-build/bin/* /usr/local/bin +#10 79.24 inflating: obitools4-master/doc/book/wolf_data/taxdump.tar.gz +#10 79.57 inflating: obitools4-master/doc/book/wolf_data/wolf_diet_ngsfilter.csv +#10 79.57 inflating: obitools4-master/doc/book/wolf_data/wolf_diet_ngsfilter.txt +#10 79.57 extracting: obitools4-master/doc/book/wolf_diet.tgz +#10 79.78 creating: obitools4-master/doc/build/ +#10 79.78 creating: obitools4-master/doc/build/_book/ +#10 79.78 inflating: obitools4-master/doc/build/_book/OBITools-V4.epub +#10 79.79 inflating: obitools4-master/doc/build/_book/OBITools-V4.pdf +#10 79.79 inflating: obitools4-master/doc/build/_book/Probabilitymetrics.png +#10 79.79 inflating: obitools4-master/doc/build/_book/annexes.html +#10 79.79 inflating: obitools4-master/doc/build/_book/comm_annotation.html +#10 79.79 inflating: obitools4-master/doc/build/_book/comm_computation.html +#10 79.79 creating: obitools4-master/doc/build/_book/comm_computation_files/ +#10 79.79 creating: obitools4-master/doc/build/_book/comm_computation_files/figure-epub/ +#10 79.79 inflating: obitools4-master/doc/build/_book/comm_computation_files/figure-epub/unnamed-chunk-1-1.png +#10 79.79 creating: obitools4-master/doc/build/_book/comm_computation_files/figure-html/ +#10 79.79 inflating: obitools4-master/doc/build/_book/comm_computation_files/figure-html/unnamed-chunk-1-1.png +#10 79.79 creating: obitools4-master/doc/build/_book/comm_computation_files/figure-pdf/ +#10 79.79 inflating: obitools4-master/doc/build/_book/comm_computation_files/figure-pdf/unnamed-chunk-1-1.pdf +#10 79.79 inflating: obitools4-master/doc/build/_book/comm_metabarcode_design.html +#10 79.79 inflating: obitools4-master/doc/build/_book/comm_reformat.html +#10 79.79 inflating: obitools4-master/doc/build/_book/comm_sampling.html +#10 79.79 inflating: obitools4-master/doc/build/_book/comm_utilities.html +#10 79.79 inflating: obitools4-master/doc/build/_book/commands.html +#10 79.79 creating: obitools4-master/doc/build/_book/commands_files/ +#10 79.79 creating: obitools4-master/doc/build/_book/commands_files/figure-epub/ +#10 79.79 inflating: obitools4-master/doc/build/_book/commands_files/figure-epub/unnamed-chunk-1-1.png +#10 79.79 creating: obitools4-master/doc/build/_book/commands_files/figure-html/ +#10 79.79 inflating: obitools4-master/doc/build/_book/commands_files/figure-html/unnamed-chunk-1-1.png +#10 79.79 creating: obitools4-master/doc/build/_book/commands_files/figure-pdf/ +#10 79.79 inflating: obitools4-master/doc/build/_book/commands_files/figure-pdf/unnamed-chunk-1-1.pdf +#10 79.79 inflating: obitools4-master/doc/build/_book/common_options.html +#10 79.79 inflating: obitools4-master/doc/build/_book/expressions.html +#10 79.79 inflating: obitools4-master/doc/build/_book/formats.html +#10 79.79 inflating: obitools4-master/doc/build/_book/index.html +#10 79.79 inflating: obitools4-master/doc/build/_book/installation.html +#10 79.79 inflating: obitools4-master/doc/build/_book/intro.html +#10 79.79 inflating: obitools4-master/doc/build/_book/inupt.html +#10 79.79 inflating: obitools4-master/doc/build/_book/library.html +#10 79.79 inflating: obitools4-master/doc/build/_book/output.html +#10 79.79 inflating: obitools4-master/doc/build/_book/references.html +#10 79.79 inflating: obitools4-master/doc/build/_book/search.json +#10 79.79 creating: obitools4-master/doc/build/_book/site_libs/ +#10 79.79 creating: obitools4-master/doc/build/_book/site_libs/clipboard/ +#10 79.79 inflating: obitools4-master/doc/build/_book/site_libs/clipboard/clipboard.min.js +#10 79.79 inflating: obitools4-master/doc/build/_book/tutorial.html +#10 79.79 creating: obitools4-master/doc/build/_book/tutorial_files/ +#10 79.79 creating: obitools4-master/doc/build/_book/tutorial_files/figure-epub/ +#10 79.79 inflating: obitools4-master/doc/build/_book/tutorial_files/figure-epub/unnamed-chunk-10-1.png +#10 79.79 inflating: obitools4-master/doc/build/_book/tutorial_files/figure-epub/unnamed-chunk-9-1.png +#10 79.79 creating: obitools4-master/doc/build/_book/tutorial_files/figure-html/ +#10 79.79 inflating: obitools4-master/doc/build/_book/tutorial_files/figure-html/unnamed-chunk-10-1.png +#10 79.79 inflating: obitools4-master/doc/build/_book/tutorial_files/figure-html/unnamed-chunk-9-1.png +#10 79.79 creating: obitools4-master/doc/build/_book/tutorial_files/figure-pdf/ +#10 79.79 inflating: obitools4-master/doc/build/_book/tutorial_files/figure-pdf/unnamed-chunk-10-1.pdf +#10 79.79 inflating: obitools4-master/doc/build/_book/tutorial_files/figure-pdf/unnamed-chunk-9-1.pdf +#10 79.79 inflating: obitools4-master/doc/build/_book/utilities.html +#10 79.79 extracting: obitools4-master/doc/build/_book/wolf_diet.tgz +#10 80.01 creating: obitools4-master/doc/build/_man/ +#10 80.01 creating: obitools4-master/doc/build/_man/man1/ +#10 80.01 inflating: obitools4-master/doc/build/_man/man1/obigrep.man +#10 80.01 creating: obitools4-master/doc/commands_files/ +#10 80.01 creating: obitools4-master/doc/commands_files/figure-epub/ +#10 80.01 inflating: obitools4-master/doc/commands_files/figure-epub/unnamed-chunk-1-1.png +#10 80.01 creating: obitools4-master/doc/commands_files/figure-pdf/ +#10 80.01 inflating: obitools4-master/doc/commands_files/figure-pdf/unnamed-chunk-1-1.pdf +#10 80.01 inflating: obitools4-master/doc/cover.png +#10 80.01 creating: obitools4-master/doc/lib/ +#10 80.01 inflating: obitools4-master/doc/lib/book.bib +#10 80.01 creating: obitools4-master/doc/lib/descriptions/ +#10 80.01 inflating: obitools4-master/doc/lib/descriptions/_obigrep.qmd +#10 80.01 creating: obitools4-master/doc/lib/options/ +#10 80.01 inflating: obitools4-master/doc/lib/options/_input.qmd +#10 80.01 inflating: obitools4-master/doc/lib/options/_output.qmd +#10 80.01 inflating: obitools4-master/doc/lib/options/_system.qmd +#10 80.01 creating: obitools4-master/doc/lib/options/input/ +#10 80.01 inflating: obitools4-master/doc/lib/options/input/_ecopcr.qmd +#10 80.01 inflating: obitools4-master/doc/lib/options/input/_embl.qmd +#10 80.01 inflating: obitools4-master/doc/lib/options/input/_genbank.qmd +#10 80.01 creating: obitools4-master/doc/lib/options/output/ +#10 80.01 inflating: obitools4-master/doc/lib/options/output/_compress.qmd +#10 80.01 inflating: obitools4-master/doc/lib/options/output/_out.qmd +#10 80.01 creating: obitools4-master/doc/lib/options/selection/ +#10 80.01 inflating: obitools4-master/doc/lib/options/selection/_max-count.qmd +#10 80.01 inflating: obitools4-master/doc/lib/options/selection/_max-length.qmd +#10 80.01 inflating: obitools4-master/doc/lib/options/selection/_min-count.qmd +#10 80.01 inflating: obitools4-master/doc/lib/options/selection/_min-length.qmd +#10 80.01 inflating: obitools4-master/doc/lib/options/selection/_sequence.qmd +#10 80.01 creating: obitools4-master/doc/lib/options/system/ +#10 80.01 extracting: obitools4-master/doc/lib/options/system/_debug.qmd +#10 80.01 extracting: obitools4-master/doc/lib/options/system/_help.qmd +#10 80.01 inflating: obitools4-master/doc/lib/options/system/_max-cpu.qmd +#10 80.01 extracting: obitools4-master/doc/lib/options/system/_no-progressbar.qmd +#10 80.01 extracting: obitools4-master/doc/lib/options/system/_workers.qmd +#10 80.01 creating: obitools4-master/doc/man/ +#10 80.01 inflating: obitools4-master/doc/man/Makefile +#10 80.01 inflating: obitools4-master/doc/man/obigrep.qmd +#10 80.01 inflating: obitools4-master/doc/man/test.md +#10 80.01 creating: obitools4-master/ecoprimers/ +#10 80.01 creating: obitools4-master/git-hooks/ +#10 80.02 inflating: obitools4-master/git-hooks/pre-push +#10 80.02 inflating: obitools4-master/go.mod +#10 80.02 inflating: obitools4-master/go.sum +#10 80.02 extracting: obitools4-master/go.work +#10 80.02 inflating: obitools4-master/go.work.sum +#10 80.02 inflating: obitools4-master/install_obitools.sh +#10 80.02 creating: obitools4-master/obitests/ +#10 80.02 creating: obitools4-master/obitests/obitools/ +#10 80.02 creating: obitools4-master/obitests/obitools/obiannotate/ +#10 80.02 inflating: obitools4-master/obitests/obitools/obiannotate/test.sh +#10 80.02 creating: obitools4-master/obitests/obitools/obiclean/ +#10 80.02 inflating: obitools4-master/obitests/obitools/obiclean/test.sh +#10 80.02 creating: obitools4-master/obitests/obitools/obicleandb/ +#10 80.02 inflating: obitools4-master/obitests/obitools/obicleandb/test.sh +#10 80.02 creating: obitools4-master/obitests/obitools/obicomplement/ +#10 80.02 inflating: obitools4-master/obitests/obitools/obicomplement/test.sh +#10 80.02 creating: obitools4-master/obitests/obitools/obiconsensus/ +#10 80.02 inflating: obitools4-master/obitests/obitools/obiconsensus/test.sh +#10 80.02 creating: obitools4-master/obitests/obitools/obiconvert/ +#10 80.02 inflating: obitools4-master/obitests/obitools/obiconvert/gbpln1088.4Mb.fasta.gz +#10 80.02 inflating: obitools4-master/obitests/obitools/obiconvert/test.sh +#10 80.02 creating: obitools4-master/obitests/obitools/obicount/ +#10 80.02 inflating: obitools4-master/obitests/obitools/obicount/test.sh +#10 80.02 extracting: obitools4-master/obitests/obitools/obicount/wolf_F.csv.gz +#10 80.02 extracting: obitools4-master/obitests/obitools/obicount/wolf_F.fasta.gz +#10 80.03 extracting: obitools4-master/obitests/obitools/obicount/wolf_F.fastq.gz +#10 80.03 creating: obitools4-master/obitests/obitools/obicsv/ +#10 80.03 inflating: obitools4-master/obitests/obitools/obicsv/test.sh +#10 80.03 creating: obitools4-master/obitests/obitools/obidemerge/ +#10 80.03 inflating: obitools4-master/obitests/obitools/obidemerge/test.sh +#10 80.03 creating: obitools4-master/obitests/obitools/obidistribute/ +#10 80.03 inflating: obitools4-master/obitests/obitools/obidistribute/test.sh +#10 80.03 creating: obitools4-master/obitests/obitools/obigrep/ +#10 80.03 inflating: obitools4-master/obitests/obitools/obigrep/test.sh +#10 80.03 creating: obitools4-master/obitests/obitools/obijoin/ +#10 80.03 inflating: obitools4-master/obitests/obitools/obijoin/test.sh +#10 80.03 creating: obitools4-master/obitests/obitools/obikmermatch/ +#10 80.03 inflating: obitools4-master/obitests/obitools/obikmermatch/test.sh +#10 80.03 creating: obitools4-master/obitests/obitools/obikmersimcount/ +#10 80.03 inflating: obitools4-master/obitests/obitools/obikmersimcount/test.sh +#10 80.03 creating: obitools4-master/obitests/obitools/obilandmark/ +#10 80.03 inflating: obitools4-master/obitests/obitools/obilandmark/test.sh +#10 80.03 creating: obitools4-master/obitests/obitools/obimatrix/ +#10 80.03 inflating: obitools4-master/obitests/obitools/obimatrix/test.sh +#10 80.03 creating: obitools4-master/obitests/obitools/obimicrosat/ +#10 80.03 inflating: obitools4-master/obitests/obitools/obimicrosat/test.sh +#10 80.03 creating: obitools4-master/obitests/obitools/obimultiplex/ +#10 80.03 inflating: obitools4-master/obitests/obitools/obimultiplex/test.sh +#10 80.03 creating: obitools4-master/obitests/obitools/obipairing/ +#10 80.03 inflating: obitools4-master/obitests/obitools/obipairing/test.sh +#10 80.03 extracting: obitools4-master/obitests/obitools/obipairing/wolf_F.fastq.gz +#10 80.04 extracting: obitools4-master/obitests/obitools/obipairing/wolf_R.fastq.gz +#10 80.05 extracting: obitools4-master/obitests/obitools/obipairing/wolf_paired_alignment.csv.gz +#10 80.05 extracting: obitools4-master/obitests/obitools/obipairing/wolf_paired_join.csv.gz +#10 80.05 creating: obitools4-master/obitests/obitools/obipcr/ +#10 80.05 inflating: obitools4-master/obitests/obitools/obipcr/test.sh +#10 80.05 creating: obitools4-master/obitests/obitools/obirefidx/ +#10 80.05 inflating: obitools4-master/obitests/obitools/obirefidx/test.sh +#10 80.05 creating: obitools4-master/obitests/obitools/obiscript/ +#10 80.05 inflating: obitools4-master/obitests/obitools/obiscript/test.sh +#10 80.05 creating: obitools4-master/obitests/obitools/obisplit/ +#10 80.05 inflating: obitools4-master/obitests/obitools/obisplit/test.sh +#10 80.05 creating: obitools4-master/obitests/obitools/obisummary/ +#10 80.05 inflating: obitools4-master/obitests/obitools/obisummary/some_uniq_seq.fasta +#10 80.05 inflating: obitools4-master/obitests/obitools/obisummary/some_uniq_seq.json +#10 80.05 inflating: obitools4-master/obitests/obitools/obisummary/some_uniq_seq.yaml +#10 80.05 inflating: obitools4-master/obitests/obitools/obisummary/test.sh +#10 80.05 creating: obitools4-master/obitests/obitools/obitag/ +#10 80.05 inflating: obitools4-master/obitests/obitools/obitag/test.sh +#10 80.05 creating: obitools4-master/obitests/obitools/obitagpcr/ +#10 80.05 inflating: obitools4-master/obitests/obitools/obitagpcr/test.sh +#10 80.05 creating: obitools4-master/obitests/obitools/obitaxonomy/ +#10 80.05 inflating: obitools4-master/obitests/obitools/obitaxonomy/test.sh +#10 80.05 creating: obitools4-master/obitests/obitools/obiuniq/ +#10 80.05 inflating: obitools4-master/obitests/obitools/obiuniq/test.sh +#10 80.05 creating: obitools4-master/obitools4/ +#10 80.05 inflating: obitools4-master/obitools4/Dockerfile +#10 80.05 creating: obitools4-master/pkg/ +#10 80.05 creating: obitools4-master/pkg/obialign/ +#10 80.05 inflating: obitools4-master/pkg/obialign/alignment.go +#10 80.05 inflating: obitools4-master/pkg/obialign/backtracking.go +#10 80.05 inflating: obitools4-master/pkg/obialign/dnamatrix.go +#10 80.05 inflating: obitools4-master/pkg/obialign/fastlcs.go +#10 80.05 inflating: obitools4-master/pkg/obialign/fastlcsegf.go +#10 80.05 inflating: obitools4-master/pkg/obialign/fourbitsencode.go +#10 80.05 inflating: obitools4-master/pkg/obialign/is_d0_or_d1.go +#10 80.05 inflating: obitools4-master/pkg/obialign/locatepattern.go +#10 80.05 inflating: obitools4-master/pkg/obialign/pairedendalign.go +#10 80.06 inflating: obitools4-master/pkg/obialign/readalign.go +#10 80.06 creating: obitools4-master/pkg/obiapat/ +#10 80.06 creating: obitools4-master/pkg/obiapat/abiapat/ +#10 80.06 creating: obitools4-master/pkg/obiapat/abiapat/CODES/ +#10 80.06 inflating: obitools4-master/pkg/obiapat/abiapat/CODES/dft_code.h +#10 80.06 inflating: obitools4-master/pkg/obiapat/abiapat/CODES/dna_code.h +#10 80.06 inflating: obitools4-master/pkg/obiapat/abiapat/CODES/prot_code.h +#10 80.06 inflating: obitools4-master/pkg/obiapat/abiapat/Makefile +#10 80.06 inflating: obitools4-master/pkg/obiapat/apat.h +#10 80.06 inflating: obitools4-master/pkg/obiapat/apat_mem.h +#10 80.06 inflating: obitools4-master/pkg/obiapat/apat_parse.c +#10 80.06 inflating: obitools4-master/pkg/obiapat/apat_search.c +#10 80.06 inflating: obitools4-master/pkg/obiapat/ecoMalloc.c +#10 80.06 inflating: obitools4-master/pkg/obiapat/libstki.c +#10 80.06 inflating: obitools4-master/pkg/obiapat/libstki.h +#10 80.06 inflating: obitools4-master/pkg/obiapat/obiapat.c +#10 80.06 inflating: obitools4-master/pkg/obiapat/obiapat.h +#10 80.06 inflating: obitools4-master/pkg/obiapat/pattern.go +#10 80.06 inflating: obitools4-master/pkg/obiapat/pattern_test.go +#10 80.06 inflating: obitools4-master/pkg/obiapat/pcr.go +#10 80.06 inflating: obitools4-master/pkg/obiapat/predicat.go +#10 80.06 creating: obitools4-master/pkg/obichunk/ +#10 80.06 inflating: obitools4-master/pkg/obichunk/chunk.go +#10 80.06 inflating: obitools4-master/pkg/obichunk/chunk_on_disk.go +#10 80.06 inflating: obitools4-master/pkg/obichunk/chunks_on_memory.go +#10 80.06 inflating: obitools4-master/pkg/obichunk/options.go +#10 80.06 inflating: obitools4-master/pkg/obichunk/subchunks.go +#10 80.06 inflating: obitools4-master/pkg/obichunk/unique.go +#10 80.06 creating: obitools4-master/pkg/obicorazick/ +#10 80.06 inflating: obitools4-master/pkg/obicorazick/worker.go +#10 80.06 creating: obitools4-master/pkg/obidefault/ +#10 80.06 inflating: obitools4-master/pkg/obidefault/batch.go +#10 80.06 inflating: obitools4-master/pkg/obidefault/compressed.go +#10 80.06 inflating: obitools4-master/pkg/obidefault/logger.go +#10 80.06 inflating: obitools4-master/pkg/obidefault/quality.go +#10 80.06 inflating: obitools4-master/pkg/obidefault/taxonomy.go +#10 80.06 inflating: obitools4-master/pkg/obidefault/workers.go +#10 80.06 creating: obitools4-master/pkg/obiformats/ +#10 80.06 inflating: obitools4-master/pkg/obiformats/batch_of_files_reader.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/batch_reader_type.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/csv_read.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/csv_writer.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/csviterator.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/csvtaxdump_read.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/dispatcher.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/ecopcr_read.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/embl_read.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/empty_file.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/fastaseq_read.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/fastqseq_read.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/fastqseq_write_generic.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/fastseq_header.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/fastseq_interface.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/fastseq_json_header.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/fastseq_obi_header.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/fastseq_read.c +#10 80.06 inflating: obitools4-master/pkg/obiformats/fastseq_read.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/fastseq_read.h +#10 80.06 inflating: obitools4-master/pkg/obiformats/fastseq_write_fasta.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/fastseq_write_fastq.go +#10 80.06 extracting: obitools4-master/pkg/obiformats/fastseq_write_with_index.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/file_chunk_read.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/file_chunk_write.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/genbank_read.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/json_writer.go +#10 80.06 creating: obitools4-master/pkg/obiformats/kseq/ +#10 80.06 inflating: obitools4-master/pkg/obiformats/kseq/Makefile +#10 80.06 inflating: obitools4-master/pkg/obiformats/kseq/kseq.h +#10 80.06 inflating: obitools4-master/pkg/obiformats/kseq/kseq_test +#10 80.06 inflating: obitools4-master/pkg/obiformats/kseq/kseq_test.c +#10 80.06 inflating: obitools4-master/pkg/obiformats/kseq/test.seq +#10 80.06 inflating: obitools4-master/pkg/obiformats/ncbitaxdump_read.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/ncbitaxdump_readtar.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/newick_write.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/ngsfilter_read.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/options.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/taxonomy_read.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/universal_read.go +#10 80.06 inflating: obitools4-master/pkg/obiformats/universal_write.go +#10 80.06 creating: obitools4-master/pkg/obifp/ +#10 80.06 inflating: obitools4-master/pkg/obifp/uint128.go +#10 80.06 inflating: obitools4-master/pkg/obifp/uint128_test.go +#10 80.06 inflating: obitools4-master/pkg/obifp/uint256.go +#10 80.06 inflating: obitools4-master/pkg/obifp/uint64.go +#10 80.06 inflating: obitools4-master/pkg/obifp/unint.go +#10 80.06 creating: obitools4-master/pkg/obigraph/ +#10 80.06 inflating: obitools4-master/pkg/obigraph/graph.go +#10 80.06 inflating: obitools4-master/pkg/obigraph/graphbuffer.go +#10 80.06 creating: obitools4-master/pkg/obiiter/ +#10 80.06 inflating: obitools4-master/pkg/obiiter/batch.go +#10 80.06 inflating: obitools4-master/pkg/obiiter/batchiterator.go +#10 80.06 inflating: obitools4-master/pkg/obiiter/distribute.go +#10 80.06 inflating: obitools4-master/pkg/obiiter/extract_taxonomy.go +#10 80.06 inflating: obitools4-master/pkg/obiiter/fragment.go +#10 80.06 inflating: obitools4-master/pkg/obiiter/limitmemory.go +#10 80.06 inflating: obitools4-master/pkg/obiiter/merge.go +#10 80.06 inflating: obitools4-master/pkg/obiiter/numbering.go +#10 80.06 inflating: obitools4-master/pkg/obiiter/paired.go +#10 80.06 inflating: obitools4-master/pkg/obiiter/pipe.go +#10 80.06 inflating: obitools4-master/pkg/obiiter/sequence_workers.go +#10 80.06 inflating: obitools4-master/pkg/obiiter/speed.go +#10 80.06 inflating: obitools4-master/pkg/obiiter/workers.go +#10 80.06 creating: obitools4-master/pkg/obiitercsv/ +#10 80.06 inflating: obitools4-master/pkg/obiitercsv/csv.go +#10 80.06 creating: obitools4-master/pkg/obikmer/ +#10 80.06 inflating: obitools4-master/pkg/obikmer/counting.go +#10 80.06 inflating: obitools4-master/pkg/obikmer/debruijn.go +#10 80.06 inflating: obitools4-master/pkg/obikmer/encodefourmer.go +#10 80.06 inflating: obitools4-master/pkg/obikmer/kmermap.go +#10 80.06 creating: obitools4-master/pkg/obilog/ +#10 80.06 inflating: obitools4-master/pkg/obilog/warning.go +#10 80.06 creating: obitools4-master/pkg/obilua/ +#10 80.06 inflating: obitools4-master/pkg/obilua/lua.go +#10 80.06 inflating: obitools4-master/pkg/obilua/lua_obicontext.go +#10 80.06 inflating: obitools4-master/pkg/obilua/lua_push_interface.go +#10 80.06 inflating: obitools4-master/pkg/obilua/lua_table.go +#10 80.06 inflating: obitools4-master/pkg/obilua/mutex.go +#10 80.06 inflating: obitools4-master/pkg/obilua/obilib.go +#10 80.06 inflating: obitools4-master/pkg/obilua/obiseq.go +#10 80.06 inflating: obitools4-master/pkg/obilua/obiseqslice.go +#10 80.06 inflating: obitools4-master/pkg/obilua/obitaxon.go +#10 80.06 inflating: obitools4-master/pkg/obilua/obitaxonomy.go +#10 80.06 creating: obitools4-master/pkg/obingslibrary/ +#10 80.06 inflating: obitools4-master/pkg/obingslibrary/marker.go +#10 80.06 inflating: obitools4-master/pkg/obingslibrary/match.go +#10 80.06 inflating: obitools4-master/pkg/obingslibrary/multimatch.go +#10 80.06 inflating: obitools4-master/pkg/obingslibrary/ngslibrary.go +#10 80.06 inflating: obitools4-master/pkg/obingslibrary/worker.go +#10 80.06 creating: obitools4-master/pkg/obioptions/ +#10 80.06 inflating: obitools4-master/pkg/obioptions/options.go +#10 80.06 inflating: obitools4-master/pkg/obioptions/version.go +#10 80.06 creating: obitools4-master/pkg/obiphylo/ +#10 80.06 inflating: obitools4-master/pkg/obiphylo/tree.go +#10 80.06 creating: obitools4-master/pkg/obiseq/ +#10 80.06 inflating: obitools4-master/pkg/obiseq/attributes.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/biosequence.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/biosequence_test.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/biosequenceslice.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/class.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/compare.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/eval.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/iupac_nog.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/join.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/language.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/merge.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/paired_reads.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/pool.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/predicate.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/revcomp.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/revcomp_test.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/subseq.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/subseq_test.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/taxonomy_classifier.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/taxonomy_lca.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/taxonomy_methods.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/taxonomy_predicate.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/taxonomy_workers.go +#10 80.06 inflating: obitools4-master/pkg/obiseq/worker.go +#10 80.06 creating: obitools4-master/pkg/obistats/ +#10 80.06 inflating: obitools4-master/pkg/obistats/algo.go +#10 80.06 inflating: obitools4-master/pkg/obistats/beta.go +#10 80.06 inflating: obitools4-master/pkg/obistats/betabinom.go +#10 80.06 inflating: obitools4-master/pkg/obistats/data.go +#10 80.06 inflating: obitools4-master/pkg/obistats/delta.go +#10 80.06 inflating: obitools4-master/pkg/obistats/kmeans.go +#10 80.06 inflating: obitools4-master/pkg/obistats/kolmogorovbeta.go +#10 80.06 inflating: obitools4-master/pkg/obistats/mannwhitney.go +#10 80.06 inflating: obitools4-master/pkg/obistats/mathx.go +#10 80.06 inflating: obitools4-master/pkg/obistats/minmax.go +#10 80.06 inflating: obitools4-master/pkg/obistats/normaldist.go +#10 80.06 inflating: obitools4-master/pkg/obistats/random.go +#10 80.06 inflating: obitools4-master/pkg/obistats/sample.go +#10 80.06 inflating: obitools4-master/pkg/obistats/scaler.go +#10 80.06 inflating: obitools4-master/pkg/obistats/sort.go +#10 80.06 inflating: obitools4-master/pkg/obistats/stats.go +#10 80.06 inflating: obitools4-master/pkg/obistats/table.go +#10 80.06 inflating: obitools4-master/pkg/obistats/tdist.go +#10 80.06 inflating: obitools4-master/pkg/obistats/ttest.go +#10 80.06 inflating: obitools4-master/pkg/obistats/udist.go +#10 80.06 inflating: obitools4-master/pkg/obistats/utils.go +#10 80.06 creating: obitools4-master/pkg/obisuffix/ +#10 80.06 inflating: obitools4-master/pkg/obisuffix/suffix_array.go +#10 80.06 creating: obitools4-master/pkg/obitable/ +#10 80.06 inflating: obitools4-master/pkg/obitable/table.go +#10 80.06 creating: obitools4-master/pkg/obitax/ +#10 80.06 inflating: obitools4-master/pkg/obitax/default_taxonomy.go +#10 80.06 inflating: obitools4-master/pkg/obitax/filter_on_name.go +#10 80.06 inflating: obitools4-master/pkg/obitax/filter_on_rank.go +#10 80.06 inflating: obitools4-master/pkg/obitax/filter_on_subclade_of.go +#10 80.06 inflating: obitools4-master/pkg/obitax/inner.go +#10 80.06 inflating: obitools4-master/pkg/obitax/issuubcladeof.go +#10 80.06 inflating: obitools4-master/pkg/obitax/iterator.go +#10 80.06 inflating: obitools4-master/pkg/obitax/lca.go +#10 80.06 inflating: obitools4-master/pkg/obitax/string_parser.go +#10 80.06 inflating: obitools4-master/pkg/obitax/taxid.go +#10 80.06 inflating: obitools4-master/pkg/obitax/taxon.go +#10 80.06 inflating: obitools4-master/pkg/obitax/taxonnode.go +#10 80.06 inflating: obitools4-master/pkg/obitax/taxonomy.go +#10 80.06 inflating: obitools4-master/pkg/obitax/taxonset.go +#10 80.06 inflating: obitools4-master/pkg/obitax/taxonslice.go +#10 80.06 creating: obitools4-master/pkg/obitools/ +#10 80.06 creating: obitools4-master/pkg/obitools/obiannotate/ +#10 80.06 inflating: obitools4-master/pkg/obitools/obiannotate/obiannotate.go +#10 80.06 inflating: obitools4-master/pkg/obitools/obiannotate/options.go +#10 80.06 creating: obitools4-master/pkg/obitools/obiclean/ +#10 80.06 inflating: obitools4-master/pkg/obitools/obiclean/chimera.go +#10 80.06 inflating: obitools4-master/pkg/obitools/obiclean/graph.go +#10 80.06 inflating: obitools4-master/pkg/obitools/obiclean/obiclean.go +#10 80.06 inflating: obitools4-master/pkg/obitools/obiclean/options.go +#10 80.06 creating: obitools4-master/pkg/obitools/obicleandb/ +#10 80.06 inflating: obitools4-master/pkg/obitools/obicleandb/obicleandb.go +#10 80.06 inflating: obitools4-master/pkg/obitools/obicleandb/options.go +#10 80.06 creating: obitools4-master/pkg/obitools/obiclust/ +#10 80.06 extracting: obitools4-master/pkg/obitools/obiclust/obiclust.go +#10 80.06 inflating: obitools4-master/pkg/obitools/obiclust/options.go +#10 80.06 creating: obitools4-master/pkg/obitools/obiconsensus/ +#10 80.06 inflating: obitools4-master/pkg/obitools/obiconsensus/obiconsensus.go +#10 80.06 inflating: obitools4-master/pkg/obitools/obiconsensus/options.go +#10 80.06 creating: obitools4-master/pkg/obitools/obiconvert/ +#10 80.06 inflating: obitools4-master/pkg/obitools/obiconvert/options.go +#10 80.06 inflating: obitools4-master/pkg/obitools/obiconvert/sequence_reader.go +#10 80.06 inflating: obitools4-master/pkg/obitools/obiconvert/sequence_writer.go +#10 80.06 creating: obitools4-master/pkg/obitools/obicount/ +#10 80.06 inflating: obitools4-master/pkg/obitools/obicount/options.go +#10 80.06 creating: obitools4-master/pkg/obitools/obicsv/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obicsv/csvoption.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obicsv/obicsv.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obicsv/options.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obicsv/sequence.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obicsv/writer.go +#10 80.07 creating: obitools4-master/pkg/obitools/obidemerge/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obidemerge/demerge.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obidemerge/options.go +#10 80.07 creating: obitools4-master/pkg/obitools/obidistribute/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obidistribute/distribute.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obidistribute/options.go +#10 80.07 creating: obitools4-master/pkg/obitools/obigrep/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obigrep/grep.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obigrep/options.go +#10 80.07 creating: obitools4-master/pkg/obitools/obijoin/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obijoin/join.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obijoin/options.go +#10 80.07 creating: obitools4-master/pkg/obitools/obikmersim/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obikmersim/obikmersim.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obikmersim/options.go +#10 80.07 creating: obitools4-master/pkg/obitools/obilandmark/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obilandmark/obilandmark.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obilandmark/options.go +#10 80.07 extracting: obitools4-master/pkg/obitools/obilandmark/taxostat.go +#10 80.07 creating: obitools4-master/pkg/obitools/obimatrix/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obimatrix/obimatrix.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obimatrix/options.go +#10 80.07 creating: obitools4-master/pkg/obitools/obimicrosat/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obimicrosat/microsat.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obimicrosat/options.go +#10 80.07 creating: obitools4-master/pkg/obitools/obimultiplex/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obimultiplex/demultiplex.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obimultiplex/options.go +#10 80.07 creating: obitools4-master/pkg/obitools/obipairing/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obipairing/options.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obipairing/pairing.go +#10 80.07 creating: obitools4-master/pkg/obitools/obipcr/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obipcr/options.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obipcr/pcr.go +#10 80.07 creating: obitools4-master/pkg/obitools/obirefidx/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obirefidx/famlilyindexing.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obirefidx/geomindexing.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obirefidx/obirefidx.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obirefidx/options.go +#10 80.07 creating: obitools4-master/pkg/obitools/obiscript/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obiscript/obiscript.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obiscript/options.go +#10 80.07 creating: obitools4-master/pkg/obitools/obisplit/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obisplit/obisplit.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obisplit/options.go +#10 80.07 creating: obitools4-master/pkg/obitools/obisummary/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obisummary/obisummary.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obisummary/options.go +#10 80.07 creating: obitools4-master/pkg/obitools/obitag/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obitag/obigeomtag.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obitag/obitag.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obitag/options.go +#10 80.07 creating: obitools4-master/pkg/obitools/obitagpcr/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obitagpcr/options.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obitagpcr/pcrtag.go +#10 80.07 creating: obitools4-master/pkg/obitools/obitaxonomy/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obitaxonomy/obitaxonomy.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obitaxonomy/options.go +#10 80.07 creating: obitools4-master/pkg/obitools/obiuniq/ +#10 80.07 inflating: obitools4-master/pkg/obitools/obiuniq/options.go +#10 80.07 inflating: obitools4-master/pkg/obitools/obiuniq/unique.go +#10 80.07 creating: obitools4-master/pkg/obiutils/ +#10 80.07 inflating: obitools4-master/pkg/obiutils/abs.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/abs_test.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/array.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/array_test.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/bytes.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/bytes_test.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/cast_interface.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/counter.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/download.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/goutils.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/gzipfile.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/mimetypes.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/minmax.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/path.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/path_test.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/pipe.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/ranks.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/set.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/set_test.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/slices.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/strings.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/tar.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/unsafe.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/xopen.go +#10 80.07 inflating: obitools4-master/pkg/obiutils/xopen_test.go +#10 80.07 creating: obitools4-master/public/ +#10 80.07 extracting: obitools4-master/public/.gitkeep +#10 80.07 inflating: obitools4-master/public/OBITools-V4.pdf +#10 80.07 inflating: obitools4-master/public/annexes.html +#10 80.07 inflating: obitools4-master/public/commands.html +#10 80.07 creating: obitools4-master/public/commands_files/ +#10 80.07 creating: obitools4-master/public/commands_files/figure-html/ +#10 80.07 inflating: obitools4-master/public/commands_files/figure-html/unnamed-chunk-1-1.png +#10 80.07 inflating: obitools4-master/public/index.html +#10 80.07 inflating: obitools4-master/public/intro.html +#10 80.07 inflating: obitools4-master/public/library.html +#10 80.07 inflating: obitools4-master/public/references.html +#10 80.07 inflating: obitools4-master/public/search.json +#10 80.07 creating: obitools4-master/public/site_libs/ +#10 80.07 creating: obitools4-master/public/site_libs/bootstrap/ +#10 80.07 inflating: obitools4-master/public/site_libs/bootstrap/bootstrap-icons.css +#10 80.07 inflating: obitools4-master/public/site_libs/bootstrap/bootstrap-icons.woff +#10 80.07 inflating: obitools4-master/public/site_libs/bootstrap/bootstrap.min.css +#10 80.07 inflating: obitools4-master/public/site_libs/bootstrap/bootstrap.min.js +#10 80.07 creating: obitools4-master/public/site_libs/clipboard/ +#10 80.07 inflating: obitools4-master/public/site_libs/clipboard/clipboard.min.js +#10 80.07 creating: obitools4-master/public/site_libs/quarto-html/ +#10 80.07 inflating: obitools4-master/public/site_libs/quarto-html/anchor.min.js +#10 80.07 inflating: obitools4-master/public/site_libs/quarto-html/popper.min.js +#10 80.07 inflating: obitools4-master/public/site_libs/quarto-html/quarto-syntax-highlighting.css +#10 80.07 inflating: obitools4-master/public/site_libs/quarto-html/quarto.js +#10 80.07 inflating: obitools4-master/public/site_libs/quarto-html/tippy.css +#10 80.07 inflating: obitools4-master/public/site_libs/quarto-html/tippy.umd.min.js +#10 80.07 creating: obitools4-master/public/site_libs/quarto-nav/ +#10 80.07 inflating: obitools4-master/public/site_libs/quarto-nav/headroom.min.js +#10 80.07 inflating: obitools4-master/public/site_libs/quarto-nav/quarto-nav.js +#10 80.07 creating: obitools4-master/public/site_libs/quarto-search/ +#10 80.07 inflating: obitools4-master/public/site_libs/quarto-search/autocomplete.umd.js +#10 80.08 inflating: obitools4-master/public/site_libs/quarto-search/fuse.min.js +#10 80.08 inflating: obitools4-master/public/site_libs/quarto-search/quarto-search.js +#10 80.08 inflating: obitools4-master/public/tutorial.html +#10 80.08 creating: obitools4-master/public/tutorial_files/ +#10 80.08 creating: obitools4-master/public/tutorial_files/figure-html/ +#10 80.08 inflating: obitools4-master/public/tutorial_files/figure-html/unnamed-chunk-10-1.png +#10 80.08 inflating: obitools4-master/public/tutorial_files/figure-html/unnamed-chunk-9-1.png +#10 80.08 extracting: obitools4-master/public/wolf_diet.tgz +#10 80.29 creating: obitools4-master/sample/ +#10 80.29 inflating: obitools4-master/sample/AY189646 +#10 80.29 inflating: obitools4-master/sample/FJ465692 +#10 80.29 extracting: obitools4-master/sample/wolf_F.fastq.gz +#10 80.30 extracting: obitools4-master/sample/wolf_R.fastq.gz +#10 80.30 inflating: obitools4-master/sample/wolf_diet_ngsfilter.txt +#10 80.30 Install OBITOOLS from : https://github.com/metabarcoding/obitools4/archive/refs/heads/master.zip +#10 80.31 installing pre-push... +#10 80.31 mkdir -p build +#10 80.31 - Building obitool obiannotate... +#10 ... + +#11 [stage-1 3/11] RUN R -e "install.packages(c('IRkernel','tidyverse','vegan','ade4','BiocManager','remotes'), repos='http://cran.rstudio.com/')" && R -e "BiocManager::install('biomformat')" && R -e "remotes::install_github('metabaRfactory/metabaR')" && R -e "IRkernel::installspec(user = FALSE)" && rm -rf /tmp/Rtmp* +#11 66.51 * installing *source* package ‘cpp11’ ... +#11 66.51 ** package ‘cpp11’ successfully unpacked and MD5 sums checked +#11 66.51 ** using staged installation +#11 66.53 ** R +#11 66.53 ** inst +#11 66.54 ** byte-compile and prepare package for lazy loading +#11 66.83 ** help +#11 66.84 *** installing help indices +#11 66.85 ** building package indices +#11 66.97 ** installing vignettes +#11 66.97 ** testing if installed package can be loaded from temporary location +#11 67.10 ** testing if installed package can be loaded from final location +#11 67.25 ** testing if installed package keeps a record of temporary installation path +#11 67.25 * DONE (cpp11) +#11 67.44 * installing *source* package ‘pkgconfig’ ... +#11 67.44 ** package ‘pkgconfig’ successfully unpacked and MD5 sums checked +#11 67.44 ** using staged installation +#11 67.44 ** R +#11 67.45 ** inst +#11 67.45 ** byte-compile and prepare package for lazy loading +#11 67.66 ** help +#11 67.68 *** installing help indices +#11 67.69 ** building package indices +#11 67.89 ** testing if installed package can be loaded from temporary location +#11 68.06 ** testing if installed package can be loaded from final location +#11 68.19 ** testing if installed package keeps a record of temporary installation path +#11 68.19 * DONE (pkgconfig) +#11 68.35 * installing *source* package ‘mime’ ... +#11 68.35 ** package ‘mime’ successfully unpacked and MD5 sums checked +#11 68.35 ** using staged installation +#11 68.36 ** libs +#11 68.36 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 68.39 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rawmatch.c -o rawmatch.o +#11 68.43 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o mime.so init.o rawmatch.o -L/usr/lib/R/lib -lR +#11 68.44 installing to /usr/local/lib/R/site-library/00LOCK-mime/00new/mime/libs +#11 68.44 ** R +#11 68.44 ** inst +#11 68.44 ** byte-compile and prepare package for lazy loading +#11 68.62 ** help +#11 68.63 *** installing help indices +#11 68.64 ** building package indices +#11 68.73 ** testing if installed package can be loaded from temporary location +#11 68.82 ** checking absolute paths in shared objects and dynamic libraries +#11 68.82 ** testing if installed package can be loaded from final location +#11 68.90 ** testing if installed package keeps a record of temporary installation path +#11 68.90 * DONE (mime) +#11 69.03 * installing *source* package ‘utf8’ ... +#11 69.04 ** package ‘utf8’ successfully unpacked and MD5 sums checked +#11 69.04 ** using staged installation +#11 69.04 ** libs +#11 69.05 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c as_utf8.c -o as_utf8.o +#11 69.08 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bytes.c -o bytes.o +#11 69.17 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c context.c -o context.o +#11 69.20 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 69.22 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c render.c -o render.o +#11 69.25 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c render_table.c -o render_table.o +#11 69.33 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c string.c -o string.o +#11 69.36 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c text.c -o text.o +#11 69.43 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8_encode.c -o utf8_encode.o +#11 69.46 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8_format.c -o utf8_format.o +#11 69.51 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8_normalize.c -o utf8_normalize.o +#11 69.54 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8_valid.c -o utf8_valid.o +#11 69.57 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8_width.c -o utf8_width.o +#11 69.60 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c util.c -o util.o +#11 69.64 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8lite/src/array.c -o utf8lite/src/array.o +#11 69.67 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8lite/src/char.c -o utf8lite/src/char.o +#11 69.70 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8lite/src/encode.c -o utf8lite/src/encode.o +#11 69.74 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8lite/src/error.c -o utf8lite/src/error.o +#11 69.76 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8lite/src/escape.c -o utf8lite/src/escape.o +#11 69.79 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8lite/src/graph.c -o utf8lite/src/graph.o +#11 69.82 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8lite/src/graphscan.c -o utf8lite/src/graphscan.o +#11 69.93 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8lite/src/normalize.c -o utf8lite/src/normalize.o +#11 70.06 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8lite/src/render.c -o utf8lite/src/render.o +#11 70.15 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8lite/src/text.c -o utf8lite/src/text.o +#11 70.18 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8lite/src/textassign.c -o utf8lite/src/textassign.o +#11 70.20 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8lite/src/textiter.c -o utf8lite/src/textiter.o +#11 70.23 gcc -I"/usr/share/R/include" -DNDEBUG -Iutf8lite/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8lite/src/textmap.c -o utf8lite/src/textmap.o +#11 70.26 ar rcs libcutf8lite.a utf8lite/src/array.o utf8lite/src/char.o utf8lite/src/encode.o utf8lite/src/error.o utf8lite/src/escape.o utf8lite/src/graph.o utf8lite/src/graphscan.o utf8lite/src/normalize.o utf8lite/src/render.o utf8lite/src/text.o utf8lite/src/textassign.o utf8lite/src/textiter.o utf8lite/src/textmap.o +#11 70.26 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o utf8.so as_utf8.o bytes.o context.o init.o render.o render_table.o string.o text.o utf8_encode.o utf8_format.o utf8_normalize.o utf8_valid.o utf8_width.o util.o -L. -lcutf8lite -L/usr/lib/R/lib -lR +#11 70.28 installing to /usr/local/lib/R/site-library/00LOCK-utf8/00new/utf8/libs +#11 70.28 ** R +#11 70.28 ** inst +#11 70.28 ** byte-compile and prepare package for lazy loading +#11 70.45 ** help +#11 70.47 *** installing help indices +#11 70.48 ** building package indices +#11 70.56 ** installing vignettes +#11 70.57 ** testing if installed package can be loaded from temporary location +#11 70.64 ** checking absolute paths in shared objects and dynamic libraries +#11 70.64 ** testing if installed package can be loaded from final location +#11 70.72 ** testing if installed package keeps a record of temporary installation path +#11 70.72 * DONE (utf8) +#11 70.83 * installing *source* package ‘clipr’ ... +#11 70.83 ** package ‘clipr’ successfully unpacked and MD5 sums checked +#11 70.83 ** using staged installation +#11 70.84 ** R +#11 70.84 ** inst +#11 70.84 ** byte-compile and prepare package for lazy loading +#11 70.97 ** help +#11 70.98 *** installing help indices +#11 70.99 ** building package indices +#11 71.06 ** installing vignettes +#11 71.06 ** testing if installed package can be loaded from temporary location +#11 71.13 ** testing if installed package can be loaded from final location +#11 71.20 ** testing if installed package keeps a record of temporary installation path +#11 71.20 * DONE (clipr) +#11 71.42 * installing *source* package ‘fs’ ... +#11 71.44 ** package ‘fs’ successfully unpacked and MD5 sums checked +#11 71.44 ** using staged installation +#11 71.44 ** libs +#11 71.45 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dir.cc -o dir.o +#11 71.62 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c error.cc -o error.o +#11 71.67 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c file.cc -o file.o +#11 71.85 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fs.cc -o fs.o +#11 71.90 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c getmode.cc -o getmode.o +#11 72.01 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c id.cc -o id.o +#11 72.21 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.cc -o init.o +#11 72.25 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c link.cc -o link.o +#11 72.37 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c path.cc -o path.o +#11 72.52 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils.cc -o utils.o +#11 72.64 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c unix/getmode.cc -o unix/getmode.o +#11 72.75 gcc -I"/usr/share/R/include" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bsd/setmode.c -o bsd/setmode.o +#11 72.81 gcc -I"/usr/share/R/include" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bsd/strmode.c -o bsd/strmode.o +#11 72.83 gcc -I"/usr/share/R/include" -DNDEBUG -I./libuv-1.44.2/include -I. -pthread -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bsd/reallocarray.c -o bsd/reallocarray.o +#11 72.84 touch libuv-1.44.2/aclocal.m4 && touch libuv-1.44.2/configure && touch libuv-1.44.2/Makefile.in +#11 72.84 (cd libuv-1.44.2 \ +#11 72.84 && CC="gcc" CPPFLAGS="" CFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -fvisibility=hidden -std=c99" AR="ar" RANLIB="ranlib" LDFLAGS="-Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro" ./configure --quiet) +#11 74.61 make --directory=libuv-1.44.2 \ +#11 74.61 HAVE_DTRACE=0 +#11 74.61 make[1]: Entering directory '/tmp/RtmpnInocl/R.INSTALLa435ad0599a/fs/src/libuv-1.44.2' +#11 74.62 CC src/libuv_la-fs-poll.lo +#11 74.74 CC src/libuv_la-idna.lo +#11 74.86 CC src/libuv_la-inet.lo +#11 75.00 CC src/libuv_la-random.lo +#11 75.09 CC src/libuv_la-strscpy.lo +#11 75.17 CC src/libuv_la-threadpool.lo +#11 75.32 CC src/libuv_la-timer.lo +#11 75.45 CC src/libuv_la-uv-data-getter-setters.lo +#11 75.54 CC src/libuv_la-uv-common.lo +#11 75.91 CC src/libuv_la-version.lo +#11 75.97 CC src/libuv_la-strtok.lo +#11 76.02 CC src/unix/libuv_la-async.lo +#11 76.15 CC src/unix/libuv_la-core.lo +#11 76.51 CC src/unix/libuv_la-dl.lo +#11 76.59 CC src/unix/libuv_la-fs.lo +#11 77.12 CC src/unix/libuv_la-getaddrinfo.lo +#11 77.23 CC src/unix/libuv_la-getnameinfo.lo +#11 77.32 CC src/unix/libuv_la-loop-watcher.lo +#11 77.43 CC src/unix/libuv_la-loop.lo +#11 77.53 CC src/unix/libuv_la-pipe.lo +#11 77.67 CC src/unix/libuv_la-poll.lo +#11 77.77 CC src/unix/libuv_la-process.lo +#11 77.94 CC src/unix/libuv_la-random-devurandom.lo +#11 78.02 CC src/unix/libuv_la-signal.lo +#11 78.26 CC src/unix/libuv_la-stream.lo +#11 78.57 CC src/unix/libuv_la-tcp.lo +#11 78.73 CC src/unix/libuv_la-thread.lo +#11 78.89 CC src/unix/libuv_la-tty.lo +#11 79.01 CC src/unix/libuv_la-udp.lo +#11 79.34 CC src/unix/libuv_la-linux-core.lo +#11 79.56 CC src/unix/libuv_la-linux-inotify.lo +#11 79.76 CC src/unix/libuv_la-linux-syscalls.lo +#11 79.82 CC src/unix/libuv_la-procfs-exepath.lo +#11 79.90 CC src/unix/libuv_la-proctitle.lo +#11 80.02 CC src/unix/libuv_la-random-getrandom.lo +#11 80.10 CC src/unix/libuv_la-random-sysctl-linux.lo +#11 80.18 CC src/unix/libuv_la-epoll.lo +#11 80.34 CCLD libuv.la +#11 80.42 make[1]: Leaving directory '/tmp/RtmpnInocl/R.INSTALLa435ad0599a/fs/src/libuv-1.44.2' +#11 80.42 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o fs.so dir.o error.o file.o fs.o getmode.o id.o init.o link.o path.o utils.o unix/getmode.o bsd/setmode.o bsd/strmode.o bsd/reallocarray.o ./libuv-1.44.2/.libs/libuv.pa -pthread -L/usr/lib/R/lib -lR +#11 80.46 installing to /usr/local/lib/R/site-library/00LOCK-fs/00new/fs/libs +#11 80.46 ** R +#11 80.46 ** inst +#11 80.46 ** byte-compile and prepare package for lazy loading +#11 80.81 ** help +#11 80.84 *** installing help indices +#11 80.86 *** copying figures +#11 80.86 ** building package indices +#11 80.94 ** installing vignettes +#11 80.95 ** testing if installed package can be loaded from temporary location +#11 81.03 ** checking absolute paths in shared objects and dynamic libraries +#11 81.04 ** testing if installed package can be loaded from final location +#11 81.13 ** testing if installed package keeps a record of temporary installation path +#11 81.13 * DONE (fs) +#11 81.80 * installing *source* package ‘stringi’ ... +#11 81.86 ** package ‘stringi’ successfully unpacked and MD5 sums checked +#11 81.86 ** using staged installation +#11 81.88 checking for R_HOME... /usr/lib/R +#11 81.88 checking for R... /usr/lib/R/bin/R +#11 81.88 checking for endianness... little +#11 81.94 checking for cat... /usr/bin/cat +#11 81.99 checking whether the C++ compiler works... yes +#11 82.01 checking for C++ compiler default output file name... a.out +#11 82.01 checking for suffix of executables... +#11 82.03 checking whether we are cross compiling... no +#11 82.05 checking for suffix of object files... o +#11 82.06 checking whether the compiler supports GNU C++... yes +#11 82.07 checking whether g++ -std=gnu++14 accepts -g... yes +#11 82.08 checking for g++ -std=gnu++14 option to enable C++11 features... none needed +#11 82.10 checking whether the C++ compiler supports the 'long long' type... yes +#11 82.21 checking whether the compiler implements namespaces... yes +#11 82.23 checking whether the compiler supports the Standard Template Library... yes +#11 82.29 checking whether std::map is available... yes +#11 82.49 checking for pkg-config... /usr/bin/pkg-config +#11 82.49 checking with 'pkg-config' for the system ICU4C (icu-i18n icu-uc)... 70.1 +#11 82.49 checking for ICU4C >= 61... yes +#11 82.49 checking for additional CPPFLAGS, LDFLAGS, and LIBS required... done +#11 82.50 checking whether an ICU4C-based project can be built... yes +#11 82.60 checking programmatically for sufficient U_ICU_VERSION_MAJOR_NUM... yes +#11 82.62 checking the capabilities of the ICU data library (ucnv, uloc, utrans)... yes +#11 83.34 checking the capabilities of the ICU data library (ucol)... yes +#11 83.97 checking for stdio.h... yes +#11 84.23 checking for stdlib.h... yes +#11 84.49 checking for string.h... yes +#11 84.77 checking for inttypes.h... yes +#11 85.06 checking for stdint.h... yes +#11 85.32 checking for strings.h... +#11 ... + +#10 [rust-builder 5/6] RUN TEMP=. curl -L https://raw.githubusercontent.com/metabarcoding/obitools4/master/install_obitools.sh | bash -s -- --install-dir /home/jovyan/obitools-build && cp /home/jovyan/obitools-build/bin/* /usr/local/bin +#10 80.31 - Building obitool obiannotate...Done. +#10 94.38 - Building obitool obiclean...Done. +#10 95.45 - Building obitool obicleandb...Done. +#10 96.33 - Building obitool obicomplement...Done. +#10 97.11 - Building obitool obiconsensus...Done. +#10 98.02 - Building obitool obiconvert...Done. +#10 98.84 - Building obitool obicount...Done. +#10 99.67 - Building obitool obicsv...Done. +#10 100.6 - Building obitool obidemerge...Done. +#10 101.4 - Building obitool obidistribute...Done. +#10 103.7 - Building obitool obigrep... +#10 ... + +#11 [stage-1 3/11] RUN R -e "install.packages(c('IRkernel','tidyverse','vegan','ade4','BiocManager','remotes'), repos='http://cran.rstudio.com/')" && R -e "BiocManager::install('biomformat')" && R -e "remotes::install_github('metabaRfactory/metabaR')" && R -e "IRkernel::installspec(user = FALSE)" && rm -rf /tmp/Rtmp* +#11 85.32 checking for strings.h... yes +#11 85.58 checking for sys/stat.h... yes +#11 85.61 checking for sys/types.h... yes +#11 85.89 checking for unistd.h... yes +#11 85.92 checking for elf.h... yes +#11 86.19 configure: creating ./config.status +#11 86.22 config.status: creating src/Makevars +#11 86.22 config.status: creating src/uconfig_local.h +#11 86.22 config.status: creating src/install.libs.R +#11 86.23 +#11 86.23 *** stringi configure summary: +#11 86.23 ICU_FOUND=1 +#11 86.23 STRINGI_CXXSTD= +#11 86.23 STRINGI_CXXFLAGS= -fpic +#11 86.23 STRINGI_CPPFLAGS=-I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H +#11 86.23 STRINGI_LDFLAGS= -L/usr/lib/aarch64-linux-gnu +#11 86.23 STRINGI_LIBS= -licui18n -licuuc -licudata +#11 86.23 +#11 86.23 *** Compiler settings used: +#11 86.23 CXX=g++ -std=gnu++14 +#11 86.23 LD=g++ -std=gnu++14 +#11 86.23 CXXFLAGS=-g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g +#11 86.23 CPPFLAGS= +#11 86.23 LDFLAGS= +#11 86.23 LIBS= +#11 86.23 +#11 86.24 ** libs +#11 86.24 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_brkiter.cpp -o stri_brkiter.o +#11 86.68 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_callables.cpp -o stri_callables.o +#11 86.84 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_collator.cpp -o stri_collator.o +#11 87.05 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_common.cpp -o stri_common.o +#11 87.28 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_compare.cpp -o stri_compare.o +#11 87.53 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_container_base.cpp -o stri_container_base.o +#11 87.68 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_container_bytesearch.cpp -o stri_container_bytesearch.o +#11 87.96 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_container_listint.cpp -o stri_container_listint.o +#11 88.15 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_container_listraw.cpp -o stri_container_listraw.o +#11 88.34 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_container_listutf8.cpp -o stri_container_listutf8.o +#11 88.53 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_container_regex.cpp -o stri_container_regex.o +#11 88.80 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_container_usearch.cpp -o stri_container_usearch.o +#11 89.02 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_container_utf16.cpp -o stri_container_utf16.o +#11 89.33 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_container_utf8.cpp -o stri_container_utf8.o +#11 89.55 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_container_utf8_indexable.cpp -o stri_container_utf8_indexable.o +#11 89.76 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_encoding_conversion.cpp -o stri_encoding_conversion.o +#11 90.14 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_encoding_detection.cpp -o stri_encoding_detection.o +#11 90.70 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_encoding_management.cpp -o stri_encoding_management.o +#11 90.94 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_escape.cpp -o stri_escape.o +#11 91.19 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_exception.cpp -o stri_exception.o +#11 91.36 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_ICU_settings.cpp -o stri_ICU_settings.o +#11 91.40 In file included from stri_ICU_settings.cpp:37: +#11 91.40 uconfig_local.h:42: warning: "UCONFIG_USE_WINDOWS_LCID_MAPPING_API" redefined +#11 91.40 42 | #define UCONFIG_USE_WINDOWS_LCID_MAPPING_API 0 +#11 91.40 | +#11 91.40 In file included from /usr/include/unicode/platform.h:24, +#11 91.40 from /usr/include/unicode/ptypes.h:52, +#11 91.40 from stri_external.h:52, +#11 91.40 from stri_stringi.h:36, +#11 91.40 from stri_ICU_settings.cpp:33: +#11 91.40 /usr/include/unicode/uconfig.h:381: note: this is the location of the previous definition +#11 91.40 381 | # define UCONFIG_USE_WINDOWS_LCID_MAPPING_API 1 +#11 91.40 | +#11 91.54 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_join.cpp -o stri_join.o +#11 91.92 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_length.cpp -o stri_length.o +#11 92.17 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_pad.cpp -o stri_pad.o +#11 92.39 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_prepare_arg.cpp -o stri_prepare_arg.o +#11 92.64 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_random.cpp -o stri_random.o +#11 92.92 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_reverse.cpp -o stri_reverse.o +#11 93.12 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_class_count.cpp -o stri_search_class_count.o +#11 93.34 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_class_detect.cpp -o stri_search_class_detect.o +#11 93.57 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_class_extract.cpp -o stri_search_class_extract.o +#11 93.88 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_class_locate.cpp -o stri_search_class_locate.o +#11 94.18 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_class_replace.cpp -o stri_search_class_replace.o +#11 94.52 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_class_split.cpp -o stri_search_class_split.o +#11 94.83 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_class_startsendswith.cpp -o stri_search_class_startsendswith.o +#11 95.09 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_class_subset.cpp -o stri_search_class_subset.o +#11 95.36 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_class_trim.cpp -o stri_search_class_trim.o +#11 95.59 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_common.cpp -o stri_search_common.o +#11 95.82 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_coll_count.cpp -o stri_search_coll_count.o +#11 96.03 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_coll_detect.cpp -o stri_search_coll_detect.o +#11 96.26 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_coll_extract.cpp -o stri_search_coll_extract.o +#11 96.56 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_coll_locate.cpp -o stri_search_coll_locate.o +#11 96.85 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_coll_replace.cpp -o stri_search_coll_replace.o +#11 97.16 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_coll_split.cpp -o stri_search_coll_split.o +#11 ... + +#10 [rust-builder 5/6] RUN TEMP=. curl -L https://raw.githubusercontent.com/metabarcoding/obitools4/master/install_obitools.sh | bash -s -- --install-dir /home/jovyan/obitools-build && cp /home/jovyan/obitools-build/bin/* /usr/local/bin +#10 103.7 - Building obitool obigrep...Done. +#10 106.1 - Building obitool obijoin...Done. +#10 106.9 - Building obitool obikmermatch...Done. +#10 107.8 - Building obitool obikmersimcount...Done. +#10 108.7 - Building obitool obilandmark...Done. +#10 109.5 - Building obitool obimatrix...Done. +#10 110.4 - Building obitool obimicrosat...Done. +#10 111.8 - Building obitool obimultiplex...Done. +#10 112.6 - Building obitool obipairing...Done. +#10 113.5 - Building obitool obipcr...Done. +#10 114.3 - Building obitool obireffamidx...Done. +#10 115.1 - Building obitool obirefidx...Done. +#10 115.9 - Building obitool obiscript... +#10 ... + +#11 [stage-1 3/11] RUN R -e "install.packages(c('IRkernel','tidyverse','vegan','ade4','BiocManager','remotes'), repos='http://cran.rstudio.com/')" && R -e "BiocManager::install('biomformat')" && R -e "remotes::install_github('metabaRfactory/metabaR')" && R -e "IRkernel::installspec(user = FALSE)" && rm -rf /tmp/Rtmp* +#11 97.47 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_coll_startsendswith.cpp -o stri_search_coll_startsendswith.o +#11 97.72 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_coll_subset.cpp -o stri_search_coll_subset.o +#11 98.01 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_boundaries_count.cpp -o stri_search_boundaries_count.o +#11 98.19 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_boundaries_extract.cpp -o stri_search_boundaries_extract.o +#11 98.44 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_boundaries_locate.cpp -o stri_search_boundaries_locate.o +#11 98.70 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_boundaries_split.cpp -o stri_search_boundaries_split.o +#11 98.96 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_fixed_count.cpp -o stri_search_fixed_count.o +#11 99.15 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_fixed_detect.cpp -o stri_search_fixed_detect.o +#11 99.34 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_fixed_extract.cpp -o stri_search_fixed_extract.o +#11 99.62 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_fixed_locate.cpp -o stri_search_fixed_locate.o +#11 99.89 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_fixed_replace.cpp -o stri_search_fixed_replace.o +#11 100.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_fixed_split.cpp -o stri_search_fixed_split.o +#11 100.5 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_fixed_subset.cpp -o stri_search_fixed_subset.o +#11 100.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_fixed_startsendswith.cpp -o stri_search_fixed_startsendswith.o +#11 100.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_in.cpp -o stri_search_in.o +#11 100.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_other_split.cpp -o stri_search_other_split.o +#11 101.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_regex_count.cpp -o stri_search_regex_count.o +#11 101.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_regex_detect.cpp -o stri_search_regex_detect.o +#11 101.6 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_regex_extract.cpp -o stri_search_regex_extract.o +#11 101.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_regex_locate.cpp -o stri_search_regex_locate.o +#11 102.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_regex_match.cpp -o stri_search_regex_match.o +#11 102.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_regex_replace.cpp -o stri_search_regex_replace.o +#11 103.0 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_regex_split.cpp -o stri_search_regex_split.o +#11 103.3 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_search_regex_subset.cpp -o stri_search_regex_subset.o +#11 103.6 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_sort.cpp -o stri_sort.o +#11 104.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_sprintf.cpp -o stri_sprintf.o +#11 104.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_stats.cpp -o stri_stats.o +#11 104.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_string8.cpp -o stri_string8.o +#11 105.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_stringi.cpp -o stri_stringi.o +#11 105.2 In file included from stri_stringi.cpp:40: +#11 105.2 uconfig_local.h:42: warning: "UCONFIG_USE_WINDOWS_LCID_MAPPING_API" redefined +#11 105.2 42 | #define UCONFIG_USE_WINDOWS_LCID_MAPPING_API 0 +#11 105.2 | +#11 105.2 In file included from /usr/include/unicode/platform.h:24, +#11 105.2 from /usr/include/unicode/ptypes.h:52, +#11 105.2 from stri_external.h:52, +#11 105.2 from stri_stringi.h:36, +#11 105.2 from stri_stringi.cpp:33: +#11 105.2 /usr/include/unicode/uconfig.h:381: note: this is the location of the previous definition +#11 105.2 381 | # define UCONFIG_USE_WINDOWS_LCID_MAPPING_API 1 +#11 105.2 | +#11 105.3 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_sub.cpp -o stri_sub.o +#11 ... + +#10 [rust-builder 5/6] RUN TEMP=. curl -L https://raw.githubusercontent.com/metabarcoding/obitools4/master/install_obitools.sh | bash -s -- --install-dir /home/jovyan/obitools-build && cp /home/jovyan/obitools-build/bin/* /usr/local/bin +#10 115.9 - Building obitool obiscript...Done. +#10 117.4 - Building obitool obisplit...Done. +#10 118.2 - Building obitool obisummary...Done. +#10 119.3 - Building obitool obitag...Done. +#10 120.2 - Building obitool obitagpcr...Done. +#10 121.1 - Building obitool obitaxonomy...Done. +#10 121.9 - Building obitool obiuniq...Done. +#10 123.0 ~ +#10 DONE 124.4s + +#11 [stage-1 3/11] RUN R -e "install.packages(c('IRkernel','tidyverse','vegan','ade4','BiocManager','remotes'), repos='http://cran.rstudio.com/')" && R -e "BiocManager::install('biomformat')" && R -e "remotes::install_github('metabaRfactory/metabaR')" && R -e "IRkernel::installspec(user = FALSE)" && rm -rf /tmp/Rtmp* +#11 105.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_test.cpp -o stri_test.o +#11 ... + +#12 [rust-builder 6/6] RUN ls -l /usr/local/bin +#12 0.195 total 558880 +#12 0.195 drwxr-xr-x 1 root root 0 Oct 20 2023 before-notebook.d +#12 0.195 -rwxr-xr-x 1 root root 1043 Aug 19 2023 fix-permissions +#12 0.195 -rwxr-xr-x 1 root root 19803424 Nov 5 18:28 obiannotate +#12 0.195 -rwxr-xr-x 1 root root 20079432 Nov 5 18:28 obiclean +#12 0.195 -rwxr-xr-x 1 root root 19765616 Nov 5 18:28 obicleandb +#12 0.195 -rwxr-xr-x 1 root root 19562728 Nov 5 18:28 obicomplement +#12 0.195 -rwxr-xr-x 1 root root 20263904 Nov 5 18:28 obiconsensus +#12 0.195 -rwxr-xr-x 1 root root 19562776 Nov 5 18:28 obiconvert +#12 0.195 -rwxr-xr-x 1 root root 19288664 Nov 5 18:28 obicount +#12 0.195 -rwxr-xr-x 1 root root 19568088 Nov 5 18:28 obicsv +#12 0.195 -rwxr-xr-x 1 root root 19569712 Nov 5 18:28 obidemerge +#12 0.195 -rwxr-xr-x 1 root root 19581408 Nov 5 18:28 obidistribute +#12 0.195 -rwxr-xr-x 1 root root 19711032 Nov 5 18:28 obigrep +#12 0.195 -rwxr-xr-x 1 root root 19600504 Nov 5 18:28 obijoin +#12 0.195 -rwxr-xr-x 1 root root 19788496 Nov 5 18:28 obikmermatch +#12 0.195 -rwxr-xr-x 1 root root 19721664 Nov 5 18:28 obikmersimcount +#12 0.195 -rwxr-xr-x 1 root root 19661520 Nov 5 18:28 obilandmark +#12 0.195 -rwxr-xr-x 1 root root 19359200 Nov 5 18:28 obimatrix +#12 0.195 -rwxr-xr-x 1 root root 19932472 Nov 5 18:28 obimicrosat +#12 0.195 -rwxr-xr-x 1 root root 19718328 Nov 5 18:28 obimultiplex +#12 0.195 -rwxr-xr-x 1 root root 19639336 Nov 5 18:28 obipairing +#12 0.195 -rwxr-xr-x 1 root root 19638200 Nov 5 18:28 obipcr +#12 0.195 -rwxr-xr-x 1 root root 19649408 Nov 5 18:28 obireffamidx +#12 0.195 -rwxr-xr-x 1 root root 19606248 Nov 5 18:28 obirefidx +#12 0.195 -rwxr-xr-x 1 root root 20809832 Nov 5 18:28 obiscript +#12 0.195 -rwxr-xr-x 1 root root 19624936 Nov 5 18:28 obisplit +#12 0.195 -rwxr-xr-x 1 root root 19923288 Nov 5 18:28 obisummary +#12 0.195 -rwxr-xr-x 1 root root 19661640 Nov 5 18:28 obitag +#12 0.195 -rwxr-xr-x 1 root root 19793288 Nov 5 18:28 obitagpcr +#12 0.195 -rwxr-xr-x 1 root root 19607328 Nov 5 18:28 obitaxonomy +#12 0.195 -rwxr-xr-x 1 root root 19692696 Nov 5 18:28 obiuniq +#12 0.195 -rwxr-xr-x 1 root root 1331 Sep 4 2023 run-hooks.sh +#12 0.195 drwxr-xr-x 1 root root 0 Oct 20 2023 start-notebook.d +#12 0.195 -rwxr-xr-x 1 root root 1471 Oct 17 2023 start-notebook.py +#12 0.195 -rwxr-xr-x 1 root root 152 Oct 17 2023 start-notebook.sh +#12 0.195 -rwxr-xr-x 1 root root 11624 Aug 25 2023 start.sh +#12 0.195 -rwxr-xr-x 1 root root 726 Oct 17 2023 start-singleuser.py +#12 0.195 -rwxr-xr-x 1 root root 158 Oct 17 2023 start-singleuser.sh +#12 DONE 0.2s + +#11 [stage-1 3/11] RUN R -e "install.packages(c('IRkernel','tidyverse','vegan','ade4','BiocManager','remotes'), repos='http://cran.rstudio.com/')" && R -e "BiocManager::install('biomformat')" && R -e "remotes::install_github('metabaRfactory/metabaR')" && R -e "IRkernel::installspec(user = FALSE)" && rm -rf /tmp/Rtmp* +#11 105.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_time_zone.cpp -o stri_time_zone.o +#11 106.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_time_calendar.cpp -o stri_time_calendar.o +#11 106.3 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_time_symbols.cpp -o stri_time_symbols.o +#11 106.6 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_time_format.cpp -o stri_time_format.o +#11 107.0 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_trans_casemap.cpp -o stri_trans_casemap.o +#11 107.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_trans_other.cpp -o stri_trans_other.o +#11 107.5 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_trans_normalization.cpp -o stri_trans_normalization.o +#11 107.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_trans_transliterate.cpp -o stri_trans_transliterate.o +#11 107.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_ucnv.cpp -o stri_ucnv.o +#11 108.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_uloc.cpp -o stri_uloc.o +#11 108.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_utils.cpp -o stri_utils.o +#11 108.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -UDEBUG -DNDEBUG -DU_HAVE_ELF_H -fpic -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stri_wrap.cpp -o stri_wrap.o +#11 108.8 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o stringi.so stri_brkiter.o stri_callables.o stri_collator.o stri_common.o stri_compare.o stri_container_base.o stri_container_bytesearch.o stri_container_listint.o stri_container_listraw.o stri_container_listutf8.o stri_container_regex.o stri_container_usearch.o stri_container_utf16.o stri_container_utf8.o stri_container_utf8_indexable.o stri_encoding_conversion.o stri_encoding_detection.o stri_encoding_management.o stri_escape.o stri_exception.o stri_ICU_settings.o stri_join.o stri_length.o stri_pad.o stri_prepare_arg.o stri_random.o stri_reverse.o stri_search_class_count.o stri_search_class_detect.o stri_search_class_extract.o stri_search_class_locate.o stri_search_class_replace.o stri_search_class_split.o stri_search_class_startsendswith.o stri_search_class_subset.o stri_search_class_trim.o stri_search_common.o stri_search_coll_count.o stri_search_coll_detect.o stri_search_coll_extract.o stri_search_coll_locate.o stri_search_coll_replace.o stri_search_coll_split.o stri_search_coll_startsendswith.o stri_search_coll_subset.o stri_search_boundaries_count.o stri_search_boundaries_extract.o stri_search_boundaries_locate.o stri_search_boundaries_split.o stri_search_fixed_count.o stri_search_fixed_detect.o stri_search_fixed_extract.o stri_search_fixed_locate.o stri_search_fixed_replace.o stri_search_fixed_split.o stri_search_fixed_subset.o stri_search_fixed_startsendswith.o stri_search_in.o stri_search_other_split.o stri_search_regex_count.o stri_search_regex_detect.o stri_search_regex_extract.o stri_search_regex_locate.o stri_search_regex_match.o stri_search_regex_replace.o stri_search_regex_split.o stri_search_regex_subset.o stri_sort.o stri_sprintf.o stri_stats.o stri_string8.o stri_stringi.o stri_sub.o stri_test.o stri_time_zone.o stri_time_calendar.o stri_time_symbols.o stri_time_format.o stri_trans_casemap.o stri_trans_other.o stri_trans_normalization.o stri_trans_transliterate.o stri_ucnv.o stri_uloc.o stri_utils.o stri_wrap.o -L/usr/lib/aarch64-linux-gnu -licui18n -licuuc -licudata -L/usr/lib/R/lib -lR +#11 108.9 installing via 'install.libs.R' to /usr/local/lib/R/site-library/00LOCK-stringi/00new/stringi +#11 108.9 ** R +#11 109.0 ** inst +#11 109.0 ** byte-compile and prepare package for lazy loading +#11 109.3 ** help +#11 109.5 *** installing help indices +#11 109.6 ** building package indices +#11 109.8 ** testing if installed package can be loaded from temporary location +#11 109.8 ** checking absolute paths in shared objects and dynamic libraries +#11 109.9 ** testing if installed package can be loaded from final location +#11 109.9 ** testing if installed package keeps a record of temporary installation path +#11 109.9 * DONE (stringi) +#11 110.0 * installing *source* package ‘evaluate’ ... +#11 110.0 ** package ‘evaluate’ successfully unpacked and MD5 sums checked +#11 110.0 ** using staged installation +#11 110.0 ** R +#11 110.0 ** byte-compile and prepare package for lazy loading +#11 110.2 ** help +#11 110.3 *** installing help indices +#11 110.3 ** building package indices +#11 110.3 ** testing if installed package can be loaded from temporary location +#11 110.4 ** testing if installed package can be loaded from final location +#11 110.5 ** testing if installed package keeps a record of temporary installation path +#11 110.5 * DONE (evaluate) +#11 110.7 * installing *source* package ‘pbdZMQ’ ... +#11 110.7 ** package ‘pbdZMQ’ successfully unpacked and MD5 sums checked +#11 110.7 ** using staged installation +#11 110.7 checking for pkg-config... /usr/bin/pkg-config +#11 110.7 checking pkg-config is at least version 0.25... yes +#11 110.7 checking for zmq... checking for zmq_4_1_6... checking for zmq... +#11 110.7 ****************** Results of pbdZMQ package configure ***************** +#11 110.7 +#11 110.7 >> GET_PKG_CONFIG = yes +#11 110.7 >> GET_SYSTEM_ZMQ = no +#11 110.7 >> GET_SYSTEM_ZMQ_430 = no +#11 110.7 >> PKG_CONFIG = /usr/bin/pkg-config +#11 110.7 >> SYSTEM_ZMQ_INCLUDEDIR = +#11 110.7 >> SYSTEM_ZMQ_LIBDIR = +#11 110.7 >> ENABLE_INTERNAL_ZMQ = no +#11 110.7 >> INTERNAL_ZMQ_INCLUDEDIR = ./zmqsrc/include +#11 110.7 >> INTERNAL_ZMQ_LIBDIR = ./ +#11 110.7 >> EXTERNAL_ZMQ_INCLUDE = +#11 110.7 >> EXTERNAL_ZMQ_LDFLAGS = +#11 110.7 >> ZMQ_INCLUDE = -I./zmqsrc/include +#11 110.7 >> ZMQ_LDFLAGS = -L./ -lzmq +#11 110.7 >> EXT_LIBS = $(R_ZMQ) +#11 110.7 >> ZMQ_POLLER = select +#11 110.7 +#11 110.7 ************************************************************************ +#11 110.7 +#11 110.7 configure: creating ./config.status +#11 110.8 config.status: creating src/Makevars +#11 110.8 configure: creating ./config.status +#11 110.8 config.status: creating src/Makevars +#11 110.8 config.status: creating src/build_zmq +#11 110.8 configure: creating ./config.status +#11 110.8 config.status: creating src/Makevars +#11 110.8 config.status: creating src/build_zmq +#11 110.8 config.status: creating R/zzz.r +#11 110.8 ** libs +#11 110.9 ( sh ./chmod_zmq.inc; cd zmqsrc; sh ../build_zmq ) +#11 110.9 checking for a BSD-compatible install... /usr/bin/install -c +#11 110.9 checking whether build environment is sane... yes +#11 110.9 checking for a thread-safe mkdir -p... /usr/bin/mkdir -p +#11 110.9 checking for gawk... no +#11 110.9 checking for mawk... mawk +#11 110.9 checking whether make sets $(MAKE)... yes +#11 110.9 checking whether make supports nested variables... yes +#11 110.9 checking whether UID '0' is supported by ustar format... yes +#11 110.9 checking whether GID '0' is supported by ustar format... yes +#11 110.9 checking how to create a ustar tar archive... gnutar +#11 110.9 checking whether make supports nested variables... (cached) yes +#11 110.9 checking for gcc... gcc +#11 110.9 checking whether the C compiler works... yes +#11 111.0 checking for C compiler default output file name... a.out +#11 111.0 checking for suffix of executables... +#11 111.0 checking whether we are cross compiling... no +#11 111.1 checking for suffix of object files... o +#11 111.1 checking whether we are using the GNU C compiler... yes +#11 111.1 checking whether gcc accepts -g... yes +#11 111.1 checking for gcc option to accept ISO C89... none needed +#11 111.1 checking whether gcc understands -c and -o together... yes +#11 111.1 checking for style of include used by make... GNU +#11 111.1 checking dependency style of gcc... gcc3 +#11 111.2 checking whether C compiler accepts -std=gnu11... yes +#11 111.2 checking whether we are using the GNU C++ compiler... yes +#11 111.2 checking whether g++ -std=gnu++14 accepts -g... yes +#11 111.2 checking dependency style of g++ -std=gnu++14... gcc3 +#11 111.2 checking whether g++ -std=gnu++14 supports C++11 features by default... yes +#11 111.2 checking for a sed that does not truncate output... /bin/sed +#11 111.2 checking whether to build with code coverage support... no +#11 111.2 checking for a sed that does not truncate output... (cached) /bin/sed +#11 111.2 checking for gawk... (cached) mawk +#11 111.2 checking for pkg-config... /usr/bin/pkg-config +#11 111.2 checking pkg-config is at least version 0.9.0... yes +#11 111.2 checking for xmlto... no +#11 111.2 checking for asciidoc... no +#11 111.2 checking build system type... aarch64-unknown-linux-gnu +#11 111.2 checking host system type... aarch64-unknown-linux-gnu +#11 111.2 checking how to print strings... printf +#11 111.2 checking for a sed that does not truncate output... (cached) /bin/sed +#11 111.2 checking for grep that handles long lines and -e... /usr/bin/grep +#11 111.2 checking for egrep... /usr/bin/grep -E +#11 111.2 checking for fgrep... /usr/bin/grep -F +#11 111.2 checking for ld used by gcc... /usr/bin/ld +#11 111.2 checking if the linker (/usr/bin/ld) is GNU ld... yes +#11 111.2 checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B +#11 111.2 checking the name lister (/usr/bin/nm -B) interface... BSD nm +#11 111.3 checking whether ln -s works... yes +#11 111.3 checking the maximum length of command line arguments... 1572864 +#11 111.3 checking whether the shell understands some XSI constructs... yes +#11 111.3 checking whether the shell understands "+="... yes +#11 111.3 checking how to convert aarch64-unknown-linux-gnu file names to aarch64-unknown-linux-gnu format... func_convert_file_noop +#11 111.3 checking how to convert aarch64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop +#11 111.3 checking for /usr/bin/ld option to reload object files... -r +#11 111.3 checking for objdump... objdump +#11 111.3 checking how to recognize dependent libraries... pass_all +#11 111.3 checking for dlltool... dlltool +#11 111.3 checking how to associate runtime and link libraries... printf %s\n +#11 111.3 checking for ar... ar +#11 111.3 checking for archiver @FILE support... @ +#11 111.3 checking for strip... strip +#11 111.3 checking for ranlib... ranlib +#11 111.3 checking command to parse /usr/bin/nm -B output from gcc object... ok +#11 111.3 checking for sysroot... no +#11 111.3 checking for mt... no +#11 111.3 checking if : is a manifest tool... no +#11 111.3 checking how to run the C preprocessor... gcc -E +#11 111.3 checking for ANSI C header files... yes +#11 111.4 checking for sys/types.h... yes +#11 111.4 checking for sys/stat.h... yes +#11 111.4 checking for stdlib.h... yes +#11 111.5 checking for string.h... yes +#11 111.5 checking for memory.h... yes +#11 111.5 checking for strings.h... yes +#11 111.5 checking for inttypes.h... yes +#11 111.5 checking for stdint.h... yes +#11 111.5 checking for unistd.h... yes +#11 111.5 checking for dlfcn.h... yes +#11 111.6 checking for objdir... .libs +#11 111.6 checking if gcc supports -fno-rtti -fno-exceptions... no +#11 111.6 checking for gcc option to produce PIC... -fPIC -DPIC +#11 111.6 checking if gcc PIC flag -fPIC -DPIC works... yes +#11 111.6 checking if gcc static flag -static works... yes +#11 111.7 checking if gcc supports -c -o file.o... yes +#11 111.7 checking if gcc supports -c -o file.o... (cached) yes +#11 111.7 checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes +#11 111.7 checking whether -lc should be explicitly linked in... no +#11 111.7 checking dynamic linker characteristics... GNU/Linux ld.so +#11 111.8 checking how to hardcode library paths into programs... immediate +#11 111.8 checking whether stripping libraries is possible... yes +#11 111.8 checking if libtool supports shared libraries... yes +#11 111.8 checking whether to build shared libraries... yes +#11 111.8 checking whether to build static libraries... no +#11 111.8 checking how to run the C++ preprocessor... g++ -std=gnu++14 -E +#11 111.9 checking for ld used by g++ -std=gnu++14... /usr/bin/ld +#11 111.9 checking if the linker (/usr/bin/ld) is GNU ld... yes +#11 111.9 checking whether the g++ -std=gnu++14 linker (/usr/bin/ld) supports shared libraries... yes +#11 111.9 checking for g++ -std=gnu++14 option to produce PIC... -fPIC -DPIC +#11 111.9 checking if g++ -std=gnu++14 PIC flag -fPIC -DPIC works... yes +#11 111.9 checking if g++ -std=gnu++14 static flag -static works... yes +#11 112.0 checking if g++ -std=gnu++14 supports -c -o file.o... yes +#11 112.0 checking if g++ -std=gnu++14 supports -c -o file.o... (cached) yes +#11 112.0 checking whether the g++ -std=gnu++14 linker (/usr/bin/ld) supports shared libraries... yes +#11 112.0 checking dynamic linker characteristics... (cached) GNU/Linux ld.so +#11 112.0 checking how to hardcode library paths into programs... immediate +#11 112.0 checking for valgrind... no +#11 112.0 checking whether the C compiler works... yes +#11 112.1 checking whether we are using Intel C compiler... no +#11 112.1 checking whether we are using Sun Studio C compiler... no +#11 112.1 checking whether we are using clang C compiler... no +#11 112.1 checking whether we are using gcc >= 4 C compiler... yes +#11 112.1 checking whether the C++ compiler works... yes +#11 112.1 checking whether we are using Intel C++ compiler... no +#11 112.1 checking whether we are using Sun Studio C++ compiler... no +#11 112.2 checking whether we are using clang C++ compiler... no +#11 112.2 checking whether we are using gcc >= 4 C++ compiler... yes +#11 112.2 checking whether to enable debugging information... no +#11 112.2 checking whether to enable code coverage... no +#11 112.2 checking if TIPC is available and supports nonblocking connect... yes +#11 112.2 checking for library containing dladdr... none required +#11 112.3 checking for pthread_create in -lpthread... yes +#11 112.3 checking for clock_gettime in -lrt... yes +#11 112.3 checking whether C++ compiler supports -fvisibility=hidden... yes +#11 112.4 checking whether C++ compiler supports dso visibility... yes +#11 112.4 configure: WARNING: --without-documentation is DEPRECATED and will be removed in the next release, use --without-docs +#11 112.4 checking whether to build documentation... no +#11 112.4 checking whether to install manpages... no +#11 112.4 configure: Choosing polling system from 'select'... +#11 112.4 configure: Using 'select' polling system +#11 112.4 checking for ANSI C header files... (cached) yes +#11 112.4 checking errno.h usability... yes +#11 112.4 checking errno.h presence... yes +#11 112.4 checking for errno.h... yes +#11 112.4 checking time.h usability... yes +#11 112.5 checking time.h presence... yes +#11 112.5 checking for time.h... yes +#11 112.5 checking for unistd.h... (cached) yes +#11 112.5 checking limits.h usability... yes +#11 112.5 checking limits.h presence... yes +#11 112.5 checking for limits.h... yes +#11 112.5 checking stddef.h usability... yes +#11 112.5 checking stddef.h presence... yes +#11 112.5 checking for stddef.h... yes +#11 112.5 checking for stdlib.h... (cached) yes +#11 112.5 checking for string.h... (cached) yes +#11 112.5 checking arpa/inet.h usability... yes +#11 112.5 checking arpa/inet.h presence... yes +#11 112.5 checking for arpa/inet.h... yes +#11 112.5 checking netinet/tcp.h usability... yes +#11 112.6 checking netinet/tcp.h presence... yes +#11 112.6 checking for netinet/tcp.h... yes +#11 112.6 checking netinet/in.h usability... yes +#11 112.6 checking netinet/in.h presence... yes +#11 112.6 checking for netinet/in.h... yes +#11 112.6 checking sys/socket.h usability... yes +#11 112.6 checking sys/socket.h presence... yes +#11 112.6 checking for sys/socket.h... yes +#11 112.6 checking sys/time.h usability... yes +#11 112.6 checking sys/time.h presence... yes +#11 112.6 checking for sys/time.h... yes +#11 112.6 checking ifaddrs.h usability... yes +#11 112.7 checking ifaddrs.h presence... yes +#11 112.7 checking for ifaddrs.h... yes +#11 112.7 checking sys/uio.h usability... yes +#11 112.7 checking sys/uio.h presence... yes +#11 112.7 checking for sys/uio.h... yes +#11 112.7 checking whether SO_PEERCRED is declared... yes +#11 112.7 checking whether LOCAL_PEERCRED is declared... no +#11 112.7 checking for stdbool.h that conforms to C99... no +#11 112.7 checking for _Bool... no +#11 112.8 checking for an ANSI C-conforming const... yes +#11 112.8 checking for inline... inline +#11 112.8 checking for size_t... yes +#11 112.8 checking for ssize_t... yes +#11 112.9 checking whether time.h and sys/time.h may both be included... yes +#11 112.9 checking for uint32_t... yes +#11 112.9 checking for working volatile... yes +#11 112.9 configure: CURVE security is disabled +#11 112.9 checking "with_norm_ext = no"... no +#11 112.9 checking how to enable additional warnings for C++ compiler... -Wall +#11 112.9 checking how to turn warnings to errors in C++ compiler... not found +#11 112.9 checking whether compiler supports __atomic_Xxx intrinsics... yes +#11 112.9 checking return type of signal handlers... void +#11 113.0 checking for perror... yes +#11 113.0 checking for gettimeofday... yes +#11 113.1 checking for clock_gettime... yes +#11 113.1 checking for memset... yes +#11 113.2 checking for socket... yes +#11 113.2 checking for getifaddrs... yes +#11 113.3 checking for freeifaddrs... yes +#11 113.4 checking for fork... yes +#11 113.4 checking for posix_memalign... yes +#11 113.5 checking for mkdtemp... yes +#11 113.6 checking alloca.h usability... yes +#11 113.6 checking alloca.h presence... yes +#11 113.6 checking for alloca.h... yes +#11 113.6 checking whether SOCK_CLOEXEC is supported... yes +#11 113.6 checking whether SO_KEEPALIVE is supported... yes +#11 113.7 checking whether TCP_KEEPCNT is supported... yes +#11 113.7 checking whether TCP_KEEPIDLE is supported... yes +#11 113.8 checking whether TCP_KEEPINTVL is supported... yes +#11 113.9 checking whether TCP_KEEPALIVE is supported... no +#11 113.9 checking for ./.git... no +#11 113.9 configure: Building stable and legacy API (no draft API) +#11 113.9 checking for LIBUNWIND... no +#11 113.9 configure: WARNING: Cannot find libunwind +#11 113.9 checking that generated files are newer than configure... done +#11 113.9 configure: creating ./config.status +#11 114.1 config.status: creating Makefile +#11 114.1 config.status: creating src/libzmq.pc +#11 114.1 config.status: creating src/platform.hpp +#11 114.1 config.status: executing depfiles commands +#11 114.2 config.status: executing libtool commands +#11 114.3 make[1]: Entering directory '/tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmqsrc' +#11 114.3 make[2]: Entering directory '/tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmqsrc' +#11 114.3 CXX src/src_libzmq_la-address.lo +#11 114.5 CXX src/src_libzmq_la-client.lo +#11 114.7 CXX src/src_libzmq_la-clock.lo +#11 114.7 CXX src/src_libzmq_la-ctx.lo +#11 115.4 CXX src/src_libzmq_la-curve_client.lo +#11 115.4 CXX src/src_libzmq_la-curve_server.lo +#11 115.5 CXX src/src_libzmq_la-dealer.lo +#11 115.6 CXX src/src_libzmq_la-devpoll.lo +#11 115.7 CXX src/src_libzmq_la-dgram.lo +#11 116.0 CXX src/src_libzmq_la-dish.lo +#11 116.3 CXX src/src_libzmq_la-dist.lo +#11 116.4 CXX src/src_libzmq_la-epoll.lo +#11 116.6 CXX src/src_libzmq_la-err.lo +#11 116.6 CXX src/src_libzmq_la-fq.lo +#11 116.8 CXX src/src_libzmq_la-gather.lo +#11 116.9 CXX src/src_libzmq_la-gssapi_mechanism_base.lo +#11 117.0 CXX src/src_libzmq_la-gssapi_client.lo +#11 117.0 CXX src/src_libzmq_la-gssapi_server.lo +#11 117.0 CXX src/src_libzmq_la-io_object.lo +#11 117.2 CXX src/src_libzmq_la-io_thread.lo +#11 117.3 CXX src/src_libzmq_la-ip.lo +#11 117.4 CXX src/src_libzmq_la-ipc_address.lo +#11 117.6 CXX src/src_libzmq_la-ipc_connecter.lo +#11 117.8 CXX src/src_libzmq_la-ipc_listener.lo +#11 118.0 CXX src/src_libzmq_la-kqueue.lo +#11 118.2 CXX src/src_libzmq_la-lb.lo +#11 118.3 CXX src/src_libzmq_la-mailbox.lo +#11 118.4 CXX src/src_libzmq_la-mailbox_safe.lo +#11 118.6 CXX src/src_libzmq_la-mechanism.lo +#11 118.9 CXX src/src_libzmq_la-metadata.lo +#11 119.1 CXX src/src_libzmq_la-msg.lo +#11 119.2 CXX src/src_libzmq_la-mtrie.lo +#11 119.5 CXX src/src_libzmq_la-norm_engine.lo +#11 119.5 CXX src/src_libzmq_la-null_mechanism.lo +#11 119.7 CXX src/src_libzmq_la-object.lo +#11 120.0 CXX src/src_libzmq_la-options.lo +#11 120.3 CXX src/src_libzmq_la-own.lo +#11 120.6 CXX src/src_libzmq_la-pair.lo +#11 120.8 CXX src/src_libzmq_la-pgm_receiver.lo +#11 120.8 CXX src/src_libzmq_la-pgm_sender.lo +#11 120.8 CXX src/src_libzmq_la-pgm_socket.lo +#11 120.9 CXX src/src_libzmq_la-pipe.lo +#11 121.2 CXX src/src_libzmq_la-plain_client.lo +#11 121.3 CXX src/src_libzmq_la-plain_server.lo +#11 121.6 CXX src/src_libzmq_la-poll.lo +#11 121.7 CXX src/src_libzmq_la-poller_base.lo +#11 121.8 CXX src/src_libzmq_la-pollset.lo +#11 121.9 CXX src/src_libzmq_la-precompiled.lo +#11 121.9 CXX src/src_libzmq_la-proxy.lo +#11 122.1 CXX src/src_libzmq_la-pub.lo +#11 122.3 CXX src/src_libzmq_la-pull.lo +#11 122.5 CXX src/src_libzmq_la-push.lo +#11 122.6 CXX src/src_libzmq_la-radio.lo +#11 122.9 CXX src/src_libzmq_la-random.lo +#11 123.0 CXX src/src_libzmq_la-raw_decoder.lo +#11 123.1 CXX src/src_libzmq_la-raw_encoder.lo +#11 123.2 CXX src/src_libzmq_la-reaper.lo +#11 123.4 CXX src/src_libzmq_la-rep.lo +#11 123.5 CXX src/src_libzmq_la-req.lo +#11 123.7 CXX src/src_libzmq_la-router.lo +#11 124.1 CXX src/src_libzmq_la-scatter.lo +#11 124.3 CXX src/src_libzmq_la-select.lo +#11 124.5 CXX src/src_libzmq_la-server.lo +#11 124.7 CXX src/src_libzmq_la-session_base.lo +#11 125.1 CXX src/src_libzmq_la-signaler.lo +#11 125.2 CXX src/src_libzmq_la-socket_base.lo +#11 126.1 CXX src/src_libzmq_la-socks.lo +#11 126.2 CXX src/src_libzmq_la-socks_connecter.lo +#11 126.4 CXX src/src_libzmq_la-stream.lo +#11 126.7 CXX src/src_libzmq_la-stream_engine.lo +#11 127.3 CXX src/src_libzmq_la-sub.lo +#11 127.5 CXX src/src_libzmq_la-tcp.lo +#11 127.6 CXX src/src_libzmq_la-tcp_address.lo +#11 127.9 CXX src/src_libzmq_la-tcp_connecter.lo +#11 128.1 CXX src/src_libzmq_la-tcp_listener.lo +#11 128.2 CXX src/src_libzmq_la-thread.lo +#11 128.3 CXX src/src_libzmq_la-timers.lo +#11 128.4 CXX src/src_libzmq_la-tipc_address.lo +#11 128.6 CXX src/src_libzmq_la-tipc_connecter.lo +#11 128.8 CXX src/src_libzmq_la-tipc_listener.lo +#11 129.0 CXX src/src_libzmq_la-trie.lo +#11 129.1 CXX src/src_libzmq_la-udp_address.lo +#11 129.2 CXX src/src_libzmq_la-udp_engine.lo +#11 129.6 CXX src/src_libzmq_la-v1_decoder.lo +#11 129.7 CXX src/src_libzmq_la-v2_decoder.lo +#11 129.8 CXX src/src_libzmq_la-v1_encoder.lo +#11 130.0 CXX src/src_libzmq_la-v2_encoder.lo +#11 130.1 CXX src/src_libzmq_la-vmci.lo +#11 130.2 CXX src/src_libzmq_la-vmci_address.lo +#11 130.4 CXX src/src_libzmq_la-vmci_connecter.lo +#11 130.4 CXX src/src_libzmq_la-vmci_listener.lo +#11 130.4 CXX src/src_libzmq_la-xpub.lo +#11 130.8 CXX src/src_libzmq_la-xsub.lo +#11 131.0 CXX src/src_libzmq_la-zmq.lo +#11 131.3 CXX src/src_libzmq_la-zmq_utils.lo +#11 131.3 CXX src/src_libzmq_la-decoder_allocators.lo +#11 131.4 CXX src/src_libzmq_la-socket_poller.lo +#11 131.7 CXX src/src_libzmq_la-zzz.lo +#11 131.7 CXXLD src/libzmq.la +#11 131.9 make[2]: Leaving directory '/tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmqsrc' +#11 131.9 make[1]: Leaving directory '/tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmqsrc' +#11 131.9 make[1]: Entering directory '/tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmqsrc' +#11 131.9 make[2]: Entering directory '/tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmqsrc' +#11 132.0 make[3]: Entering directory '/tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmqsrc' +#11 132.0 /usr/bin/mkdir -p '/tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmq/lib' +#11 132.0 /bin/bash ./libtool --mode=install /usr/bin/install -c src/libzmq.la '/tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmq/lib' +#11 132.0 libtool: install: /usr/bin/install -c src/.libs/libzmq.so.5.1.2 /tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmq/lib/libzmq.so.5.1.2 +#11 132.0 libtool: install: (cd /tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmq/lib && { ln -s -f libzmq.so.5.1.2 libzmq.so.5 || { rm -f libzmq.so.5 && ln -s libzmq.so.5.1.2 libzmq.so.5; }; }) +#11 132.0 libtool: install: (cd /tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmq/lib && { ln -s -f libzmq.so.5.1.2 libzmq.so || { rm -f libzmq.so && ln -s libzmq.so.5.1.2 libzmq.so; }; }) +#11 132.0 libtool: install: /usr/bin/install -c src/.libs/libzmq.lai /tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmq/lib/libzmq.la +#11 132.0 libtool: finish: PATH="/opt/conda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/sbin" ldconfig -n /tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmq/lib +#11 132.0 ---------------------------------------------------------------------- +#11 132.0 Libraries have been installed in: +#11 132.0 /tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmq/lib +#11 132.0 +#11 132.0 If you ever happen to want to link against installed libraries +#11 132.0 in a given directory, LIBDIR, you must either use libtool, and +#11 132.0 specify the full pathname of the library, or use the `-LLIBDIR' +#11 132.0 flag during linking and do at least one of the following: +#11 132.0 - add LIBDIR to the `LD_LIBRARY_PATH' environment variable +#11 132.0 during execution +#11 132.0 - add LIBDIR to the `LD_RUN_PATH' environment variable +#11 132.0 during linking +#11 132.0 - use the `-Wl,-rpath -Wl,LIBDIR' linker flag +#11 132.0 - have your system administrator add LIBDIR to `/etc/ld.so.conf' +#11 132.0 +#11 132.0 See any operating system documentation about shared libraries for +#11 132.0 more information, such as the ld(1) and ld.so(8) manual pages. +#11 132.0 ---------------------------------------------------------------------- +#11 132.0 /usr/bin/mkdir -p '/tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmq/include' +#11 132.0 /usr/bin/install -c -m 644 include/zmq.h include/zmq_utils.h include/zmq.hpp include/zmq_addon.hpp '/tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmq/include' +#11 132.0 /usr/bin/mkdir -p '/tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmq/lib/pkgconfig' +#11 132.0 /usr/bin/install -c -m 644 src/libzmq.pc '/tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmq/lib/pkgconfig' +#11 132.0 make[3]: Leaving directory '/tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmqsrc' +#11 132.0 make[2]: Leaving directory '/tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmqsrc' +#11 132.0 make[1]: Leaving directory '/tmp/RtmpL6JVmS/R.INSTALL1f4133e1faa0/pbdZMQ/src/zmqsrc' +#11 132.0 mv ./zmqsrc/Makefile ./zmqsrc/Makefile.done +#11 132.0 # ( cp ./zmq/lib/libzmq.so ./libzmq.so ) +#11 132.0 ( cp ./zmq/lib/libzmq* ./ ) +#11 132.0 gcc -I"/usr/share/R/include" -DNDEBUG -I./zmqsrc/include -I./zmqsrc/include -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c R_zmq_context.c -o R_zmq_context.o +#11 132.0 gcc -I"/usr/share/R/include" -DNDEBUG -I./zmqsrc/include -I./zmqsrc/include -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c R_zmq_socket.c -o R_zmq_socket.o +#11 132.1 gcc -I"/usr/share/R/include" -DNDEBUG -I./zmqsrc/include -I./zmqsrc/include -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c R_zmq_sendrecv.c -o R_zmq_sendrecv.o +#11 132.1 gcc -I"/usr/share/R/include" -DNDEBUG -I./zmqsrc/include -I./zmqsrc/include -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c R_zmq_utility.c -o R_zmq_utility.o +#11 132.1 gcc -I"/usr/share/R/include" -DNDEBUG -I./zmqsrc/include -I./zmqsrc/include -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c R_zmq_message.c -o R_zmq_message.o +#11 132.1 gcc -I"/usr/share/R/include" -DNDEBUG -I./zmqsrc/include -I./zmqsrc/include -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c R_zmq_transfer.c -o R_zmq_transfer.o +#11 132.2 gcc -I"/usr/share/R/include" -DNDEBUG -I./zmqsrc/include -I./zmqsrc/include -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c shellexec_wcc.c -o shellexec_wcc.o +#11 132.2 gcc -I"/usr/share/R/include" -DNDEBUG -I./zmqsrc/include -I./zmqsrc/include -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c R_zmq_poll.c -o R_zmq_poll.o +#11 132.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./zmqsrc/include -I./zmqsrc/include -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c R_cxx_dummy.cc -o R_cxx_dummy.o +#11 132.3 gcc -I"/usr/share/R/include" -DNDEBUG -I./zmqsrc/include -I./zmqsrc/include -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c zzz.c -o zzz.o +#11 132.3 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o pbdZMQ.so R_zmq_context.o R_zmq_socket.o R_zmq_sendrecv.o R_zmq_utility.o R_zmq_message.o R_zmq_transfer.o shellexec_wcc.o R_zmq_poll.o R_cxx_dummy.o zzz.o -L./ -lzmq -L/usr/lib/R/lib -lR +#11 132.3 installing via 'install.libs.R' to /usr/local/lib/R/site-library/00LOCK-pbdZMQ/00new/pbdZMQ +#11 132.3 ** R +#11 132.3 ** demo +#11 132.3 ** inst +#11 132.3 ** byte-compile and prepare package for lazy loading +#11 132.5 ** help +#11 132.6 *** installing help indices +#11 132.6 ** building package indices +#11 132.6 ** installing vignettes +#11 132.7 ‘pbdZMQ-guide.Rnw’ +#11 132.7 ** testing if installed package can be loaded from temporary location +#11 132.7 ** checking absolute paths in shared objects and dynamic libraries +#11 132.8 ** testing if installed package can be loaded from final location +#11 132.9 ** testing if installed package keeps a record of temporary installation path +#11 132.9 * DONE (pbdZMQ) +#11 133.0 * installing *source* package ‘crayon’ ... +#11 133.0 ** package ‘crayon’ successfully unpacked and MD5 sums checked +#11 133.0 ** using staged installation +#11 133.0 ** R +#11 133.0 ** byte-compile and prepare package for lazy loading +#11 133.3 ** help +#11 133.3 *** installing help indices +#11 133.3 ** building package indices +#11 133.4 ** testing if installed package can be loaded from temporary location +#11 133.5 ** testing if installed package can be loaded from final location +#11 133.6 ** testing if installed package keeps a record of temporary installation path +#11 133.6 * DONE (crayon) +#11 133.7 * installing *source* package ‘jsonlite’ ... +#11 133.7 ** package ‘jsonlite’ successfully unpacked and MD5 sums checked +#11 133.7 ** using staged installation +#11 133.7 ** libs +#11 133.7 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c base64.c -o base64.o +#11 133.7 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c collapse_array.c -o collapse_array.o +#11 133.8 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c collapse_object.c -o collapse_object.o +#11 133.8 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c collapse_pretty.c -o collapse_pretty.o +#11 133.8 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c escape_chars.c -o escape_chars.o +#11 133.9 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c integer64_to_na.c -o integer64_to_na.o +#11 133.9 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c is_datelist.c -o is_datelist.o +#11 133.9 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c is_recordlist.c -o is_recordlist.o +#11 133.9 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c is_scalarlist.c -o is_scalarlist.o +#11 134.0 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c modp_numtoa.c -o modp_numtoa.o +#11 134.0 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c null_to_na.c -o null_to_na.o +#11 134.0 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c num_to_char.c -o num_to_char.o +#11 134.1 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c parse.c -o parse.o +#11 134.1 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c prettify.c -o prettify.o +#11 134.1 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c push_parser.c -o push_parser.o +#11 134.2 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c r-base64.c -o r-base64.o +#11 134.2 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c register.c -o register.o +#11 134.2 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c row_collapse.c -o row_collapse.o +#11 134.2 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c transpose_list.c -o transpose_list.o +#11 134.2 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c validate.c -o validate.o +#11 134.3 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c yajl/yajl.c -o yajl/yajl.o +#11 134.3 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c yajl/yajl_alloc.c -o yajl/yajl_alloc.o +#11 134.3 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c yajl/yajl_buf.c -o yajl/yajl_buf.o +#11 134.3 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c yajl/yajl_encode.c -o yajl/yajl_encode.o +#11 134.4 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c yajl/yajl_gen.c -o yajl/yajl_gen.o +#11 134.5 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c yajl/yajl_lex.c -o yajl/yajl_lex.o +#11 134.6 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c yajl/yajl_parser.c -o yajl/yajl_parser.o +#11 134.6 gcc -I"/usr/share/R/include" -DNDEBUG -Iyajl/api -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c yajl/yajl_tree.c -o yajl/yajl_tree.o +#11 134.7 ar rcs yajl/libstatyajl.a yajl/yajl.o yajl/yajl_alloc.o yajl/yajl_buf.o yajl/yajl_encode.o yajl/yajl_gen.o yajl/yajl_lex.o yajl/yajl_parser.o yajl/yajl_tree.o +#11 134.7 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o jsonlite.so base64.o collapse_array.o collapse_object.o collapse_pretty.o escape_chars.o integer64_to_na.o is_datelist.o is_recordlist.o is_scalarlist.o modp_numtoa.o null_to_na.o num_to_char.o parse.o prettify.o push_parser.o r-base64.o register.o row_collapse.o transpose_list.o validate.o -Lyajl -lstatyajl -L/usr/lib/R/lib -lR +#11 134.7 installing to /usr/local/lib/R/site-library/00LOCK-jsonlite/00new/jsonlite/libs +#11 134.7 ** R +#11 134.7 ** inst +#11 134.7 ** byte-compile and prepare package for lazy loading +#11 135.0 in method for ‘asJSON’ with signature ‘"AsIs"’: no definition for class “AsIs” +#11 135.0 in method for ‘asJSON’ with signature ‘"ITime"’: no definition for class “ITime” +#11 135.0 in method for ‘asJSON’ with signature ‘"hms"’: no definition for class “hms” +#11 135.0 in method for ‘asJSON’ with signature ‘"json"’: no definition for class “json” +#11 135.0 in method for ‘asJSON’ with signature ‘"integer64"’: no definition for class “integer64” +#11 135.0 in method for ‘asJSON’ with signature ‘"pairlist"’: no definition for class “pairlist” +#11 135.0 in method for ‘asJSON’ with signature ‘"blob"’: no definition for class “blob” +#11 135.0 in method for ‘asJSON’ with signature ‘"scalar"’: no definition for class “scalar” +#11 135.0 in method for ‘asJSON’ with signature ‘"sf"’: no definition for class “sf” +#11 135.0 in method for ‘asJSON’ with signature ‘"sfc"’: no definition for class “sfc” +#11 135.0 in method for ‘asJSON’ with signature ‘"vctrs_vctr"’: no definition for class “vctrs_vctr” +#11 135.0 ** help +#11 135.0 *** installing help indices +#11 135.0 ** building package indices +#11 135.1 ** installing vignettes +#11 135.1 ** testing if installed package can be loaded from temporary location +#11 135.2 ** checking absolute paths in shared objects and dynamic libraries +#11 135.2 ** testing if installed package can be loaded from final location +#11 135.3 ** testing if installed package keeps a record of temporary installation path +#11 135.3 * DONE (jsonlite) +#11 135.4 * installing *source* package ‘uuid’ ... +#11 135.4 ** package ‘uuid’ successfully unpacked and MD5 sums checked +#11 135.4 ** using staged installation +#11 135.4 checking for gcc... gcc +#11 135.4 checking whether the C compiler works... yes +#11 135.5 checking for C compiler default output file name... a.out +#11 135.5 checking for suffix of executables... +#11 135.5 checking whether we are cross compiling... no +#11 135.5 checking for suffix of object files... o +#11 135.5 checking whether the compiler supports GNU C... yes +#11 135.5 checking whether gcc accepts -g... yes +#11 135.5 checking for gcc option to enable C11 features... none needed +#11 135.5 checking for stdio.h... yes +#11 135.5 checking for stdlib.h... yes +#11 135.5 checking for string.h... yes +#11 135.6 checking for inttypes.h... yes +#11 135.6 checking for stdint.h... yes +#11 135.6 checking for strings.h... yes +#11 135.6 checking for sys/stat.h... yes +#11 135.6 checking for sys/types.h... yes +#11 135.6 checking for unistd.h... yes +#11 135.6 checking for grp.h... yes +#11 135.7 checking for langinfo.h... yes +#11 135.7 checking for locale.h... yes +#11 135.7 checking for netinet/in.h... yes +#11 135.7 checking for stdlib.h... (cached) yes +#11 135.7 checking for sys/file.h... yes +#11 135.7 checking for sys/ioctl.h... yes +#11 135.7 checking for sys/socket.h... yes +#11 135.7 checking for sys/sockio.h... no +#11 135.8 checking for sys/syscall.h... yes +#11 135.8 checking for sys/sendfile.h... yes +#11 135.8 checking for sys/time.h... yes +#11 135.8 checking for sys/un.h... yes +#11 135.8 checking for unistd.h... (cached) yes +#11 135.8 checking for net/if.h... yes +#11 135.8 checking for net/if_dl.h... no +#11 135.8 checking for dirfd... yes +#11 135.8 checking for err... yes +#11 135.9 checking for errx... yes +#11 135.9 checking for getexecname... no +#11 135.9 checking for getrandom... yes +#11 135.9 checking for jrand48... yes +#11 135.9 checking for llseek... no +#11 136.0 checking for lchown... yes +#11 136.0 checking for mempcpy... yes +#11 136.0 checking for mkostemp... yes +#11 136.0 checking for nanosleep... yes +#11 136.0 checking for sendfile... yes +#11 136.0 checking for srandom... yes +#11 136.0 checking for strnchr... no +#11 136.1 checking for strndup... yes +#11 136.1 checking for strnlen... yes +#11 136.1 checking for usleep... yes +#11 136.1 checking for warn... yes +#11 136.1 checking for warnx... yes +#11 136.1 checking for flock... yes +#11 136.2 checking for struct sockaddr.sa_len... no +#11 136.2 checking for dlfcn.h... yes +#11 136.2 checking for library containing dlsym... none required +#11 136.2 checking for thread local storage (TLS) support... yes +#11 136.2 configure: creating ./config.status +#11 136.3 config.status: creating src/Makevars +#11 136.3 config.status: creating src/config.h +#11 136.3 ** libs +#11 136.3 gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c R.c -o R.o +#11 136.3 gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Ruuid.c -o Ruuid.o +#11 136.4 gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c clear.c -o clear.o +#11 136.4 gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c compare.c -o compare.o +#11 136.4 gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c copy.c -o copy.o +#11 136.4 gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gen_uuid.c -o gen_uuid.o +#11 136.5 gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c isnull.c -o isnull.o +#11 136.5 gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c md5.c -o md5.o +#11 136.5 gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pack.c -o pack.o +#11 136.5 gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c parse.c -o parse.o +#11 136.5 gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rand.c -o rand.o +#11 136.6 gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c randutils.c -o randutils.o +#11 136.6 gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sha1.c -o sha1.o +#11 136.7 gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c unpack.c -o unpack.o +#11 136.7 gcc -I"/usr/share/R/include" -DNDEBUG -include config.h -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c unparse.c -o unparse.o +#11 136.7 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o uuid.so R.o Ruuid.o clear.o compare.o copy.o gen_uuid.o isnull.o md5.o pack.o parse.o rand.o randutils.o sha1.o unpack.o unparse.o -L/usr/lib/R/lib -lR +#11 136.7 installing to /usr/local/lib/R/site-library/00LOCK-uuid/00new/uuid/libs +#11 136.7 ** R +#11 136.7 ** inst +#11 136.7 ** byte-compile and prepare package for lazy loading +#11 136.8 ** help +#11 136.8 *** installing help indices +#11 136.8 ** building package indices +#11 136.9 ** testing if installed package can be loaded from temporary location +#11 137.0 ** checking absolute paths in shared objects and dynamic libraries +#11 137.0 ** testing if installed package can be loaded from final location +#11 137.0 ** testing if installed package keeps a record of temporary installation path +#11 137.0 * DONE (uuid) +#11 137.1 * installing *source* package ‘digest’ ... +#11 137.1 ** package ‘digest’ successfully unpacked and MD5 sums checked +#11 137.1 ** using staged installation +#11 137.1 ** libs +#11 137.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c SpookyV2.cpp -o SpookyV2.o +#11 137.2 gcc -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c aes.c -o aes.o +#11 137.3 gcc -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c blake3.c -o blake3.o +#11 137.4 In file included from /usr/include/string.h:535, +#11 137.4 from blake3.c:11: +#11 137.4 In function ‘memcpy’, +#11 137.4 inlined from ‘compress_subtree_to_parent_node’ at blake3.c:357:5, +#11 137.4 inlined from ‘blake3_hasher_update.part.0’ at blake3.c:535:7: +#11 137.4 /usr/include/aarch64-linux-gnu/bits/string_fortified.h:29:10: warning: ‘__builtin_memcpy’ reading 64 bytes from a region of size 32 [-Wstringop-overread] +#11 137.4 29 | return __builtin___memcpy_chk (__dest, __src, __len, +#11 137.4 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 137.4 30 | __glibc_objsize0 (__dest)); +#11 137.4 | ~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 137.4 /usr/include/aarch64-linux-gnu/bits/string_fortified.h: In function ‘blake3_hasher_update.part.0’: +#11 137.4 blake3.c:353:11: note: source object ‘out_array’ of size 32 +#11 137.4 353 | uint8_t out_array[MAX_SIMD_DEGREE_OR_2 * BLAKE3_OUT_LEN / 2]; +#11 137.4 | ^~~~~~~~~ +#11 137.4 In file included from /usr/include/string.h:535, +#11 137.4 from blake3.c:11: +#11 137.4 In function ‘memcpy’, +#11 137.4 inlined from ‘compress_parents_parallel’ at blake3.c:244:5, +#11 137.4 inlined from ‘compress_subtree_to_parent_node’ at blake3.c:356:9, +#11 137.4 inlined from ‘blake3_hasher_update.part.0’ at blake3.c:535:7: +#11 137.4 /usr/include/aarch64-linux-gnu/bits/string_fortified.h:29:10: warning: ‘__builtin_memcpy’ writing 32 bytes into a region of size 0 overflows the destination [-Wstringop-overflow=] +#11 137.4 29 | return __builtin___memcpy_chk (__dest, __src, __len, +#11 137.4 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 137.4 30 | __glibc_objsize0 (__dest)); +#11 137.4 | ~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 137.4 /usr/include/aarch64-linux-gnu/bits/string_fortified.h: In function ‘blake3_hasher_update.part.0’: +#11 137.4 blake3.c:353:11: note: at offset 32 into destination object ‘out_array’ of size 32 +#11 137.4 353 | uint8_t out_array[MAX_SIMD_DEGREE_OR_2 * BLAKE3_OUT_LEN / 2]; +#11 137.4 | ^~~~~~~~~ +#11 137.4 In file included from /usr/include/string.h:535, +#11 137.4 from blake3.c:11: +#11 137.4 In function ‘memcpy’, +#11 137.4 inlined from ‘compress_subtree_to_parent_node’ at blake3.c:357:5, +#11 137.4 inlined from ‘blake3_hasher_update.part.0’ at blake3.c:535:7: +#11 137.4 /usr/include/aarch64-linux-gnu/bits/string_fortified.h:29:10: warning: ‘__builtin_memcpy’ reading 64 bytes from a region of size 32 [-Wstringop-overread] +#11 137.4 29 | return __builtin___memcpy_chk (__dest, __src, __len, +#11 137.4 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 137.4 30 | __glibc_objsize0 (__dest)); +#11 137.4 | ~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 137.4 /usr/include/aarch64-linux-gnu/bits/string_fortified.h: In function ‘blake3_hasher_update.part.0’: +#11 137.4 blake3.c:353:11: note: source object ‘out_array’ of size 32 +#11 137.4 353 | uint8_t out_array[MAX_SIMD_DEGREE_OR_2 * BLAKE3_OUT_LEN / 2]; +#11 137.4 | ^~~~~~~~~ +#11 137.4 In file included from /usr/include/string.h:535, +#11 137.4 from blake3.c:11: +#11 137.4 In function ‘memcpy’, +#11 137.4 inlined from ‘compress_parents_parallel’ at blake3.c:244:5, +#11 137.4 inlined from ‘compress_subtree_to_parent_node’ at blake3.c:356:9, +#11 137.4 inlined from ‘blake3_hasher_update.part.0’ at blake3.c:535:7: +#11 137.4 /usr/include/aarch64-linux-gnu/bits/string_fortified.h:29:10: warning: ‘__builtin_memcpy’ writing 32 bytes into a region of size 0 overflows the destination [-Wstringop-overflow=] +#11 137.4 29 | return __builtin___memcpy_chk (__dest, __src, __len, +#11 137.4 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 137.4 30 | __glibc_objsize0 (__dest)); +#11 137.4 | ~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 137.4 /usr/include/aarch64-linux-gnu/bits/string_fortified.h: In function ‘blake3_hasher_update.part.0’: +#11 137.4 blake3.c:353:11: note: at offset 64 into destination object ‘out_array’ of size 32 +#11 137.4 353 | uint8_t out_array[MAX_SIMD_DEGREE_OR_2 * BLAKE3_OUT_LEN / 2]; +#11 137.4 | ^~~~~~~~~ +#11 137.4 In file included from /usr/include/string.h:535, +#11 137.4 from blake3.c:11: +#11 137.4 In function ‘memcpy’, +#11 137.4 inlined from ‘compress_subtree_to_parent_node’ at blake3.c:357:5, +#11 137.4 inlined from ‘blake3_hasher_update.part.0’ at blake3.c:535:7: +#11 137.4 /usr/include/aarch64-linux-gnu/bits/string_fortified.h:29:10: warning: ‘__builtin_memcpy’ reading 96 bytes from a region of size 32 [-Wstringop-overread] +#11 137.4 29 | return __builtin___memcpy_chk (__dest, __src, __len, +#11 137.4 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 137.4 30 | __glibc_objsize0 (__dest)); +#11 137.4 | ~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 137.4 /usr/include/aarch64-linux-gnu/bits/string_fortified.h: In function ‘blake3_hasher_update.part.0’: +#11 137.4 blake3.c:353:11: note: source object ‘out_array’ of size 32 +#11 137.4 353 | uint8_t out_array[MAX_SIMD_DEGREE_OR_2 * BLAKE3_OUT_LEN / 2]; +#11 137.4 | ^~~~~~~~~ +#11 137.5 gcc -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c blake3_dispatch.c -o blake3_dispatch.o +#11 137.5 gcc -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c blake3_portable.c -o blake3_portable.o +#11 137.7 gcc -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c crc32.c -o crc32.o +#11 137.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c crc32c.cpp -o crc32c.o +#11 137.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c crc32c_portable.cpp -o crc32c_portable.o +#11 137.8 gcc -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c digest.c -o digest.o +#11 137.9 gcc -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c digest2int.c -o digest2int.o +#11 137.9 gcc -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 137.9 gcc -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c md5.c -o md5.o +#11 138.0 gcc -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pmurhash.c -o pmurhash.o +#11 138.0 gcc -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c raes.c -o raes.o +#11 138.0 gcc -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sha1.c -o sha1.o +#11 138.1 gcc -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sha2.c -o sha2.o +#11 138.2 gcc -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sha256.c -o sha256.o +#11 138.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c spooky_serialize.cpp -o spooky_serialize.o +#11 138.4 gcc -I"/usr/share/R/include" -DNDEBUG -I. -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c xxhash.c -o xxhash.o +#11 139.1 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o digest.so SpookyV2.o aes.o blake3.o blake3_dispatch.o blake3_portable.o crc32.o crc32c.o crc32c_portable.o digest.o digest2int.o init.o md5.o pmurhash.o raes.o sha1.o sha2.o sha256.o spooky_serialize.o xxhash.o -L/usr/lib/R/lib -lR +#11 139.1 installing to /usr/local/lib/R/site-library/00LOCK-digest/00new/digest/libs +#11 139.1 ** R +#11 139.1 ** demo +#11 139.1 ** inst +#11 139.1 ** byte-compile and prepare package for lazy loading +#11 139.3 ** help +#11 139.3 *** installing help indices +#11 139.3 ** building package indices +#11 139.4 ** installing vignettes +#11 139.4 ** testing if installed package can be loaded from temporary location +#11 139.5 ** checking absolute paths in shared objects and dynamic libraries +#11 139.5 ** testing if installed package can be loaded from final location +#11 139.5 ** testing if installed package keeps a record of temporary installation path +#11 139.5 * DONE (digest) +#11 139.7 * installing *source* package ‘cli’ ... +#11 139.7 ** package ‘cli’ successfully unpacked and MD5 sums checked +#11 139.7 ** using staged installation +#11 139.7 ** libs +#11 139.7 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ansi.c -o ansi.o +#11 139.9 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cleancall.c -o cleancall.o +#11 139.9 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c diff.c -o diff.o +#11 140.0 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c errors.c -o errors.o +#11 140.0 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c glue.c -o glue.o +#11 140.1 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 140.1 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c inst.c -o inst.o +#11 140.1 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c keypress-unix.c -o keypress-unix.o +#11 140.2 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c keypress-win.c -o keypress-win.o +#11 140.2 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c keypress.c -o keypress.o +#11 140.2 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c md5.c -o md5.o +#11 140.3 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c progress-altrep.c -o progress-altrep.o +#11 140.4 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c progress.c -o progress.o +#11 140.4 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sha1.c -o sha1.o +#11 140.5 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sha256.c -o sha256.o +#11 140.6 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c thread.c -o thread.o +#11 140.6 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tty.c -o tty.o +#11 140.6 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utf8.c -o utf8.o +#11 140.8 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils.c -o utils.o +#11 140.8 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vt.c -o vt.o +#11 140.9 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vtparse.c -o vtparse.o +#11 140.9 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vtparse_table.c -o vtparse_table.o +#11 140.9 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c win-utf8.c -o win-utf8.o +#11 141.0 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c winfiles.c -o winfiles.o +#11 141.0 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c xxhash.c -o xxhash.o +#11 141.0 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c xxhash2.c -o xxhash2.o +#11 141.5 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o cli.so ansi.o cleancall.o diff.o errors.o glue.o init.o inst.o keypress-unix.o keypress-win.o keypress.o md5.o progress-altrep.o progress.o sha1.o sha256.o thread.o tty.o utf8.o utils.o vt.o vtparse.o vtparse_table.o win-utf8.o winfiles.o xxhash.o xxhash2.o -lpthread -L/usr/lib/R/lib -lR +#11 141.5 installing to /usr/local/lib/R/site-library/00LOCK-cli/00new/cli/libs +#11 141.5 ** R +#11 141.6 ** exec +#11 141.6 ** inst +#11 141.6 ** byte-compile and prepare package for lazy loading +#11 143.0 ** help +#11 143.2 *** installing help indices +#11 143.3 *** copying figures +#11 143.3 ** building package indices +#11 143.4 ** testing if installed package can be loaded from temporary location +#11 143.5 ** checking absolute paths in shared objects and dynamic libraries +#11 143.5 ** testing if installed package can be loaded from final location +#11 143.7 ** testing if installed package keeps a record of temporary installation path +#11 143.7 * DONE (cli) +#11 143.8 * installing *source* package ‘magrittr’ ... +#11 143.8 ** package ‘magrittr’ successfully unpacked and MD5 sums checked +#11 143.8 ** using staged installation +#11 143.8 ** libs +#11 143.8 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pipe.c -o pipe.o +#11 143.8 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils.c -o utils.o +#11 143.8 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o magrittr.so pipe.o utils.o -L/usr/lib/R/lib -lR +#11 143.9 installing to /usr/local/lib/R/site-library/00LOCK-magrittr/00new/magrittr/libs +#11 143.9 ** R +#11 143.9 ** inst +#11 143.9 ** byte-compile and prepare package for lazy loading +#11 144.0 ** help +#11 144.0 *** installing help indices +#11 144.0 *** copying figures +#11 144.0 ** building package indices +#11 144.1 ** installing vignettes +#11 144.1 ** testing if installed package can be loaded from temporary location +#11 144.1 ** checking absolute paths in shared objects and dynamic libraries +#11 144.1 ** testing if installed package can be loaded from final location +#11 144.2 ** testing if installed package keeps a record of temporary installation path +#11 144.2 * DONE (magrittr) +#11 144.4 * installing *source* package ‘rlang’ ... +#11 144.4 ** package ‘rlang’ successfully unpacked and MD5 sums checked +#11 144.4 ** using staged installation +#11 144.4 ** libs +#11 144.4 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang/ -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c capture.c -o capture.o +#11 144.5 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang/ -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c internal.c -o internal.o +#11 146.1 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang/ -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rlang.c -o rlang.o +#11 146.6 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang/ -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c version.c -o version.o +#11 146.6 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o rlang.so capture.o internal.o rlang.o version.o -L/usr/lib/R/lib -lR +#11 146.6 installing to /usr/local/lib/R/site-library/00LOCK-rlang/00new/rlang/libs +#11 146.6 ** R +#11 146.6 ** inst +#11 146.6 ** byte-compile and prepare package for lazy loading +#11 148.2 ** help +#11 148.4 *** installing help indices +#11 148.5 *** copying figures +#11 148.5 ** building package indices +#11 148.7 ** testing if installed package can be loaded from temporary location +#11 148.8 ** checking absolute paths in shared objects and dynamic libraries +#11 148.8 ** testing if installed package can be loaded from final location +#11 148.9 ** testing if installed package keeps a record of temporary installation path +#11 148.9 * DONE (rlang) +#11 149.0 * installing *source* package ‘rstudioapi’ ... +#11 149.1 ** package ‘rstudioapi’ successfully unpacked and MD5 sums checked +#11 149.1 ** using staged installation +#11 149.1 ** R +#11 149.1 ** inst +#11 149.1 ** byte-compile and prepare package for lazy loading +#11 149.2 ** help +#11 149.3 *** installing help indices +#11 149.3 *** copying figures +#11 149.3 ** building package indices +#11 149.5 ** installing vignettes +#11 149.5 ** testing if installed package can be loaded from temporary location +#11 149.5 ** testing if installed package can be loaded from final location +#11 149.6 ** testing if installed package keeps a record of temporary installation path +#11 149.6 * DONE (rstudioapi) +#11 149.7 * installing *source* package ‘permute’ ... +#11 149.7 ** package ‘permute’ successfully unpacked and MD5 sums checked +#11 149.7 ** using staged installation +#11 149.7 ** R +#11 149.7 ** data +#11 149.7 ** inst +#11 149.7 ** byte-compile and prepare package for lazy loading +#11 150.1 ** help +#11 150.1 *** installing help indices +#11 150.1 ** building package indices +#11 150.2 ** installing vignettes +#11 150.2 ** testing if installed package can be loaded from temporary location +#11 150.2 ** testing if installed package can be loaded from final location +#11 150.3 ** testing if installed package keeps a record of temporary installation path +#11 150.3 * DONE (permute) +#11 150.4 * installing *source* package ‘pixmap’ ... +#11 150.4 ** package ‘pixmap’ successfully unpacked and MD5 sums checked +#11 150.4 ** using staged installation +#11 150.4 ** R +#11 150.4 ** inst +#11 150.4 ** byte-compile and prepare package for lazy loading +#11 150.9 ** help +#11 150.9 *** installing help indices +#11 150.9 ** building package indices +#11 151.0 ** testing if installed package can be loaded from temporary location +#11 151.1 ** testing if installed package can be loaded from final location +#11 151.2 ** testing if installed package keeps a record of temporary installation path +#11 151.2 * DONE (pixmap) +#11 151.4 * installing *source* package ‘sp’ ... +#11 151.4 ** package ‘sp’ successfully unpacked and MD5 sums checked +#11 151.4 ** using staged installation +#11 151.4 ** libs +#11 151.4 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Rcentroid.c -o Rcentroid.o +#11 151.4 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gcdist.c -o gcdist.o +#11 151.5 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 151.5 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pip.c -o pip.o +#11 151.5 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pip2.c -o pip2.o +#11 151.6 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sp_xports.c -o sp_xports.o +#11 151.7 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c surfaceArea.c -o surfaceArea.o +#11 151.7 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c zerodist.c -o zerodist.o +#11 151.8 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o sp.so Rcentroid.o gcdist.o init.o pip.o pip2.o sp_xports.o surfaceArea.o zerodist.o -L/usr/lib/R/lib -lR +#11 151.8 installing to /usr/local/lib/R/site-library/00LOCK-sp/00new/sp/libs +#11 151.8 ** R +#11 151.8 ** data +#11 151.8 ** demo +#11 151.8 ** inst +#11 151.8 ** byte-compile and prepare package for lazy loading +#11 154.1 ** help +#11 154.2 *** installing help indices +#11 154.2 ** building package indices +#11 154.3 ** installing vignettes +#11 154.3 ** testing if installed package can be loaded from temporary location +#11 154.5 ** checking absolute paths in shared objects and dynamic libraries +#11 154.5 ** testing if installed package can be loaded from final location +#11 154.6 ** testing if installed package keeps a record of temporary installation path +#11 154.6 * DONE (sp) +#11 154.9 * installing *source* package ‘Rcpp’ ... +#11 154.9 ** package ‘Rcpp’ successfully unpacked and MD5 sums checked +#11 154.9 ** using staged installation +#11 154.9 ** libs +#11 154.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include/ -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c api.cpp -o api.o +#11 155.5 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include/ -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c attributes.cpp -o attributes.o +#11 159.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include/ -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c barrier.cpp -o barrier.o +#11 159.5 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include/ -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c date.cpp -o date.o +#11 160.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include/ -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c module.cpp -o module.o +#11 161.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include/ -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rcpp_init.cpp -o rcpp_init.o +#11 162.3 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o Rcpp.so api.o attributes.o barrier.o date.o module.o rcpp_init.o -L/usr/lib/R/lib -lR +#11 162.3 installing to /usr/local/lib/R/site-library/00LOCK-Rcpp/00new/Rcpp/libs +#11 162.3 ** R +#11 162.3 ** inst +#11 162.3 ** byte-compile and prepare package for lazy loading +#11 163.0 ** help +#11 163.0 *** installing help indices +#11 163.0 ** building package indices +#11 163.1 ** installing vignettes +#11 163.1 ** testing if installed package can be loaded from temporary location +#11 163.2 ** checking absolute paths in shared objects and dynamic libraries +#11 163.2 ** testing if installed package can be loaded from final location +#11 163.3 ** testing if installed package keeps a record of temporary installation path +#11 163.3 * DONE (Rcpp) +#11 163.4 * installing *source* package ‘BiocManager’ ... +#11 163.4 ** package ‘BiocManager’ successfully unpacked and MD5 sums checked +#11 163.4 ** using staged installation +#11 163.4 ** R +#11 163.4 ** inst +#11 163.4 ** byte-compile and prepare package for lazy loading +#11 163.6 ** help +#11 163.7 *** installing help indices +#11 163.7 ** building package indices +#11 163.7 ** installing vignettes +#11 163.7 ** testing if installed package can be loaded from temporary location +#11 164.0 ** testing if installed package can be loaded from final location +#11 164.2 ** testing if installed package keeps a record of temporary installation path +#11 164.2 * DONE (BiocManager) +#11 164.3 * installing *source* package ‘remotes’ ... +#11 164.3 ** package ‘remotes’ successfully unpacked and MD5 sums checked +#11 164.3 ** using staged installation +#11 164.3 ** R +#11 164.3 ** inst +#11 164.3 ** byte-compile and prepare package for lazy loading +#11 165.0 ** help +#11 165.0 *** installing help indices +#11 165.1 ** building package indices +#11 165.1 ** installing vignettes +#11 165.2 ** testing if installed package can be loaded from temporary location +#11 165.2 ** testing if installed package can be loaded from final location +#11 165.3 ** testing if installed package keeps a record of temporary installation path +#11 165.3 * DONE (remotes) +#11 165.4 * installing *source* package ‘cachem’ ... +#11 165.4 ** package ‘cachem’ successfully unpacked and MD5 sums checked +#11 165.4 ** using staged installation +#11 165.4 ** libs +#11 165.4 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cache.c -o cache.o +#11 165.4 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 165.4 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o cachem.so cache.o init.o -L/usr/lib/R/lib -lR +#11 165.4 installing to /usr/local/lib/R/site-library/00LOCK-cachem/00new/cachem/libs +#11 165.4 ** R +#11 165.4 ** byte-compile and prepare package for lazy loading +#11 165.6 ** help +#11 165.7 *** installing help indices +#11 165.7 ** building package indices +#11 165.7 ** testing if installed package can be loaded from temporary location +#11 165.9 ** checking absolute paths in shared objects and dynamic libraries +#11 165.9 ** testing if installed package can be loaded from final location +#11 166.0 ** testing if installed package keeps a record of temporary installation path +#11 166.0 * DONE (cachem) +#11 166.0 * installing *source* package ‘askpass’ ... +#11 166.0 ** package ‘askpass’ successfully unpacked and MD5 sums checked +#11 166.0 ** using staged installation +#11 166.1 ** libs +#11 166.1 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c askpass.c -o askpass.o +#11 166.1 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o askpass.so askpass.o -L/usr/lib/R/lib -lR +#11 166.1 installing to /usr/local/lib/R/site-library/00LOCK-askpass/00new/askpass/libs +#11 166.1 ** R +#11 166.1 ** inst +#11 166.1 ** byte-compile and prepare package for lazy loading +#11 166.2 ** help +#11 166.2 *** installing help indices +#11 166.2 ** building package indices +#11 166.3 ** testing if installed package can be loaded from temporary location +#11 166.3 ** checking absolute paths in shared objects and dynamic libraries +#11 166.3 ** testing if installed package can be loaded from final location +#11 166.4 ** testing if installed package keeps a record of temporary installation path +#11 166.4 * DONE (askpass) +#11 166.6 * installing *source* package ‘bit64’ ... +#11 166.6 ** package ‘bit64’ successfully unpacked and MD5 sums checked +#11 166.6 ** using staged installation +#11 166.6 ** libs +#11 166.6 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bsearch.c -o bsearch.o +#11 166.8 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cache.c -o cache.o +#11 166.8 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c hash64.c -o hash64.o +#11 166.9 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 166.9 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c integer64.c -o integer64.o +#11 167.1 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sort64.c -o sort64.o +#11 167.5 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sortuse64.c -o sortuse64.o +#11 167.7 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o bit64.so bsearch.o cache.o hash64.o init.o integer64.o sort64.o sortuse64.o -lm -L/usr/lib/R/lib -lR +#11 167.7 installing to /usr/local/lib/R/site-library/00LOCK-bit64/00new/bit64/libs +#11 167.7 ** R +#11 167.7 ** data +#11 167.7 ** inst +#11 167.7 ** byte-compile and prepare package for lazy loading +#11 168.5 ** help +#11 168.6 *** installing help indices +#11 168.7 ** building package indices +#11 168.8 ** testing if installed package can be loaded from temporary location +#11 168.8 ** checking absolute paths in shared objects and dynamic libraries +#11 168.8 ** testing if installed package can be loaded from final location +#11 168.9 ** testing if installed package keeps a record of temporary installation path +#11 168.9 * DONE (bit64) +#11 169.0 * installing *source* package ‘processx’ ... +#11 169.0 ** package ‘processx’ successfully unpacked and MD5 sums checked +#11 169.0 ** using staged installation +#11 169.0 ** libs +#11 169.0 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wall tools/px.c -o tools/px +#11 169.2 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -I../inst/include -Wall tools/sock.c -o tools/sock +#11 169.2 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro supervisor/supervisor.c \ +#11 169.2 supervisor/utils.c -o supervisor/supervisor +#11 169.4 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c base64.c -o base64.o +#11 169.4 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c client.c -o client.o +#11 169.4 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c errors.c -o errors.o +#11 169.5 gcc -shared -L"/usr/lib/R/lib" -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o client.so base64.o client.o errors.o \ +#11 169.5 -L"/usr/lib/R/lib" -lR +#11 169.5 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 169.5 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c poll.c -o poll.o +#11 169.6 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c processx-connection.c -o processx-connection.o +#11 169.7 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c processx-vector.c -o processx-vector.o +#11 169.8 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c create-time.c -o create-time.o +#11 169.8 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c unix/childlist.c -o unix/childlist.o +#11 169.8 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c unix/connection.c -o unix/connection.o +#11 169.9 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c unix/processx.c -o unix/processx.o +#11 170.0 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c unix/sigchld.c -o unix/sigchld.o +#11 170.1 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c unix/utils.c -o unix/utils.o +#11 170.1 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c unix/named_pipe.c -o unix/named_pipe.o +#11 170.1 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cleancall.c -o cleancall.o +#11 170.2 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o processx.so init.o poll.o errors.o processx-connection.o processx-vector.o create-time.o base64.o unix/childlist.o unix/connection.o unix/processx.o unix/sigchld.o unix/utils.o unix/named_pipe.o cleancall.o -L/usr/lib/R/lib -lR +#11 170.2 installing via 'install.libs.R' to /usr/local/lib/R/site-library/00LOCK-processx/00new/processx +#11 170.2 ** R +#11 170.2 ** inst +#11 170.2 ** byte-compile and prepare package for lazy loading +#11 170.7 R6Class process: finalize() method is public, but it should be private as of R6 2.4.0. This code will continue to work, but in a future version of R6, finalize() will be required to be private. +#11 170.7 ** help +#11 170.8 *** installing help indices +#11 170.8 *** copying figures +#11 170.8 ** building package indices +#11 170.9 ** testing if installed package can be loaded from temporary location +#11 170.9 ** checking absolute paths in shared objects and dynamic libraries +#11 170.9 ** testing if installed package can be loaded from final location +#11 171.0 ** testing if installed package keeps a record of temporary installation path +#11 171.0 * DONE (processx) +#11 171.1 * installing *source* package ‘highr’ ... +#11 171.1 ** package ‘highr’ successfully unpacked and MD5 sums checked +#11 171.1 ** using staged installation +#11 171.1 ** R +#11 171.1 ** inst +#11 171.1 ** byte-compile and prepare package for lazy loading +#11 171.2 ** help +#11 171.2 *** installing help indices +#11 171.2 ** building package indices +#11 171.3 ** installing vignettes +#11 171.3 ** testing if installed package can be loaded from temporary location +#11 171.4 ** testing if installed package can be loaded from final location +#11 171.5 ** testing if installed package keeps a record of temporary installation path +#11 171.5 * DONE (highr) +#11 171.5 * installing *source* package ‘tinytex’ ... +#11 171.5 ** package ‘tinytex’ successfully unpacked and MD5 sums checked +#11 171.5 ** using staged installation +#11 171.5 ** R +#11 171.5 ** inst +#11 171.5 ** byte-compile and prepare package for lazy loading +#11 171.8 ** help +#11 171.8 *** installing help indices +#11 171.8 ** building package indices +#11 171.9 ** testing if installed package can be loaded from temporary location +#11 172.0 ** testing if installed package can be loaded from final location +#11 172.1 ** testing if installed package keeps a record of temporary installation path +#11 172.1 * DONE (tinytex) +#11 172.2 * installing *source* package ‘htmltools’ ... +#11 172.2 ** package ‘htmltools’ successfully unpacked and MD5 sums checked +#11 172.2 ** using staged installation +#11 172.2 ** libs +#11 172.2 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 172.2 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c template.c -o template.o +#11 172.2 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o htmltools.so init.o template.o -L/usr/lib/R/lib -lR +#11 172.2 installing to /usr/local/lib/R/site-library/00LOCK-htmltools/00new/htmltools/libs +#11 172.2 ** R +#11 172.2 ** inst +#11 172.2 ** byte-compile and prepare package for lazy loading +#11 173.0 ** help +#11 173.0 *** installing help indices +#11 173.0 *** copying figures +#11 173.0 ** building package indices +#11 173.1 ** testing if installed package can be loaded from temporary location +#11 173.2 ** checking absolute paths in shared objects and dynamic libraries +#11 173.2 ** testing if installed package can be loaded from final location +#11 173.4 ** testing if installed package keeps a record of temporary installation path +#11 173.4 * DONE (htmltools) +#11 173.4 * installing *source* package ‘lifecycle’ ... +#11 173.4 ** package ‘lifecycle’ successfully unpacked and MD5 sums checked +#11 173.4 ** using staged installation +#11 173.5 ** R +#11 173.5 ** inst +#11 173.5 ** byte-compile and prepare package for lazy loading +#11 173.7 ** help +#11 173.7 *** installing help indices +#11 173.7 *** copying figures +#11 173.7 ** building package indices +#11 173.8 ** installing vignettes +#11 173.8 ** testing if installed package can be loaded from temporary location +#11 173.9 ** testing if installed package can be loaded from final location +#11 174.0 ** testing if installed package keeps a record of temporary installation path +#11 174.0 * DONE (lifecycle) +#11 174.1 * installing *source* package ‘timechange’ ... +#11 174.1 ** package ‘timechange’ successfully unpacked and MD5 sums checked +#11 174.1 ** using staged installation +#11 174.1 ** libs +#11 174.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c common.cpp -o common.o +#11 174.6 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cpp11.cpp -o cpp11.o +#11 175.0 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c get.cpp -o get.o +#11 175.8 gcc -I"/usr/share/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c parse.c -o parse.o +#11 175.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c round.cpp -o round.o +#11 176.5 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tzone.cpp -o tzone.o +#11 176.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c update.cpp -o update.o +#11 178.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cctz/src/time_zone_fixed.cc -o cctz/src/time_zone_fixed.o +#11 178.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cctz/src/time_zone_if.cc -o cctz/src/time_zone_if.o +#11 178.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cctz/src/time_zone_impl.cc -o cctz/src/time_zone_impl.o +#11 178.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cctz/src/time_zone_info.cc -o cctz/src/time_zone_info.o +#11 179.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cctz/src/time_zone_libc.cc -o cctz/src/time_zone_libc.o +#11 179.6 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cctz/src/time_zone_lookup.cc -o cctz/src/time_zone_lookup.o +#11 179.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cctz/src/time_zone_posix.cc -o cctz/src/time_zone_posix.o +#11 179.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I. -I./cctz/src/ -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cctz/src/zone_info_source.cc -o cctz/src/zone_info_source.o +#11 180.0 ar rcs libcctz.a ./cctz/src/time_zone_fixed.o ./cctz/src/time_zone_if.o ./cctz/src/time_zone_impl.o ./cctz/src/time_zone_info.o ./cctz/src/time_zone_libc.o ./cctz/src/time_zone_lookup.o ./cctz/src/time_zone_posix.o ./cctz/src/zone_info_source.o +#11 180.0 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o timechange.so common.o cpp11.o get.o parse.o round.o tzone.o update.o -L. -lcctz -L/usr/lib/R/lib -lR +#11 180.0 installing to /usr/local/lib/R/site-library/00LOCK-timechange/00new/timechange/libs +#11 180.0 ** R +#11 180.0 ** byte-compile and prepare package for lazy loading +#11 180.2 ** help +#11 180.2 *** installing help indices +#11 180.2 ** building package indices +#11 180.3 ** testing if installed package can be loaded from temporary location +#11 180.3 ** checking absolute paths in shared objects and dynamic libraries +#11 180.4 ** testing if installed package can be loaded from final location +#11 180.4 ** testing if installed package keeps a record of temporary installation path +#11 180.4 * DONE (timechange) +#11 180.5 * installing *source* package ‘tzdb’ ... +#11 180.5 ** package ‘tzdb’ successfully unpacked and MD5 sums checked +#11 180.5 ** using staged installation +#11 180.5 ** libs +#11 180.5 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c api.cpp -o api.o +#11 180.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cpp11.cpp -o cpp11.o +#11 181.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c names.cpp -o names.o +#11 181.6 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c path.cpp -o path.o +#11 182.0 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tz.cpp -o tz.o +#11 184.5 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I../inst/include -DINSTALL=dummy -DAUTO_DOWNLOAD=0 -DHAS_REMOTE_API=0 -DUSE_OS_TZDB=0 -DONLY_C_LOCALE=1 -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c version.cpp -o version.o +#11 184.8 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o tzdb.so api.o cpp11.o names.o path.o tz.o version.o -L/usr/lib/R/lib -lR +#11 184.9 installing to /usr/local/lib/R/site-library/00LOCK-tzdb/00new/tzdb/libs +#11 184.9 ** R +#11 184.9 ** inst +#11 184.9 ** byte-compile and prepare package for lazy loading +#11 184.9 ** help +#11 184.9 *** installing help indices +#11 185.0 ** building package indices +#11 185.0 ** testing if installed package can be loaded from temporary location +#11 185.1 ** checking absolute paths in shared objects and dynamic libraries +#11 185.1 ** testing if installed package can be loaded from final location +#11 185.2 ** testing if installed package keeps a record of temporary installation path +#11 185.2 * DONE (tzdb) +#11 185.3 * installing *source* package ‘xml2’ ... +#11 185.3 ** package ‘xml2’ successfully unpacked and MD5 sums checked +#11 185.3 ** using staged installation +#11 185.3 Found pkg-config cflags and libs! +#11 185.3 Using PKG_CFLAGS=-I/opt/conda/include/libxml2 -I/opt/conda/include +#11 185.3 Using PKG_LIBS=-L/opt/conda/lib -lxml2 -L/opt/conda/lib -lz -L/opt/conda/lib -llzma -L/opt/conda/lib -L/opt/conda/lib -licui18n -licuuc -licudata -lm -ldl +#11 185.3 ** libs +#11 185.3 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I/opt/conda/include/libxml2 -I/opt/conda/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c connection.cpp -o connection.o +#11 185.5 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I/opt/conda/include/libxml2 -I/opt/conda/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 185.5 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I/opt/conda/include/libxml2 -I/opt/conda/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c xml2_doc.cpp -o xml2_doc.o +#11 185.6 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I/opt/conda/include/libxml2 -I/opt/conda/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c xml2_init.c -o xml2_init.o +#11 185.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I/opt/conda/include/libxml2 -I/opt/conda/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c xml2_namespace.cpp -o xml2_namespace.o +#11 185.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I/opt/conda/include/libxml2 -I/opt/conda/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c xml2_node.cpp -o xml2_node.o +#11 186.6 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I/opt/conda/include/libxml2 -I/opt/conda/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c xml2_output.cpp -o xml2_output.o +#11 186.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I/opt/conda/include/libxml2 -I/opt/conda/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c xml2_schema.cpp -o xml2_schema.o +#11 186.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I/opt/conda/include/libxml2 -I/opt/conda/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c xml2_url.cpp -o xml2_url.o +#11 187.0 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I/opt/conda/include/libxml2 -I/opt/conda/include -DUCHAR_TYPE=wchar_t -DU_SHOW_CPLUSPLUS_API=0 -DSTRICT_R_HEADERS -DR_NO_REMAP -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c xml2_xpath.cpp -o xml2_xpath.o +#11 187.1 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o xml2.so connection.o init.o xml2_doc.o xml2_init.o xml2_namespace.o xml2_node.o xml2_output.o xml2_schema.o xml2_url.o xml2_xpath.o -L/opt/conda/lib -lxml2 -L/opt/conda/lib -lz -L/opt/conda/lib -llzma -L/opt/conda/lib -L/opt/conda/lib -licui18n -licuuc -licudata -lm -ldl -L/usr/lib/R/lib -lR +#11 187.1 installing to /usr/local/lib/R/site-library/00LOCK-xml2/00new/xml2/libs +#11 187.1 ** R +#11 187.1 ** inst +#11 187.1 ** byte-compile and prepare package for lazy loading +#11 187.6 ** help +#11 187.6 *** installing help indices +#11 187.6 *** copying figures +#11 187.6 ** building package indices +#11 187.7 ** installing vignettes +#11 187.7 ** testing if installed package can be loaded from temporary location +#11 187.8 Warning: program compiled against libxml 211 using older 209 +#11 187.8 ** checking absolute paths in shared objects and dynamic libraries +#11 187.8 ** testing if installed package can be loaded from final location +#11 187.9 Warning: program compiled against libxml 211 using older 209 +#11 187.9 ** testing if installed package keeps a record of temporary installation path +#11 187.9 * DONE (xml2) +#11 188.4 * installing *source* package ‘RcppArmadillo’ ... +#11 188.4 ** package ‘RcppArmadillo’ successfully unpacked and MD5 sums checked +#11 188.4 ** using staged installation +#11 188.5 checking whether the C++ compiler works... yes +#11 188.5 checking for C++ compiler default output file name... a.out +#11 188.5 checking for suffix of executables... +#11 188.5 checking whether we are cross compiling... no +#11 188.6 checking for suffix of object files... o +#11 188.6 checking whether the compiler supports GNU C++... yes +#11 188.6 checking whether g++ -std=gnu++14 accepts -g... yes +#11 188.6 checking for g++ -std=gnu++14 option to enable C++11 features... none needed +#11 188.6 checking how to run the C++ preprocessor... g++ -std=gnu++14 -E +#11 188.6 checking whether the compiler supports GNU C++... (cached) yes +#11 188.6 checking whether g++ -std=gnu++14 accepts -g... (cached) yes +#11 188.6 checking for g++ -std=gnu++14 option to enable C++11 features... (cached) none needed +#11 188.6 checking whether we have a suitable tempdir... /tmp +#11 188.7 checking whether R CMD SHLIB can already compile programs using OpenMP... yes +#11 188.7 checking LAPACK_LIBS... system LAPACK found +#11 188.8 configure: creating ./config.status +#11 188.8 config.status: creating inst/include/RcppArmadillo/config/RcppArmadilloConfigGenerated.h +#11 188.8 config.status: creating src/Makevars +#11 188.8 ** libs +#11 188.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include -DARMA_USE_CURRENT -I'/usr/local/lib/R/site-library/Rcpp/include' -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c RcppArmadillo.cpp -o RcppArmadillo.o +#11 190.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include -DARMA_USE_CURRENT -I'/usr/local/lib/R/site-library/Rcpp/include' -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c RcppExports.cpp -o RcppExports.o +#11 192.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include -DARMA_USE_CURRENT -I'/usr/local/lib/R/site-library/Rcpp/include' -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fastLm.cpp -o fastLm.o +#11 194.9 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o RcppArmadillo.so RcppArmadillo.o RcppExports.o fastLm.o -fopenmp -llapack -lblas -lgfortran -lm -L/usr/lib/R/lib -lR +#11 194.9 installing to /usr/local/lib/R/site-library/00LOCK-RcppArmadillo/00new/RcppArmadillo/libs +#11 194.9 ** R +#11 194.9 ** inst +#11 194.9 ** byte-compile and prepare package for lazy loading +#11 195.1 ** help +#11 195.1 *** installing help indices +#11 195.1 ** building package indices +#11 195.2 ** installing vignettes +#11 195.2 ** testing if installed package can be loaded from temporary location +#11 195.3 ** checking absolute paths in shared objects and dynamic libraries +#11 195.3 ** testing if installed package can be loaded from final location +#11 195.4 ** testing if installed package keeps a record of temporary installation path +#11 195.4 * DONE (RcppArmadillo) +#11 195.6 * installing *source* package ‘vegan’ ... +#11 195.6 ** package ‘vegan’ successfully unpacked and MD5 sums checked +#11 195.6 ** using staged installation +#11 195.6 ** libs +#11 195.6 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c data2hill.c -o data2hill.o +#11 195.7 gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c decorana.f -o decorana.o +#11 195.8 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c getF.c -o getF.o +#11 195.9 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c goffactor.c -o goffactor.o +#11 196.0 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 196.0 gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c monoMDS.f -o monoMDS.o +#11 196.1 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c nestedness.c -o nestedness.o +#11 196.3 gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c ordering.f -o ordering.o +#11 196.4 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pnpoly.c -o pnpoly.o +#11 196.4 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stepacross.c -o stepacross.o +#11 196.5 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vegdist.c -o vegdist.o +#11 196.6 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o vegan.so data2hill.o decorana.o getF.o goffactor.o init.o monoMDS.o nestedness.o ordering.o pnpoly.o stepacross.o vegdist.o -llapack -lblas -lgfortran -lm -lgfortran -lm -L/usr/lib/R/lib -lR +#11 196.6 installing to /usr/local/lib/R/site-library/00LOCK-vegan/00new/vegan/libs +#11 196.6 ** R +#11 196.6 ** data +#11 196.6 ** inst +#11 196.6 ** byte-compile and prepare package for lazy loading +#11 201.2 ** help +#11 201.5 *** installing help indices +#11 201.7 ** building package indices +#11 202.0 ** installing vignettes +#11 202.0 ** testing if installed package can be loaded from temporary location +#11 202.4 ** checking absolute paths in shared objects and dynamic libraries +#11 202.4 ** testing if installed package can be loaded from final location +#11 203.0 ** testing if installed package keeps a record of temporary installation path +#11 203.0 * DONE (vegan) +#11 203.2 * installing *source* package ‘sass’ ... +#11 203.2 ** package ‘sass’ successfully unpacked and MD5 sums checked +#11 203.2 ** using staged installation +#11 203.2 ** libs +#11 203.2 gcc -I"/usr/share/R/include" -DNDEBUG -I./libsass/include -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c compile.c -o compile.o +#11 203.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I./libsass/include -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.cpp -o init.o +#11 203.3 MAKEFLAGS= CC="gcc" CFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g " CXX="g++ -std=gnu++14" AR="ar" LDFLAGS="-Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro" make -C libsass +#11 203.3 make[1]: Entering directory '/tmp/Rtmps0D8dw/R.INSTALL467e41b22437/sass/src/libsass' +#11 203.3 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -I ./include -fPIC -c -o src/cencode.o src/cencode.c +#11 203.3 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast.o src/ast.cpp +#11 204.4 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_values.o src/ast_values.cpp +#11 205.4 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_supports.o src/ast_supports.cpp +#11 205.8 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_sel_cmp.o src/ast_sel_cmp.cpp +#11 206.2 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_sel_unify.o src/ast_sel_unify.cpp +#11 206.8 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_sel_super.o src/ast_sel_super.cpp +#11 207.3 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_sel_weave.o src/ast_sel_weave.cpp +#11 208.4 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_selectors.o src/ast_selectors.cpp +#11 209.6 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/context.o src/context.cpp +#11 211.1 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/constants.o src/constants.cpp +#11 211.2 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_utils.o src/fn_utils.cpp +#11 211.8 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_miscs.o src/fn_miscs.cpp +#11 212.5 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_maps.o src/fn_maps.cpp +#11 213.1 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_lists.o src/fn_lists.cpp +#11 214.1 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_colors.o src/fn_colors.cpp +#11 215.3 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_numbers.o src/fn_numbers.cpp +#11 216.0 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_strings.o src/fn_strings.cpp +#11 216.6 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/fn_selectors.o src/fn_selectors.cpp +#11 217.2 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/color_maps.o src/color_maps.cpp +#11 218.0 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/environment.o src/environment.cpp +#11 218.4 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast_fwd_decl.o src/ast_fwd_decl.cpp +#11 218.7 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/bind.o src/bind.cpp +#11 219.5 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/file.o src/file.cpp +#11 220.2 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/util.o src/util.cpp +#11 220.7 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/util_string.o src/util_string.cpp +#11 220.8 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/json.o src/json.cpp +#11 221.0 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/units.o src/units.cpp +#11 221.5 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/values.o src/values.cpp +#11 221.9 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/plugins.o src/plugins.cpp +#11 222.0 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/source.o src/source.cpp +#11 222.2 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/position.o src/position.cpp +#11 222.3 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/lexer.o src/lexer.cpp +#11 222.5 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/parser.o src/parser.cpp +#11 226.3 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/parser_selectors.o src/parser_selectors.cpp +#11 226.9 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/prelexer.o src/prelexer.cpp +#11 227.4 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/eval.o src/eval.cpp +#11 229.2 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/eval_selectors.o src/eval_selectors.cpp +#11 229.5 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/expand.o src/expand.cpp +#11 231.0 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/listize.o src/listize.cpp +#11 231.3 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/cssize.o src/cssize.cpp +#11 232.2 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/extender.o src/extender.cpp +#11 233.9 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/extension.o src/extension.cpp +#11 234.2 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/stylesheet.o src/stylesheet.cpp +#11 234.4 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/output.o src/output.cpp +#11 235.0 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/inspect.o src/inspect.cpp +#11 236.2 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/emitter.o src/emitter.cpp +#11 236.4 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/check_nesting.o src/check_nesting.cpp +#11 237.0 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/remove_placeholders.o src/remove_placeholders.cpp +#11 237.4 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/sass.o src/sass.cpp +#11 237.8 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/sass_values.o src/sass_values.cpp +#11 238.2 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/sass_context.o src/sass_context.cpp +#11 238.6 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/sass_functions.o src/sass_functions.cpp +#11 239.0 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/sass2scss.o src/sass2scss.cpp +#11 239.4 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/backtrace.o src/backtrace.cpp +#11 239.5 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/operators.o src/operators.cpp +#11 240.1 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/ast2c.o src/ast2c.cpp +#11 240.4 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/c2ast.o src/c2ast.cpp +#11 240.8 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/to_value.o src/to_value.cpp +#11 241.4 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/source_map.o src/source_map.cpp +#11 241.8 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/error_handling.o src/error_handling.cpp +#11 242.6 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/memory/allocator.o src/memory/allocator.cpp +#11 242.7 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/memory/shared_ptr.o src/memory/shared_ptr.cpp +#11 242.8 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/utf8_string.o src/utf8_string.cpp +#11 242.9 g++ -std=gnu++14 -Wall -O2 -std=c++11 -I ./include -fPIC -c -o src/base64vlq.o src/base64vlq.cpp +#11 243.1 mkdir lib +#11 243.1 ar rcvs lib/libsass.a src/cencode.o src/ast.o src/ast_values.o src/ast_supports.o src/ast_sel_cmp.o src/ast_sel_unify.o src/ast_sel_super.o src/ast_sel_weave.o src/ast_selectors.o src/context.o src/constants.o src/fn_utils.o src/fn_miscs.o src/fn_maps.o src/fn_lists.o src/fn_colors.o src/fn_numbers.o src/fn_strings.o src/fn_selectors.o src/color_maps.o src/environment.o src/ast_fwd_decl.o src/bind.o src/file.o src/util.o src/util_string.o src/json.o src/units.o src/values.o src/plugins.o src/source.o src/position.o src/lexer.o src/parser.o src/parser_selectors.o src/prelexer.o src/eval.o src/eval_selectors.o src/expand.o src/listize.o src/cssize.o src/extender.o src/extension.o src/stylesheet.o src/output.o src/inspect.o src/emitter.o src/check_nesting.o src/remove_placeholders.o src/sass.o src/sass_values.o src/sass_context.o src/sass_functions.o src/sass2scss.o src/backtrace.o src/operators.o src/ast2c.o src/c2ast.o src/to_value.o src/source_map.o src/error_handling.o src/memory/allocator.o src/memory/shared_ptr.o src/utf8_string.o src/base64vlq.o +#11 243.1 a - src/cencode.o +#11 243.1 a - src/ast.o +#11 243.1 a - src/ast_values.o +#11 243.1 a - src/ast_supports.o +#11 243.1 a - src/ast_sel_cmp.o +#11 243.1 a - src/ast_sel_unify.o +#11 243.1 a - src/ast_sel_super.o +#11 243.1 a - src/ast_sel_weave.o +#11 243.1 a - src/ast_selectors.o +#11 243.1 a - src/context.o +#11 243.1 a - src/constants.o +#11 243.1 a - src/fn_utils.o +#11 243.1 a - src/fn_miscs.o +#11 243.1 a - src/fn_maps.o +#11 243.1 a - src/fn_lists.o +#11 243.1 a - src/fn_colors.o +#11 243.1 a - src/fn_numbers.o +#11 243.1 a - src/fn_strings.o +#11 243.1 a - src/fn_selectors.o +#11 243.1 a - src/color_maps.o +#11 243.1 a - src/environment.o +#11 243.1 a - src/ast_fwd_decl.o +#11 243.1 a - src/bind.o +#11 243.1 a - src/file.o +#11 243.1 a - src/util.o +#11 243.1 a - src/util_string.o +#11 243.1 a - src/json.o +#11 243.1 a - src/units.o +#11 243.1 a - src/values.o +#11 243.1 a - src/plugins.o +#11 243.1 a - src/source.o +#11 243.1 a - src/position.o +#11 243.1 a - src/lexer.o +#11 243.1 a - src/parser.o +#11 243.1 a - src/parser_selectors.o +#11 243.1 a - src/prelexer.o +#11 243.1 a - src/eval.o +#11 243.1 a - src/eval_selectors.o +#11 243.1 a - src/expand.o +#11 243.1 a - src/listize.o +#11 243.1 a - src/cssize.o +#11 243.1 a - src/extender.o +#11 243.1 a - src/extension.o +#11 243.1 a - src/stylesheet.o +#11 243.1 a - src/output.o +#11 243.1 a - src/inspect.o +#11 243.1 a - src/emitter.o +#11 243.1 a - src/check_nesting.o +#11 243.1 a - src/remove_placeholders.o +#11 243.1 a - src/sass.o +#11 243.1 a - src/sass_values.o +#11 243.1 a - src/sass_context.o +#11 243.1 a - src/sass_functions.o +#11 243.1 a - src/sass2scss.o +#11 243.1 a - src/backtrace.o +#11 243.1 a - src/operators.o +#11 243.1 a - src/ast2c.o +#11 243.1 a - src/c2ast.o +#11 243.1 a - src/to_value.o +#11 243.1 a - src/source_map.o +#11 243.1 a - src/error_handling.o +#11 243.1 a - src/memory/allocator.o +#11 243.1 a - src/memory/shared_ptr.o +#11 243.1 a - src/utf8_string.o +#11 243.1 a - src/base64vlq.o +#11 243.1 make[1]: Leaving directory '/tmp/Rtmps0D8dw/R.INSTALL467e41b22437/sass/src/libsass' +#11 243.1 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o sass.so compile.o init.o ./libsass/lib/libsass.a -L/usr/lib/R/lib -lR +#11 243.2 rm -f libsass/lib/libsass.a +#11 243.2 installing to /usr/local/lib/R/site-library/00LOCK-sass/00new/sass/libs +#11 243.2 ** R +#11 243.2 ** inst +#11 243.2 ** byte-compile and prepare package for lazy loading +#11 243.6 ** help +#11 243.6 *** installing help indices +#11 243.7 *** copying figures +#11 243.7 ** building package indices +#11 243.7 ** installing vignettes +#11 243.7 ** testing if installed package can be loaded from temporary location +#11 243.9 ** checking absolute paths in shared objects and dynamic libraries +#11 243.9 ** testing if installed package can be loaded from final location +#11 244.0 ** testing if installed package keeps a record of temporary installation path +#11 244.0 * DONE (sass) +#11 244.1 * installing *source* package ‘fontawesome’ ... +#11 244.1 ** package ‘fontawesome’ successfully unpacked and MD5 sums checked +#11 244.1 ** using staged installation +#11 244.1 ** R +#11 244.2 ** inst +#11 244.2 ** byte-compile and prepare package for lazy loading +#11 244.4 ** help +#11 244.4 *** installing help indices +#11 244.4 *** copying figures +#11 244.4 ** building package indices +#11 244.5 ** testing if installed package can be loaded from temporary location +#11 244.6 ** testing if installed package can be loaded from final location +#11 244.7 ** testing if installed package keeps a record of temporary installation path +#11 244.7 * DONE (fontawesome) +#11 244.9 * installing *source* package ‘jquerylib’ ... +#11 244.9 ** package ‘jquerylib’ successfully unpacked and MD5 sums checked +#11 244.9 ** using staged installation +#11 244.9 ** R +#11 244.9 ** inst +#11 244.9 ** byte-compile and prepare package for lazy loading +#11 245.0 ** help +#11 245.0 *** installing help indices +#11 245.0 ** building package indices +#11 245.1 ** testing if installed package can be loaded from temporary location +#11 245.2 ** testing if installed package can be loaded from final location +#11 245.3 ** testing if installed package keeps a record of temporary installation path +#11 245.3 * DONE (jquerylib) +#11 245.4 * installing *source* package ‘memoise’ ... +#11 245.4 ** package ‘memoise’ successfully unpacked and MD5 sums checked +#11 245.4 ** using staged installation +#11 245.4 ** R +#11 245.4 ** byte-compile and prepare package for lazy loading +#11 245.6 ** help +#11 245.6 *** installing help indices +#11 245.6 ** building package indices +#11 245.7 ** testing if installed package can be loaded from temporary location +#11 245.8 ** testing if installed package can be loaded from final location +#11 245.9 ** testing if installed package keeps a record of temporary installation path +#11 245.9 * DONE (memoise) +#11 246.1 * installing *source* package ‘vctrs’ ... +#11 246.1 ** package ‘vctrs’ successfully unpacked and MD5 sums checked +#11 246.1 ** using staged installation +#11 246.1 ** libs +#11 246.1 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c altrep-lazy-character.c -o altrep-lazy-character.o +#11 246.2 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c altrep-rle.c -o altrep-rle.o +#11 246.2 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c altrep.c -o altrep.o +#11 246.3 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c arg-counter.c -o arg-counter.o +#11 246.3 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c arg.c -o arg.o +#11 246.3 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c assert.c -o assert.o +#11 246.4 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bind.c -o bind.o +#11 246.5 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c c-unchop.c -o c-unchop.o +#11 246.6 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c c.c -o c.o +#11 246.6 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c callables.c -o callables.o +#11 246.7 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cast-bare.c -o cast-bare.o +#11 246.7 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cast-dispatch.c -o cast-dispatch.o +#11 246.7 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cast.c -o cast.o +#11 246.8 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c compare.c -o compare.o +#11 246.9 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c complete.c -o complete.o +#11 246.9 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c conditions.c -o conditions.o +#11 247.0 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dictionary.c -o dictionary.o +#11 247.1 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dim.c -o dim.o +#11 247.1 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c empty.c -o empty.o +#11 247.1 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c equal.c -o equal.o +#11 247.3 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c expand.c -o expand.o +#11 247.3 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fields.c -o fields.o +#11 247.4 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fill.c -o fill.o +#11 247.4 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c globals.c -o globals.o +#11 247.5 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c group.c -o group.o +#11 247.5 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c growable.c -o growable.o +#11 247.6 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c hash.c -o hash.o +#11 247.7 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 247.7 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c interval.c -o interval.o +#11 247.9 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c match-joint.c -o match-joint.o +#11 248.0 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c match.c -o match.o +#11 248.4 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c missing.c -o missing.o +#11 248.5 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c names.c -o names.o +#11 248.6 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c order-collate.c -o order-collate.o +#11 248.7 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c order-groups.c -o order-groups.o +#11 248.7 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c order-sortedness.c -o order-sortedness.o +#11 248.8 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c order-truelength.c -o order-truelength.o +#11 248.8 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c order.c -o order.o +#11 249.1 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c poly-op.c -o poly-op.o +#11 249.2 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c proxy-restore.c -o proxy-restore.o +#11 249.3 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c proxy.c -o proxy.o +#11 249.4 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ptype-common.c -o ptype-common.o +#11 249.4 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ptype.c -o ptype.o +#11 249.4 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ptype2-dispatch.c -o ptype2-dispatch.o +#11 249.5 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ptype2.c -o ptype2.o +#11 249.6 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rank.c -o rank.o +#11 249.6 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rep.c -o rep.o +#11 249.7 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rlang-dev.c -o rlang-dev.o +#11 249.7 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rlang.c -o rlang.o +#11 250.2 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c runs.c -o runs.o +#11 250.3 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c set.c -o set.o +#11 250.4 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c shape.c -o shape.o +#11 250.5 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c size-common.c -o size-common.o +#11 250.5 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c size.c -o size.o +#11 250.6 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c slice-array.c -o slice-array.o +#11 250.8 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c slice-assign-array.c -o slice-assign-array.o +#11 250.9 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c slice-assign.c -o slice-assign.o +#11 251.0 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c slice-chop.c -o slice-chop.o +#11 251.1 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c slice-interleave.c -o slice-interleave.o +#11 251.1 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c slice.c -o slice.o +#11 251.3 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c split.c -o split.o +#11 251.3 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c subscript-loc.c -o subscript-loc.o +#11 251.4 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c subscript.c -o subscript.o +#11 251.5 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c translate.c -o translate.o +#11 251.5 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c type-data-frame.c -o type-data-frame.o +#11 251.7 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c type-date-time.c -o type-date-time.o +#11 251.7 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c type-factor.c -o type-factor.o +#11 251.8 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c type-info.c -o type-info.o +#11 251.9 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c type-integer64.c -o type-integer64.o +#11 251.9 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c type-tibble.c -o type-tibble.o +#11 251.9 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c typeof2-s3.c -o typeof2-s3.o +#11 252.0 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c typeof2.c -o typeof2.o +#11 252.1 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c unspecified.c -o unspecified.o +#11 252.1 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils-dispatch.c -o utils-dispatch.o +#11 252.1 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils.c -o utils.o +#11 252.4 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vctrs-core.c -o vctrs-core.o +#11 252.4 gcc -I"/usr/share/R/include" -DNDEBUG -I./rlang -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c version.c -o version.o +#11 252.4 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o vctrs.so altrep-lazy-character.o altrep-rle.o altrep.o arg-counter.o arg.o assert.o bind.o c-unchop.o c.o callables.o cast-bare.o cast-dispatch.o cast.o compare.o complete.o conditions.o dictionary.o dim.o empty.o equal.o expand.o fields.o fill.o globals.o group.o growable.o hash.o init.o interval.o match-joint.o match.o missing.o names.o order-collate.o order-groups.o order-sortedness.o order-truelength.o order.o poly-op.o proxy-restore.o proxy.o ptype-common.o ptype.o ptype2-dispatch.o ptype2.o rank.o rep.o rlang-dev.o rlang.o runs.o set.o shape.o size-common.o size.o slice-array.o slice-assign-array.o slice-assign.o slice-chop.o slice-interleave.o slice.o split.o subscript-loc.o subscript.o translate.o type-data-frame.o type-date-time.o type-factor.o type-info.o type-integer64.o type-tibble.o typeof2-s3.o typeof2.o unspecified.o utils-dispatch.o utils.o vctrs-core.o version.o -L/usr/lib/R/lib -lR +#11 252.4 installing to /usr/local/lib/R/site-library/00LOCK-vctrs/00new/vctrs/libs +#11 252.4 ** R +#11 252.5 ** inst +#11 252.5 ** byte-compile and prepare package for lazy loading +#11 253.5 ** help +#11 253.7 *** installing help indices +#11 253.7 *** copying figures +#11 253.7 ** building package indices +#11 253.9 ** installing vignettes +#11 253.9 ** testing if installed package can be loaded from temporary location +#11 254.0 ** checking absolute paths in shared objects and dynamic libraries +#11 254.0 ** testing if installed package can be loaded from final location +#11 254.1 ** testing if installed package keeps a record of temporary installation path +#11 254.1 * DONE (vctrs) +#11 254.2 * installing *source* package ‘gtable’ ... +#11 254.2 ** package ‘gtable’ successfully unpacked and MD5 sums checked +#11 254.2 ** using staged installation +#11 254.2 ** R +#11 254.2 ** inst +#11 254.2 ** byte-compile and prepare package for lazy loading +#11 254.5 ** help +#11 254.6 *** installing help indices +#11 254.6 *** copying figures +#11 254.6 ** building package indices +#11 254.7 ** installing vignettes +#11 254.7 ** testing if installed package can be loaded from temporary location +#11 254.8 ** testing if installed package can be loaded from final location +#11 254.9 ** testing if installed package keeps a record of temporary installation path +#11 254.9 * DONE (gtable) +#11 255.0 * installing *source* package ‘scales’ ... +#11 255.0 ** package ‘scales’ successfully unpacked and MD5 sums checked +#11 255.0 ** using staged installation +#11 255.1 ** R +#11 255.1 ** byte-compile and prepare package for lazy loading +#11 256.3 ** help +#11 256.4 *** installing help indices +#11 256.5 *** copying figures +#11 256.5 ** building package indices +#11 256.6 ** testing if installed package can be loaded from temporary location +#11 256.7 ** testing if installed package can be loaded from final location +#11 256.9 ** testing if installed package keeps a record of temporary installation path +#11 256.9 * DONE (scales) +#11 257.1 * installing *source* package ‘openssl’ ... +#11 257.1 ** package ‘openssl’ successfully unpacked and MD5 sums checked +#11 257.1 ** using staged installation +#11 257.1 Found pkg-config cflags and libs! +#11 257.1 Using PKG_CFLAGS= +#11 257.2 Using PKG_LIBS=-l:libssl.so.3 -l:libcrypto.so.3 +#11 257.2 ** libs +#11 257.2 rm -f aes.o base64.o bignum.o cert.o compatibility.o diffie.o envelope.o error.o hash.o info.o keygen.o keys.o onload.o openssh.o password.o pbkdf.o pem.o pkcs12.o pkcs7.o rand.o rsa.o signing.o ssl.o stream.o write.o x25519.o openssl.so bcrypt/libstatbcrypt.a bcrypt/bcrypt_pbkdf.o bcrypt/blowfish.o +#11 257.2 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c aes.c -o aes.o +#11 257.2 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c base64.c -o base64.o +#11 257.3 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bignum.c -o bignum.o +#11 257.3 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cert.c -o cert.o +#11 257.4 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c compatibility.c -o compatibility.o +#11 257.4 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c diffie.c -o diffie.o +#11 257.5 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c envelope.c -o envelope.o +#11 257.5 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c error.c -o error.o +#11 257.5 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c hash.c -o hash.o +#11 257.6 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c info.c -o info.o +#11 257.6 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c keygen.c -o keygen.o +#11 257.7 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c keys.c -o keys.o +#11 257.7 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c onload.c -o onload.o +#11 257.8 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c openssh.c -o openssh.o +#11 257.8 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c password.c -o password.o +#11 257.9 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pbkdf.c -o pbkdf.o +#11 257.9 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pem.c -o pem.o +#11 258.0 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pkcs12.c -o pkcs12.o +#11 258.0 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pkcs7.c -o pkcs7.o +#11 258.1 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rand.c -o rand.o +#11 258.1 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rsa.c -o rsa.o +#11 258.2 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c signing.c -o signing.o +#11 258.2 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ssl.c -o ssl.o +#11 258.3 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stream.c -o stream.o +#11 258.3 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c write.c -o write.o +#11 258.4 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c x25519.c -o x25519.o +#11 258.4 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bcrypt/bcrypt_pbkdf.c -o bcrypt/bcrypt_pbkdf.o +#11 258.5 gcc -I"/usr/share/R/include" -DNDEBUG -DOPENSSL_SUPPRESS_DEPRECATED -DSTRICT_R_HEADERS -DR_NO_REMAP -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bcrypt/blowfish.c -o bcrypt/blowfish.o +#11 258.5 ar rcs bcrypt/libstatbcrypt.a bcrypt/bcrypt_pbkdf.o bcrypt/blowfish.o +#11 258.5 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o openssl.so aes.o base64.o bignum.o cert.o compatibility.o diffie.o envelope.o error.o hash.o info.o keygen.o keys.o onload.o openssh.o password.o pbkdf.o pem.o pkcs12.o pkcs7.o rand.o rsa.o signing.o ssl.o stream.o write.o x25519.o -Lbcrypt -lstatbcrypt -l:libssl.so.3 -l:libcrypto.so.3 -L/usr/lib/R/lib -lR +#11 258.6 installing to /usr/local/lib/R/site-library/00LOCK-openssl/00new/openssl/libs +#11 258.6 ** R +#11 258.6 ** inst +#11 258.6 ** byte-compile and prepare package for lazy loading +#11 258.9 ** help +#11 258.9 *** installing help indices +#11 258.9 ** building package indices +#11 259.0 ** installing vignettes +#11 259.0 ** testing if installed package can be loaded from temporary location +#11 259.1 ** checking absolute paths in shared objects and dynamic libraries +#11 259.1 ** testing if installed package can be loaded from final location +#11 259.2 ** testing if installed package keeps a record of temporary installation path +#11 259.2 * DONE (openssl) +#11 259.3 * installing *source* package ‘systemfonts’ ... +#11 259.3 ** package ‘systemfonts’ successfully unpacked and MD5 sums checked +#11 259.3 ** using staged installation +#11 259.3 Package fontconfig was not found in the pkg-config search path. +#11 259.3 Perhaps you should add the directory containing `fontconfig.pc' +#11 259.3 to the PKG_CONFIG_PATH environment variable +#11 259.3 No package 'fontconfig' found +#11 259.3 Package freetype2 was not found in the pkg-config search path. +#11 259.3 Perhaps you should add the directory containing `freetype2.pc' +#11 259.3 to the PKG_CONFIG_PATH environment variable +#11 259.3 No package 'freetype2' found +#11 259.3 Using PKG_CFLAGS= +#11 259.3 Using PKG_LIBS=-lfontconfig -lfreetype +#11 259.3 --------------------------- [ANTICONF] -------------------------------- +#11 259.3 Configuration failed to find the fontconfig freetype2 library. Try installing: +#11 259.3 * deb: libfontconfig1-dev (Debian, Ubuntu, etc) +#11 259.3 * rpm: fontconfig-devel (Fedora, EPEL) +#11 259.3 * csw: fontconfig_dev (Solaris) +#11 259.3 * brew: freetype (OSX) +#11 259.3 If fontconfig freetype2 is already installed, check that 'pkg-config' is in your +#11 259.3 PATH and PKG_CONFIG_PATH contains a fontconfig freetype2.pc file. If pkg-config +#11 259.3 is unavailable you can set INCLUDE_DIR and LIB_DIR manually via: +#11 259.3 R CMD INSTALL --configure-vars='INCLUDE_DIR=... LIB_DIR=...' +#11 259.3 -------------------------- [ERROR MESSAGE] --------------------------- +#11 259.3 :1:10: fatal error: fontconfig/fontconfig.h: No such file or directory +#11 259.3 compilation terminated. +#11 259.3 -------------------------------------------------------------------- +#11 259.3 ERROR: configuration failed for package ‘systemfonts’ +#11 259.3 * removing ‘/usr/local/lib/R/site-library/systemfonts’ +#11 259.4 * installing *source* package ‘callr’ ... +#11 259.4 ** package ‘callr’ successfully unpacked and MD5 sums checked +#11 259.4 ** using staged installation +#11 259.4 ** R +#11 259.4 ** inst +#11 259.4 ** byte-compile and prepare package for lazy loading +#11 260.5 R6Class r_process: finalize() method is public, but it should be private as of R6 2.4.0. This code will continue to work, but in a future version of R6, finalize() will be required to be private. +#11 260.5 R6Class r_session: finalize() method is public, but it should be private as of R6 2.4.0. This code will continue to work, but in a future version of R6, finalize() will be required to be private. +#11 260.5 R6Class rcmd_process: finalize() method is public, but it should be private as of R6 2.4.0. This code will continue to work, but in a future version of R6, finalize() will be required to be private. +#11 260.5 R6Class rscript_process: finalize() method is public, but it should be private as of R6 2.4.0. This code will continue to work, but in a future version of R6, finalize() will be required to be private. +#11 260.5 ** help +#11 260.5 *** installing help indices +#11 260.5 *** copying figures +#11 260.5 ** building package indices +#11 260.6 ** testing if installed package can be loaded from temporary location +#11 260.7 ** testing if installed package can be loaded from final location +#11 260.8 ** testing if installed package keeps a record of temporary installation path +#11 260.8 * DONE (callr) +#11 261.0 * installing *source* package ‘knitr’ ... +#11 261.0 ** package ‘knitr’ successfully unpacked and MD5 sums checked +#11 261.0 ** using staged installation +#11 261.0 ** R +#11 261.0 ** inst +#11 261.0 ** byte-compile and prepare package for lazy loading +#11 262.4 ** help +#11 262.4 *** installing help indices +#11 262.5 ** building package indices +#11 262.6 ** installing vignettes +#11 262.6 ** testing if installed package can be loaded from temporary location +#11 262.6 ** testing if installed package can be loaded from final location +#11 262.7 ** testing if installed package keeps a record of temporary installation path +#11 262.7 * DONE (knitr) +#11 262.8 * installing *source* package ‘lubridate’ ... +#11 262.8 ** package ‘lubridate’ successfully unpacked and MD5 sums checked +#11 262.8 ** using staged installation +#11 262.9 ** libs +#11 262.9 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c datetime.c -o datetime.o +#11 262.9 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 262.9 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c period.c -o period.o +#11 262.9 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tparse.c -o tparse.o +#11 263.1 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils.c -o utils.o +#11 263.1 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o lubridate.so datetime.o init.o period.o tparse.o utils.o -L/usr/lib/R/lib -lR +#11 263.1 installing to /usr/local/lib/R/site-library/00LOCK-lubridate/00new/lubridate/libs +#11 263.1 ** R +#11 263.1 ** data +#11 263.1 *** moving datasets to lazyload DB +#11 263.3 ** inst +#11 263.3 ** byte-compile and prepare package for lazy loading +#11 264.6 ** help +#11 264.7 *** installing help indices +#11 264.7 *** copying figures +#11 264.7 ** building package indices +#11 264.8 ** installing vignettes +#11 264.8 ** testing if installed package can be loaded from temporary location +#11 264.9 System has not been booted with systemd as init system (PID 1). Can't operate. +#11 264.9 Failed to connect to bus: Host is down +#11 264.9 Warning in system("timedatectl", intern = TRUE) : +#11 264.9 running command 'timedatectl' had status 1 +#11 264.9 ** checking absolute paths in shared objects and dynamic libraries +#11 264.9 ** testing if installed package can be loaded from final location +#11 265.1 System has not been booted with systemd as init system (PID 1). Can't operate. +#11 265.1 Failed to connect to bus: Host is down +#11 265.1 Warning in system("timedatectl", intern = TRUE) : +#11 265.1 running command 'timedatectl' had status 1 +#11 265.1 ** testing if installed package keeps a record of temporary installation path +#11 265.1 * DONE (lubridate) +#11 265.3 * installing *source* package ‘ade4’ ... +#11 265.3 ** package ‘ade4’ successfully unpacked and MD5 sums checked +#11 265.3 ** using staged installation +#11 265.3 ** libs +#11 265.3 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c RcppExports.cpp -o RcppExports.o +#11 267.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ade4libCpp.cpp -o ade4libCpp.o +#11 269.6 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c adesub.c -o adesub.o +#11 269.8 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c divsub.c -o divsub.o +#11 269.9 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fourthcorner.c -o fourthcorner.o +#11 270.4 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 270.4 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c phylog.c -o phylog.o +#11 270.5 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c testamova.c -o testamova.o +#11 270.6 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c testdim.c -o testdim.o +#11 270.6 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c testrlq.c -o testrlq.o +#11 270.7 gcc -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tests.c -o tests.o +#11 270.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I../inst/include -I'/usr/local/lib/R/site-library/Rcpp/include' -I'/usr/local/lib/R/site-library/RcppArmadillo/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c testsCpp.cpp -o testsCpp.o +#11 273.8 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o ade4.so RcppExports.o ade4libCpp.o adesub.o divsub.o fourthcorner.o init.o phylog.o testamova.o testdim.o testrlq.o tests.o testsCpp.o -llapack -lblas -lgfortran -lm -L/usr/lib/R/lib -lR +#11 273.9 installing to /usr/local/lib/R/site-library/00LOCK-ade4/00new/ade4/libs +#11 273.9 ** R +#11 273.9 ** data +#11 273.9 ** inst +#11 273.9 ** byte-compile and prepare package for lazy loading +#11 279.2 ** help +#11 279.5 *** installing help indices +#11 279.6 *** copying figures +#11 279.6 ** building package indices +#11 279.8 ** installing vignettes +#11 279.8 ** testing if installed package can be loaded from temporary location +#11 280.0 ** checking absolute paths in shared objects and dynamic libraries +#11 280.0 ** testing if installed package can be loaded from final location +#11 280.3 ** testing if installed package keeps a record of temporary installation path +#11 280.3 * DONE (ade4) +#11 280.7 * installing *source* package ‘bslib’ ... +#11 280.7 ** package ‘bslib’ successfully unpacked and MD5 sums checked +#11 280.7 ** using staged installation +#11 280.7 ** R +#11 280.8 ** inst +#11 280.8 ** byte-compile and prepare package for lazy loading +#11 281.7 ** help +#11 281.7 *** installing help indices +#11 281.8 *** copying figures +#11 281.8 ** building package indices +#11 281.9 ** testing if installed package can be loaded from temporary location +#11 282.0 ** testing if installed package can be loaded from final location +#11 282.2 ** testing if installed package keeps a record of temporary installation path +#11 282.2 * DONE (bslib) +#11 282.3 * installing *source* package ‘blob’ ... +#11 282.3 ** package ‘blob’ successfully unpacked and MD5 sums checked +#11 282.3 ** using staged installation +#11 282.3 ** R +#11 282.3 ** byte-compile and prepare package for lazy loading +#11 282.5 ** help +#11 282.5 *** installing help indices +#11 282.5 ** building package indices +#11 282.6 ** testing if installed package can be loaded from temporary location +#11 282.7 ** testing if installed package can be loaded from final location +#11 282.8 ** testing if installed package keeps a record of temporary installation path +#11 282.8 * DONE (blob) +#11 282.9 * installing *source* package ‘tidyselect’ ... +#11 282.9 ** package ‘tidyselect’ successfully unpacked and MD5 sums checked +#11 282.9 ** using staged installation +#11 282.9 ** R +#11 283.0 ** inst +#11 283.0 ** byte-compile and prepare package for lazy loading +#11 283.3 ** help +#11 283.3 *** installing help indices +#11 283.4 ** building package indices +#11 283.4 ** installing vignettes +#11 283.4 ** testing if installed package can be loaded from temporary location +#11 283.6 ** testing if installed package can be loaded from final location +#11 283.7 ** testing if installed package keeps a record of temporary installation path +#11 283.7 * DONE (tidyselect) +#11 283.8 * installing *source* package ‘ids’ ... +#11 283.8 ** package ‘ids’ successfully unpacked and MD5 sums checked +#11 283.8 ** using staged installation +#11 283.8 ** R +#11 283.8 ** inst +#11 283.8 ** byte-compile and prepare package for lazy loading +#11 283.9 ** help +#11 283.9 *** installing help indices +#11 283.9 ** building package indices +#11 284.0 ** installing vignettes +#11 284.0 ** testing if installed package can be loaded from temporary location +#11 284.1 ** testing if installed package can be loaded from final location +#11 284.1 ** testing if installed package keeps a record of temporary installation path +#11 284.1 * DONE (ids) +#11 284.2 ERROR: dependency ‘systemfonts’ is not available for package ‘textshaping’ +#11 284.2 * removing ‘/usr/local/lib/R/site-library/textshaping’ +#11 284.3 * installing *source* package ‘conflicted’ ... +#11 284.3 ** package ‘conflicted’ successfully unpacked and MD5 sums checked +#11 284.3 ** using staged installation +#11 284.3 ** R +#11 284.3 ** byte-compile and prepare package for lazy loading +#11 284.5 ** help +#11 284.5 *** installing help indices +#11 284.5 ** building package indices +#11 284.6 ** testing if installed package can be loaded from temporary location +#11 284.7 ** testing if installed package can be loaded from final location +#11 284.9 ** testing if installed package keeps a record of temporary installation path +#11 284.9 * DONE (conflicted) +#11 285.2 * installing *source* package ‘ggplot2’ ... +#11 285.3 ** package ‘ggplot2’ successfully unpacked and MD5 sums checked +#11 285.3 ** using staged installation +#11 285.3 ** R +#11 285.3 ** data +#11 285.3 *** moving datasets to lazyload DB +#11 285.6 ** inst +#11 285.6 ** byte-compile and prepare package for lazy loading +#11 290.4 ** help +#11 290.8 *** installing help indices +#11 291.1 *** copying figures +#11 291.1 ** building package indices +#11 291.4 ** installing vignettes +#11 291.4 ** testing if installed package can be loaded from temporary location +#11 291.7 ** testing if installed package can be loaded from final location +#11 292.3 ** testing if installed package keeps a record of temporary installation path +#11 292.3 * DONE (ggplot2) +#11 292.4 * installing *source* package ‘hms’ ... +#11 292.4 ** package ‘hms’ successfully unpacked and MD5 sums checked +#11 292.4 ** using staged installation +#11 292.4 ** R +#11 292.4 ** byte-compile and prepare package for lazy loading +#11 292.7 ** help +#11 292.7 *** installing help indices +#11 292.7 *** copying figures +#11 292.7 ** building package indices +#11 292.8 ** testing if installed package can be loaded from temporary location +#11 292.9 ** testing if installed package can be loaded from final location +#11 293.0 ** testing if installed package keeps a record of temporary installation path +#11 293.0 * DONE (hms) +#11 293.1 * installing *source* package ‘httr’ ... +#11 293.1 ** package ‘httr’ successfully unpacked and MD5 sums checked +#11 293.1 ** using staged installation +#11 293.2 ** R +#11 293.2 ** demo +#11 293.2 ** inst +#11 293.2 ** byte-compile and prepare package for lazy loading +#11 294.0 ** help +#11 294.1 *** installing help indices +#11 294.1 ** building package indices +#11 294.2 ** installing vignettes +#11 294.2 ** testing if installed package can be loaded from temporary location +#11 294.3 ** testing if installed package can be loaded from final location +#11 294.4 ** testing if installed package keeps a record of temporary installation path +#11 294.4 * DONE (httr) +#11 294.5 * installing *source* package ‘pillar’ ... +#11 294.5 ** package ‘pillar’ successfully unpacked and MD5 sums checked +#11 294.5 ** using staged installation +#11 294.5 ** R +#11 294.5 ** inst +#11 294.5 ** byte-compile and prepare package for lazy loading +#11 295.3 ** help +#11 295.4 *** installing help indices +#11 295.4 *** copying figures +#11 295.4 ** building package indices +#11 295.5 ** installing vignettes +#11 295.5 ** testing if installed package can be loaded from temporary location +#11 295.6 ** testing if installed package can be loaded from final location +#11 295.8 ** testing if installed package keeps a record of temporary installation path +#11 295.8 * DONE (pillar) +#11 295.9 * installing *source* package ‘purrr’ ... +#11 295.9 ** package ‘purrr’ successfully unpacked and MD5 sums checked +#11 295.9 ** using staged installation +#11 295.9 ** libs +#11 295.9 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cli/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c backports.c -o backports.o +#11 295.9 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cli/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cleancall.c -o cleancall.o +#11 296.0 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cli/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c coerce.c -o coerce.o +#11 296.0 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cli/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c conditions.c -o conditions.o +#11 296.1 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cli/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c every-some-none.c -o every-some-none.o +#11 296.1 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cli/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c flatten.c -o flatten.o +#11 296.1 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cli/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 296.1 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cli/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c map.c -o map.o +#11 296.2 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cli/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pluck.c -o pluck.o +#11 296.2 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cli/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c transpose.c -o transpose.o +#11 296.3 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cli/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils.c -o utils.o +#11 296.3 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o purrr.so backports.o cleancall.o coerce.o conditions.o every-some-none.o flatten.o init.o map.o pluck.o transpose.o utils.o -L/usr/lib/R/lib -lR +#11 296.3 installing to /usr/local/lib/R/site-library/00LOCK-purrr/00new/purrr/libs +#11 296.3 ** R +#11 296.3 ** inst +#11 296.3 ** byte-compile and prepare package for lazy loading +#11 296.8 ** help +#11 296.9 *** installing help indices +#11 297.0 *** copying figures +#11 297.0 ** building package indices +#11 297.1 ** installing vignettes +#11 297.1 ** testing if installed package can be loaded from temporary location +#11 297.2 ** checking absolute paths in shared objects and dynamic libraries +#11 297.2 ** testing if installed package can be loaded from final location +#11 297.4 ** testing if installed package keeps a record of temporary installation path +#11 297.4 * DONE (purrr) +#11 297.5 * installing *source* package ‘stringr’ ... +#11 297.5 ** package ‘stringr’ successfully unpacked and MD5 sums checked +#11 297.5 ** using staged installation +#11 297.5 ** R +#11 297.5 ** data +#11 297.5 *** moving datasets to lazyload DB +#11 297.5 ** inst +#11 297.5 ** byte-compile and prepare package for lazy loading +#11 297.9 ** help +#11 297.9 *** installing help indices +#11 298.0 *** copying figures +#11 298.0 ** building package indices +#11 298.1 ** installing vignettes +#11 298.1 ** testing if installed package can be loaded from temporary location +#11 298.2 ** testing if installed package can be loaded from final location +#11 298.3 ** testing if installed package keeps a record of temporary installation path +#11 298.3 * DONE (stringr) +#11 298.4 * installing *source* package ‘gargle’ ... +#11 298.4 ** package ‘gargle’ successfully unpacked and MD5 sums checked +#11 298.4 ** using staged installation +#11 298.5 ** R +#11 298.5 ** inst +#11 298.5 ** byte-compile and prepare package for lazy loading +#11 299.5 ** help +#11 299.5 *** installing help indices +#11 299.5 *** copying figures +#11 299.5 ** building package indices +#11 299.6 ** installing vignettes +#11 299.6 ** testing if installed package can be loaded from temporary location +#11 299.8 ** testing if installed package can be loaded from final location +#11 299.9 ** testing if installed package keeps a record of temporary installation path +#11 299.9 * DONE (gargle) +#11 300.0 * installing *source* package ‘progress’ ... +#11 300.0 ** package ‘progress’ successfully unpacked and MD5 sums checked +#11 300.0 ** using staged installation +#11 300.0 ** R +#11 300.0 ** inst +#11 300.0 ** byte-compile and prepare package for lazy loading +#11 300.3 ** help +#11 300.3 *** installing help indices +#11 300.3 *** copying figures +#11 300.3 ** building package indices +#11 300.4 ** testing if installed package can be loaded from temporary location +#11 300.5 ** testing if installed package can be loaded from final location +#11 300.7 ** testing if installed package keeps a record of temporary installation path +#11 300.7 * DONE (progress) +#11 301.0 * installing *source* package ‘rmarkdown’ ... +#11 301.0 ** package ‘rmarkdown’ successfully unpacked and MD5 sums checked +#11 301.0 ** using staged installation +#11 301.0 ** R +#11 301.0 ** inst +#11 301.0 ** byte-compile and prepare package for lazy loading +#11 302.2 ** help +#11 302.3 *** installing help indices +#11 302.3 *** copying figures +#11 302.3 ** building package indices +#11 302.4 ** installing vignettes +#11 302.4 ** testing if installed package can be loaded from temporary location +#11 302.6 ** testing if installed package can be loaded from final location +#11 302.7 ** testing if installed package keeps a record of temporary installation path +#11 302.7 * DONE (rmarkdown) +#11 302.8 * installing *source* package ‘selectr’ ... +#11 302.8 ** package ‘selectr’ successfully unpacked and MD5 sums checked +#11 302.8 ** using staged installation +#11 302.8 ** R +#11 302.8 ** inst +#11 302.8 ** byte-compile and prepare package for lazy loading +#11 304.7 ** help +#11 304.8 *** installing help indices +#11 304.8 ** building package indices +#11 304.8 ** testing if installed package can be loaded from temporary location +#11 304.9 ** testing if installed package can be loaded from final location +#11 305.1 ** testing if installed package keeps a record of temporary installation path +#11 305.1 * DONE (selectr) +#11 305.2 * installing *source* package ‘repr’ ... +#11 305.2 ** package ‘repr’ successfully unpacked and MD5 sums checked +#11 305.2 ** using staged installation +#11 305.2 ** R +#11 305.2 ** byte-compile and prepare package for lazy loading +#11 305.6 ** help +#11 305.6 *** installing help indices +#11 305.6 ** building package indices +#11 305.7 ** testing if installed package can be loaded from temporary location +#11 305.9 ** testing if installed package can be loaded from final location +#11 306.0 ** testing if installed package keeps a record of temporary installation path +#11 306.0 * DONE (repr) +#11 306.2 ERROR: dependencies ‘systemfonts’, ‘textshaping’ are not available for package ‘ragg’ +#11 306.2 * removing ‘/usr/local/lib/R/site-library/ragg’ +#11 306.3 * installing *source* package ‘tibble’ ... +#11 306.3 ** package ‘tibble’ successfully unpacked and MD5 sums checked +#11 306.3 ** using staged installation +#11 306.3 ** libs +#11 306.3 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c attributes.c -o attributes.o +#11 306.4 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c coerce.c -o coerce.o +#11 306.4 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 306.4 gcc -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c matrixToDataFrame.c -o matrixToDataFrame.o +#11 306.4 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o tibble.so attributes.o coerce.o init.o matrixToDataFrame.o -L/usr/lib/R/lib -lR +#11 306.4 installing to /usr/local/lib/R/site-library/00LOCK-tibble/00new/tibble/libs +#11 306.4 ** R +#11 306.4 ** inst +#11 306.4 ** byte-compile and prepare package for lazy loading +#11 307.1 ** help +#11 307.1 *** installing help indices +#11 307.1 *** copying figures +#11 307.1 ** building package indices +#11 307.2 ** installing vignettes +#11 307.2 ** testing if installed package can be loaded from temporary location +#11 307.4 ** checking absolute paths in shared objects and dynamic libraries +#11 307.4 ** testing if installed package can be loaded from final location +#11 307.6 ** testing if installed package keeps a record of temporary installation path +#11 307.6 * DONE (tibble) +#11 307.7 * installing *source* package ‘cellranger’ ... +#11 307.7 ** package ‘cellranger’ successfully unpacked and MD5 sums checked +#11 307.7 ** using staged installation +#11 307.7 ** R +#11 307.7 ** inst +#11 307.7 ** byte-compile and prepare package for lazy loading +#11 307.9 ** help +#11 307.9 *** installing help indices +#11 307.9 ** building package indices +#11 308.0 ** installing vignettes +#11 308.0 ** testing if installed package can be loaded from temporary location +#11 308.1 ** testing if installed package can be loaded from final location +#11 308.2 ** testing if installed package keeps a record of temporary installation path +#11 308.2 * DONE (cellranger) +#11 308.2 * installing *source* package ‘rematch2’ ... +#11 308.2 ** package ‘rematch2’ successfully unpacked and MD5 sums checked +#11 308.2 ** using staged installation +#11 308.2 ** R +#11 308.3 ** byte-compile and prepare package for lazy loading +#11 308.5 ** help +#11 308.5 *** installing help indices +#11 308.5 ** building package indices +#11 308.6 ** testing if installed package can be loaded from temporary location +#11 308.8 ** testing if installed package can be loaded from final location +#11 308.9 ** testing if installed package keeps a record of temporary installation path +#11 308.9 * DONE (rematch2) +#11 309.1 * installing *source* package ‘vroom’ ... +#11 309.1 ** package ‘vroom’ successfully unpacked and MD5 sums checked +#11 309.1 ** using staged installation +#11 309.1 ** libs +#11 309.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Iconv.cpp -o Iconv.o +#11 309.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c LocaleInfo.cpp -o LocaleInfo.o +#11 309.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c altrep.cc -o altrep.o +#11 310.3 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cpp11.cpp -o cpp11.o +#11 311.0 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c delimited_index.cc -o delimited_index.o +#11 312.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c delimited_index_connection.cc -o delimited_index_connection.o +#11 314.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fixed_width_index_connection.cc -o fixed_width_index_connection.o +#11 316.3 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gen.cc -o gen.o +#11 316.5 gcc -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c grisu3.c -o grisu3.o +#11 316.6 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c guess_type.cc -o guess_type.o +#11 317.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c iconv_file.cc -o iconv_file.o +#11 317.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c index_collection.cc -o index_collection.o +#11 319.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vroom.cc -o vroom.o +#11 321.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vroom_big_int.cc -o vroom_big_int.o +#11 322.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vroom_chr.cc -o vroom_chr.o +#11 323.5 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vroom_date.cc -o vroom_date.o +#11 324.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vroom_dbl.cc -o vroom_dbl.o +#11 326.0 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vroom_dttm.cc -o vroom_dttm.o +#11 327.6 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vroom_errors.cpp -o vroom_errors.o +#11 328.0 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vroom_fct.cc -o vroom_fct.o +#11 329.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vroom_fwf.cc -o vroom_fwf.o +#11 331.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vroom_int.cc -o vroom_int.o +#11 332.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vroom_num.cc -o vroom_num.o +#11 333.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vroom_rle.cc -o vroom_rle.o +#11 333.6 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vroom_time.cc -o vroom_time.o +#11 335.0 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Imio/include -DWIN32_LEAN_AND_MEAN -Ispdlog/include -DFMT_HEADER_ONLY -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vroom_write.cc -o vroom_write.o +#11 336.9 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o vroom.so Iconv.o LocaleInfo.o altrep.o cpp11.o delimited_index.o delimited_index_connection.o fixed_width_index_connection.o gen.o grisu3.o guess_type.o iconv_file.o index_collection.o vroom.o vroom_big_int.o vroom_chr.o vroom_date.o vroom_dbl.o vroom_dttm.o vroom_errors.o vroom_fct.o vroom_fwf.o vroom_int.o vroom_num.o vroom_rle.o vroom_time.o vroom_write.o -L/usr/lib/R/lib -lR +#11 337.1 installing to /usr/local/lib/R/site-library/00LOCK-vroom/00new/vroom/libs +#11 337.1 ** R +#11 337.1 ** inst +#11 337.1 ** byte-compile and prepare package for lazy loading +#11 337.6 ** help +#11 337.6 *** installing help indices +#11 337.6 *** copying figures +#11 337.6 ** building package indices +#11 337.7 ** installing vignettes +#11 337.7 ** testing if installed package can be loaded from temporary location +#11 337.9 ** checking absolute paths in shared objects and dynamic libraries +#11 338.0 ** testing if installed package can be loaded from final location +#11 338.2 ** testing if installed package keeps a record of temporary installation path +#11 338.3 * DONE (vroom) +#11 338.3 * installing *source* package ‘IRdisplay’ ... +#11 338.3 ** package ‘IRdisplay’ successfully unpacked and MD5 sums checked +#11 338.3 ** using staged installation +#11 338.3 ** R +#11 338.3 ** byte-compile and prepare package for lazy loading +#11 338.5 ** help +#11 338.5 *** installing help indices +#11 338.6 ** building package indices +#11 338.6 ** testing if installed package can be loaded from temporary location +#11 338.8 ** testing if installed package can be loaded from final location +#11 339.0 ** testing if installed package keeps a record of temporary installation path +#11 339.0 * DONE (IRdisplay) +#11 339.2 * installing *source* package ‘dplyr’ ... +#11 339.2 ** package ‘dplyr’ successfully unpacked and MD5 sums checked +#11 339.2 ** using staged installation +#11 339.2 ** libs +#11 339.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c chop.cpp -o chop.o +#11 339.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c filter.cpp -o filter.o +#11 339.3 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c funs.cpp -o funs.o +#11 339.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c group_by.cpp -o group_by.o +#11 339.6 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c group_data.cpp -o group_data.o +#11 339.6 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c imports.cpp -o imports.o +#11 339.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.cpp -o init.o +#11 339.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c mask.cpp -o mask.o +#11 339.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c mutate.cpp -o mutate.o +#11 339.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c reconstruct.cpp -o reconstruct.o +#11 339.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c slice.cpp -o slice.o +#11 339.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c summarise.cpp -o summarise.o +#11 339.9 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o dplyr.so chop.o filter.o funs.o group_by.o group_data.o imports.o init.o mask.o mutate.o reconstruct.o slice.o summarise.o -L/usr/lib/R/lib -lR +#11 340.0 installing to /usr/local/lib/R/site-library/00LOCK-dplyr/00new/dplyr/libs +#11 340.0 ** R +#11 340.0 ** data +#11 340.0 *** moving datasets to lazyload DB +#11 340.0 ** inst +#11 340.0 ** byte-compile and prepare package for lazy loading +#11 341.9 ** help +#11 342.1 *** installing help indices +#11 342.1 *** copying figures +#11 342.1 ** building package indices +#11 342.3 ** installing vignettes +#11 342.3 ** testing if installed package can be loaded from temporary location +#11 342.5 ** checking absolute paths in shared objects and dynamic libraries +#11 342.5 ** testing if installed package can be loaded from final location +#11 342.8 ** testing if installed package keeps a record of temporary installation path +#11 342.8 * DONE (dplyr) +#11 342.9 * installing *source* package ‘forcats’ ... +#11 342.9 ** package ‘forcats’ successfully unpacked and MD5 sums checked +#11 342.9 ** using staged installation +#11 342.9 ** R +#11 342.9 ** data +#11 342.9 *** moving datasets to lazyload DB +#11 342.9 ** inst +#11 342.9 ** byte-compile and prepare package for lazy loading +#11 343.3 ** help +#11 343.3 *** installing help indices +#11 343.3 *** copying figures +#11 343.3 ** building package indices +#11 343.4 ** installing vignettes +#11 343.4 ** testing if installed package can be loaded from temporary location +#11 343.5 ** testing if installed package can be loaded from final location +#11 343.7 ** testing if installed package keeps a record of temporary installation path +#11 343.7 * DONE (forcats) +#11 343.8 * installing *source* package ‘googledrive’ ... +#11 343.8 ** package ‘googledrive’ successfully unpacked and MD5 sums checked +#11 343.8 ** using staged installation +#11 343.8 ** R +#11 343.8 ** inst +#11 343.8 ** byte-compile and prepare package for lazy loading +#11 344.4 ** help +#11 344.5 *** installing help indices +#11 344.5 *** copying figures +#11 344.5 ** building package indices +#11 344.6 ** installing vignettes +#11 344.6 ** testing if installed package can be loaded from temporary location +#11 344.9 ** testing if installed package can be loaded from final location +#11 345.2 ** testing if installed package keeps a record of temporary installation path +#11 345.2 * DONE (googledrive) +#11 345.3 * installing *source* package ‘reprex’ ... +#11 345.3 ** package ‘reprex’ successfully unpacked and MD5 sums checked +#11 345.3 ** using staged installation +#11 345.3 ** R +#11 345.3 ** inst +#11 345.3 ** byte-compile and prepare package for lazy loading +#11 345.6 ** help +#11 345.6 *** installing help indices +#11 345.6 *** copying figures +#11 345.6 ** building package indices +#11 345.7 ** installing vignettes +#11 345.7 ** testing if installed package can be loaded from temporary location +#11 345.9 ** testing if installed package can be loaded from final location +#11 346.0 ** testing if installed package keeps a record of temporary installation path +#11 346.0 * DONE (reprex) +#11 346.1 * installing *source* package ‘rvest’ ... +#11 346.1 ** package ‘rvest’ successfully unpacked and MD5 sums checked +#11 346.1 ** using staged installation +#11 346.1 ** R +#11 346.1 ** demo +#11 346.1 ** inst +#11 346.1 ** byte-compile and prepare package for lazy loading +#11 346.8 Warning: program compiled against libxml 211 using older 209 +#11 346.8 ** help +#11 346.8 *** installing help indices +#11 346.8 *** copying figures +#11 346.8 ** building package indices +#11 346.9 ** installing vignettes +#11 346.9 ** testing if installed package can be loaded from temporary location +#11 347.0 Warning: program compiled against libxml 211 using older 209 +#11 347.0 ** testing if installed package can be loaded from final location +#11 347.2 Warning: program compiled against libxml 211 using older 209 +#11 347.2 ** testing if installed package keeps a record of temporary installation path +#11 347.2 * DONE (rvest) +#11 347.3 * installing *source* package ‘dtplyr’ ... +#11 347.3 ** package ‘dtplyr’ successfully unpacked and MD5 sums checked +#11 347.3 ** using staged installation +#11 347.3 ** R +#11 347.3 ** inst +#11 347.3 ** byte-compile and prepare package for lazy loading +#11 348.0 ** help +#11 348.0 *** installing help indices +#11 348.0 *** copying figures +#11 348.0 ** building package indices +#11 348.1 ** installing vignettes +#11 348.1 ** testing if installed package can be loaded from temporary location +#11 348.3 ** testing if installed package can be loaded from final location +#11 348.6 ** testing if installed package keeps a record of temporary installation path +#11 348.6 * DONE (dtplyr) +#11 348.7 * installing *source* package ‘googlesheets4’ ... +#11 348.7 ** package ‘googlesheets4’ successfully unpacked and MD5 sums checked +#11 348.7 ** using staged installation +#11 348.7 ** R +#11 348.7 ** inst +#11 348.7 ** byte-compile and prepare package for lazy loading +#11 349.4 ** help +#11 349.4 *** installing help indices +#11 349.5 *** copying figures +#11 349.5 ** building package indices +#11 349.6 ** testing if installed package can be loaded from temporary location +#11 349.8 ** testing if installed package can be loaded from final location +#11 350.1 ** testing if installed package keeps a record of temporary installation path +#11 350.1 * DONE (googlesheets4) +#11 350.2 * installing *source* package ‘readr’ ... +#11 350.2 ** package ‘readr’ successfully unpacked and MD5 sums checked +#11 350.2 ** using staged installation +#11 350.2 ** libs +#11 350.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Collector.cpp -o Collector.o +#11 351.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c CollectorGuess.cpp -o CollectorGuess.o +#11 352.5 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Iconv.cpp -o Iconv.o +#11 352.6 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c LocaleInfo.cpp -o LocaleInfo.o +#11 353.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Reader.cpp -o Reader.o +#11 354.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Source.cpp -o Source.o +#11 354.6 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Tokenizer.cpp -o Tokenizer.o +#11 355.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c TokenizerDelim.cpp -o TokenizerDelim.o +#11 355.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c TokenizerFwf.cpp -o TokenizerFwf.o +#11 356.5 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c TokenizerWs.cpp -o TokenizerWs.o +#11 356.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c connection.cpp -o connection.o +#11 357.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cpp11.cpp -o cpp11.o +#11 357.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c datetime.cpp -o datetime.o +#11 358.3 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c grisu3.c -o grisu3.o +#11 358.4 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o +#11 358.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c parse.cpp -o parse.o +#11 359.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read.cpp -o read.o +#11 360.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c type_convert.cpp -o type_convert.o +#11 361.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c write.cpp -o write.o +#11 361.5 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/tzdb/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c write_delim.cpp -o write_delim.o +#11 362.0 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o readr.so Collector.o CollectorGuess.o Iconv.o LocaleInfo.o Reader.o Source.o Tokenizer.o TokenizerDelim.o TokenizerFwf.o TokenizerWs.o connection.o cpp11.o datetime.o grisu3.o init.o parse.o read.o type_convert.o write.o write_delim.o -L/usr/lib/R/lib -lR +#11 362.1 installing to /usr/local/lib/R/site-library/00LOCK-readr/00new/readr/libs +#11 362.1 ** R +#11 362.1 ** inst +#11 362.1 ** byte-compile and prepare package for lazy loading +#11 363.2 ** help +#11 363.2 *** installing help indices +#11 363.3 *** copying figures +#11 363.3 ** building package indices +#11 363.4 ** installing vignettes +#11 363.4 ** testing if installed package can be loaded from temporary location +#11 363.5 ** checking absolute paths in shared objects and dynamic libraries +#11 363.6 ** testing if installed package can be loaded from final location +#11 363.8 ** testing if installed package keeps a record of temporary installation path +#11 363.8 * DONE (readr) +#11 363.9 * installing *source* package ‘readxl’ ... +#11 363.9 ** package ‘readxl’ successfully unpacked and MD5 sums checked +#11 363.9 ** using staged installation +#11 364.0 ** libs +#11 364.0 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iunix -I. -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cpp11.cpp -o cpp11.o +#11 364.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iunix -I. -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c XlsWorkBook.cpp -o XlsWorkBook.o +#11 364.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iunix -I. -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c XlsxWorkBook.cpp -o XlsxWorkBook.o +#11 366.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iunix -I. -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c zip.cpp -o zip.o +#11 366.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -Iunix -I. -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Read.cpp -o Read.o +#11 369.4 gcc -I"/usr/share/R/include" -DNDEBUG -Iunix -I. -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cran.c -o cran.o +#11 369.4 gcc -I"/usr/share/R/include" -DNDEBUG -Iunix -I. -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c libxls/xlstool.c -o libxls/xlstool.o +#11 369.5 gcc -I"/usr/share/R/include" -DNDEBUG -Iunix -I. -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c libxls/endian.c -o libxls/endian.o +#11 369.5 gcc -I"/usr/share/R/include" -DNDEBUG -Iunix -I. -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c libxls/ole.c -o libxls/ole.o +#11 369.6 gcc -I"/usr/share/R/include" -DNDEBUG -Iunix -I. -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c libxls/xls.c -o libxls/xls.o +#11 369.8 gcc -I"/usr/share/R/include" -DNDEBUG -Iunix -I. -I'/usr/local/lib/R/site-library/cpp11/include' -I'/usr/local/lib/R/site-library/progress/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c libxls/locale.c -o libxls/locale.o +#11 369.8 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o readxl.so cpp11.o XlsWorkBook.o XlsxWorkBook.o zip.o Read.o cran.o libxls/xlstool.o libxls/endian.o libxls/ole.o libxls/xls.o libxls/locale.o -L/usr/lib/R/lib -lR +#11 369.9 installing to /usr/local/lib/R/site-library/00LOCK-readxl/00new/readxl/libs +#11 369.9 ** R +#11 369.9 ** inst +#11 369.9 ** byte-compile and prepare package for lazy loading +#11 370.0 ** help +#11 370.0 *** installing help indices +#11 370.0 *** copying figures +#11 370.0 ** building package indices +#11 370.1 ** installing vignettes +#11 370.1 ** testing if installed package can be loaded from temporary location +#11 370.1 ** checking absolute paths in shared objects and dynamic libraries +#11 370.2 ** testing if installed package can be loaded from final location +#11 370.2 ** testing if installed package keeps a record of temporary installation path +#11 370.2 * DONE (readxl) +#11 370.4 * installing *source* package ‘tidyr’ ... +#11 370.4 ** package ‘tidyr’ successfully unpacked and MD5 sums checked +#11 370.4 ** using staged installation +#11 370.4 ** libs +#11 370.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cpp11.cpp -o cpp11.o +#11 370.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c melt.cpp -o melt.o +#11 371.3 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c simplifyPieces.cpp -o simplifyPieces.o +#11 371.7 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o tidyr.so cpp11.o melt.o simplifyPieces.o -L/usr/lib/R/lib -lR +#11 371.7 installing to /usr/local/lib/R/site-library/00LOCK-tidyr/00new/tidyr/libs +#11 371.7 ** R +#11 371.7 ** data +#11 371.7 *** moving datasets to lazyload DB +#11 372.0 ** inst +#11 372.0 ** byte-compile and prepare package for lazy loading +#11 372.9 ** help +#11 372.9 *** installing help indices +#11 372.9 *** copying figures +#11 372.9 ** building package indices +#11 373.0 ** installing vignettes +#11 373.0 ** testing if installed package can be loaded from temporary location +#11 373.3 ** checking absolute paths in shared objects and dynamic libraries +#11 373.3 ** testing if installed package can be loaded from final location +#11 373.5 ** testing if installed package keeps a record of temporary installation path +#11 373.5 * DONE (tidyr) +#11 373.6 * installing *source* package ‘IRkernel’ ... +#11 373.6 ** package ‘IRkernel’ successfully unpacked and MD5 sums checked +#11 373.6 ** using staged installation +#11 373.6 ** R +#11 373.6 ** inst +#11 373.6 ** byte-compile and prepare package for lazy loading +#11 374.2 ** help +#11 374.2 *** installing help indices +#11 374.2 ** building package indices +#11 374.3 ** testing if installed package can be loaded from temporary location +#11 374.4 ** testing if installed package can be loaded from final location +#11 374.6 ** testing if installed package keeps a record of temporary installation path +#11 374.6 * DONE (IRkernel) +#11 374.8 * installing *source* package ‘broom’ ... +#11 374.8 ** package ‘broom’ successfully unpacked and MD5 sums checked +#11 374.8 ** using staged installation +#11 374.8 ** R +#11 374.9 ** inst +#11 374.9 ** byte-compile and prepare package for lazy loading +#11 375.9 ** help +#11 376.2 *** installing help indices +#11 376.5 *** copying figures +#11 376.5 ** building package indices +#11 376.7 ** installing vignettes +#11 376.7 ** testing if installed package can be loaded from temporary location +#11 376.9 ** testing if installed package can be loaded from final location +#11 377.2 ** testing if installed package keeps a record of temporary installation path +#11 377.2 * DONE (broom) +#11 377.4 * installing *source* package ‘dbplyr’ ... +#11 377.4 ** package ‘dbplyr’ successfully unpacked and MD5 sums checked +#11 377.4 ** using staged installation +#11 377.4 ** R +#11 377.4 ** inst +#11 377.4 ** byte-compile and prepare package for lazy loading +#11 380.4 ** help +#11 380.5 *** installing help indices +#11 380.6 *** copying figures +#11 380.6 ** building package indices +#11 380.7 ** installing vignettes +#11 380.7 ** testing if installed package can be loaded from temporary location +#11 381.0 ** testing if installed package can be loaded from final location +#11 381.4 ** testing if installed package keeps a record of temporary installation path +#11 381.4 * DONE (dbplyr) +#11 381.5 * installing *source* package ‘haven’ ... +#11 381.5 ** package ‘haven’ successfully unpacked and MD5 sums checked +#11 381.5 ** using staged installation +#11 381.5 Found pkg-config cflags and libs! +#11 381.5 Using PKG_CFLAGS= +#11 381.5 Using PKG_LIBS=-lz +#11 381.6 ** libs +#11 381.6 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tagged_na.c -o tagged_na.o +#11 381.6 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/CKHashTable.c -o readstat/CKHashTable.o +#11 381.6 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/readstat_bits.c -o readstat/readstat_bits.o +#11 381.7 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/readstat_convert.c -o readstat/readstat_convert.o +#11 381.7 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/readstat_error.c -o readstat/readstat_error.o +#11 381.7 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/readstat_io_unistd.c -o readstat/readstat_io_unistd.o +#11 381.7 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/readstat_malloc.c -o readstat/readstat_malloc.o +#11 381.7 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/readstat_metadata.c -o readstat/readstat_metadata.o +#11 381.7 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/readstat_parser.c -o readstat/readstat_parser.o +#11 381.8 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/readstat_value.c -o readstat/readstat_value.o +#11 381.8 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/readstat_variable.c -o readstat/readstat_variable.o +#11 381.8 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/readstat_writer.c -o readstat/readstat_writer.o +#11 381.9 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/sas/ieee.c -o readstat/sas/ieee.o +#11 381.9 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/sas/readstat_sas7bcat_read.c -o readstat/sas/readstat_sas7bcat_read.o +#11 382.0 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/sas/readstat_sas7bcat_write.c -o readstat/sas/readstat_sas7bcat_write.o +#11 382.1 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/sas/readstat_sas7bdat_read.c -o readstat/sas/readstat_sas7bdat_read.o +#11 382.3 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/sas/readstat_sas7bdat_write.c -o readstat/sas/readstat_sas7bdat_write.o +#11 382.4 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/sas/readstat_sas.c -o readstat/sas/readstat_sas.o +#11 382.4 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/sas/readstat_sas_rle.c -o readstat/sas/readstat_sas_rle.o +#11 382.5 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/sas/readstat_xport.c -o readstat/sas/readstat_xport.o +#11 382.5 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/sas/readstat_xport_parse_format.c -o readstat/sas/readstat_xport_parse_format.o +#11 382.5 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/sas/readstat_xport_read.c -o readstat/sas/readstat_xport_read.o +#11 382.6 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/sas/readstat_xport_write.c -o readstat/sas/readstat_xport_write.o +#11 382.7 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/spss/readstat_por.c -o readstat/spss/readstat_por.o +#11 382.8 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/spss/readstat_por_parse.c -o readstat/spss/readstat_por_parse.o +#11 382.8 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/spss/readstat_por_read.c -o readstat/spss/readstat_por_read.o +#11 382.9 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/spss/readstat_por_write.c -o readstat/spss/readstat_por_write.o +#11 383.0 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/spss/readstat_sav.c -o readstat/spss/readstat_sav.o +#11 383.1 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/spss/readstat_sav_compress.c -o readstat/spss/readstat_sav_compress.o +#11 383.4 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/spss/readstat_sav_parse.c -o readstat/spss/readstat_sav_parse.o +#11 383.7 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/spss/readstat_sav_parse_mr_name.c -o readstat/spss/readstat_sav_parse_mr_name.o +#11 383.9 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/spss/readstat_sav_parse_timestamp.c -o readstat/spss/readstat_sav_parse_timestamp.o +#11 384.2 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/spss/readstat_sav_read.c -o readstat/spss/readstat_sav_read.o +#11 384.5 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/spss/readstat_sav_write.c -o readstat/spss/readstat_sav_write.o +#11 384.8 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/spss/readstat_spss.c -o readstat/spss/readstat_spss.o +#11 385.0 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/spss/readstat_spss_parse.c -o readstat/spss/readstat_spss_parse.o +#11 385.3 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/spss/readstat_zsav_compress.c -o readstat/spss/readstat_zsav_compress.o +#11 385.6 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/spss/readstat_zsav_read.c -o readstat/spss/readstat_zsav_read.o +#11 385.8 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/spss/readstat_zsav_write.c -o readstat/spss/readstat_zsav_write.o +#11 386.1 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/stata/readstat_dta.c -o readstat/stata/readstat_dta.o +#11 386.4 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/stata/readstat_dta_parse_timestamp.c -o readstat/stata/readstat_dta_parse_timestamp.o +#11 386.6 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/stata/readstat_dta_read.c -o readstat/stata/readstat_dta_read.o +#11 386.9 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c readstat/stata/readstat_dta_write.c -o readstat/stata/readstat_dta_write.o +#11 387.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cpp11.cpp -o cpp11.o +#11 387.6 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c DfReader.cpp -o DfReader.o +#11 389.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c DfWriter.cpp -o DfWriter.o +#11 389.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/cpp11/include' -Ireadstat -DHAVE_ZLIB -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c haven_types.cpp -o haven_types.o +#11 390.2 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o haven.so tagged_na.o readstat/CKHashTable.o readstat/readstat_bits.o readstat/readstat_convert.o readstat/readstat_error.o readstat/readstat_io_unistd.o readstat/readstat_malloc.o readstat/readstat_metadata.o readstat/readstat_parser.o readstat/readstat_value.o readstat/readstat_variable.o readstat/readstat_writer.o readstat/sas/ieee.o readstat/sas/readstat_sas7bcat_read.o readstat/sas/readstat_sas7bcat_write.o readstat/sas/readstat_sas7bdat_read.o readstat/sas/readstat_sas7bdat_write.o readstat/sas/readstat_sas.o readstat/sas/readstat_sas_rle.o readstat/sas/readstat_xport.o readstat/sas/readstat_xport_parse_format.o readstat/sas/readstat_xport_read.o readstat/sas/readstat_xport_write.o readstat/spss/readstat_por.o readstat/spss/readstat_por_parse.o readstat/spss/readstat_por_read.o readstat/spss/readstat_por_write.o readstat/spss/readstat_sav.o readstat/spss/readstat_sav_compress.o readstat/spss/readstat_sav_parse.o readstat/spss/readstat_sav_parse_mr_name.o readstat/spss/readstat_sav_parse_timestamp.o readstat/spss/readstat_sav_read.o readstat/spss/readstat_sav_write.o readstat/spss/readstat_spss.o readstat/spss/readstat_spss_parse.o readstat/spss/readstat_zsav_compress.o readstat/spss/readstat_zsav_read.o readstat/spss/readstat_zsav_write.o readstat/stata/readstat_dta.o readstat/stata/readstat_dta_parse_timestamp.o readstat/stata/readstat_dta_read.o readstat/stata/readstat_dta_write.o cpp11.o DfReader.o DfWriter.o haven_types.o -lz -L/usr/lib/R/lib -lR +#11 390.3 installing to /usr/local/lib/R/site-library/00LOCK-haven/00new/haven/libs +#11 390.3 ** R +#11 390.3 ** inst +#11 390.3 ** byte-compile and prepare package for lazy loading +#11 390.7 ** help +#11 390.7 *** installing help indices +#11 390.7 *** copying figures +#11 390.7 ** building package indices +#11 390.8 ** installing vignettes +#11 390.8 ** testing if installed package can be loaded from temporary location +#11 391.0 ** checking absolute paths in shared objects and dynamic libraries +#11 391.0 ** testing if installed package can be loaded from final location +#11 391.2 ** testing if installed package keeps a record of temporary installation path +#11 391.2 * DONE (haven) +#11 391.3 * installing *source* package ‘modelr’ ... +#11 391.3 ** package ‘modelr’ successfully unpacked and MD5 sums checked +#11 391.3 ** using staged installation +#11 391.3 ** R +#11 391.3 ** data +#11 391.3 *** moving datasets to lazyload DB +#11 391.3 ** byte-compile and prepare package for lazy loading +#11 391.7 ** help +#11 391.7 *** installing help indices +#11 391.7 *** copying figures +#11 391.7 ** building package indices +#11 391.8 ** testing if installed package can be loaded from temporary location +#11 392.0 ** testing if installed package can be loaded from final location +#11 392.2 ** testing if installed package keeps a record of temporary installation path +#11 392.2 * DONE (modelr) +#11 392.3 ERROR: dependency ‘ragg’ is not available for package ‘tidyverse’ +#11 392.3 * removing ‘/usr/local/lib/R/site-library/tidyverse’ +#11 392.3 > +#11 392.3 The downloaded source packages are in +#11 392.3 ‘/tmp/RtmpngKByV/downloaded_packages’ +#11 392.3 Warning messages: +#11 392.3 1: In install.packages(c("IRkernel", "tidyverse", "vegan", "ade4", : +#11 392.3 installation of package ‘systemfonts’ had non-zero exit status +#11 392.3 2: In install.packages(c("IRkernel", "tidyverse", "vegan", "ade4", : +#11 392.3 installation of package ‘textshaping’ had non-zero exit status +#11 392.3 3: In install.packages(c("IRkernel", "tidyverse", "vegan", "ade4", : +#11 392.3 installation of package ‘ragg’ had non-zero exit status +#11 392.3 4: In install.packages(c("IRkernel", "tidyverse", "vegan", "ade4", : +#11 392.3 installation of package ‘tidyverse’ had non-zero exit status +#11 392.3 +#11 392.3 > +#11 392.4 +#11 392.4 R version 4.1.2 (2021-11-01) -- "Bird Hippie" +#11 392.4 Copyright (C) 2021 The R Foundation for Statistical Computing +#11 392.4 Platform: aarch64-unknown-linux-gnu (64-bit) +#11 392.4 +#11 392.4 R is free software and comes with ABSOLUTELY NO WARRANTY. +#11 392.4 You are welcome to redistribute it under certain conditions. +#11 392.4 Type 'license()' or 'licence()' for distribution details. +#11 392.4 +#11 392.4 Natural language support but running in an English locale +#11 392.4 +#11 392.4 R is a collaborative project with many contributors. +#11 392.4 Type 'contributors()' for more information and +#11 392.4 'citation()' on how to cite R or R packages in publications. +#11 392.4 +#11 392.4 Type 'demo()' for some demos, 'help()' for on-line help, or +#11 392.4 'help.start()' for an HTML browser interface to help. +#11 392.4 Type 'q()' to quit R. +#11 392.4 +#11 392.4 > BiocManager::install('biomformat') +#11 392.6 'getOption("repos")' replaces Bioconductor standard repositories, see +#11 392.6 'help("repositories", package = "BiocManager")' for details. +#11 392.6 Replacement repositories: +#11 392.6 CRAN: https://cloud.r-project.org +#11 399.4 Bioconductor version 3.14 (BiocManager 1.30.26), R 4.1.2 (2021-11-01) +#11 399.4 Installing package(s) 'BiocVersion', 'biomformat' +#11 399.8 also installing the dependencies ‘Rhdf5lib’, ‘rhdf5filters’, ‘plyr’, ‘rhdf5’ +#11 399.8 +#11 399.8 trying URL 'https://bioconductor.org/packages/3.14/bioc/src/contrib/Rhdf5lib_1.16.0.tar.gz' +#11 400.5 Content type 'application/octet-stream' length 9989467 bytes (9.5 MB) +#11 400.8 ================================================== +#11 401.4 downloaded 9.5 MB +#11 401.4 +#11 401.4 trying URL 'https://bioconductor.org/packages/3.14/bioc/src/contrib/rhdf5filters_1.6.0.tar.gz' +#11 402.3 Content type 'application/octet-stream' length 854552 bytes (834 KB) +#11 402.4 ================================================== +#11 402.8 downloaded 834 KB +#11 402.8 +#11 402.8 trying URL 'https://cloud.r-project.org/src/contrib/plyr_1.8.9.tar.gz' +#11 403.0 Content type 'application/x-gzip' length 401488 bytes (392 KB) +#11 403.0 ================================================== +#11 403.1 downloaded 392 KB +#11 403.1 +#11 403.1 trying URL 'https://bioconductor.org/packages/3.14/bioc/src/contrib/rhdf5_2.38.1.tar.gz' +#11 404.0 Content type 'application/octet-stream' length 1231762 bytes (1.2 MB) +#11 404.1 ================================================== +#11 404.6 downloaded 1.2 MB +#11 404.6 +#11 404.6 trying URL 'https://bioconductor.org/packages/3.14/bioc/src/contrib/BiocVersion_3.14.0.tar.gz' +#11 405.5 Content type 'application/octet-stream' length 969 bytes +#11 405.5 ================================================== +#11 405.5 downloaded 969 bytes +#11 405.5 +#11 405.5 trying URL 'https://bioconductor.org/packages/3.14/bioc/src/contrib/biomformat_1.22.0.tar.gz' +#11 406.5 Content type 'application/octet-stream' length 301116 bytes (294 KB) +#11 406.5 ================================================== +#11 407.7 downloaded 294 KB +#11 407.7 +#11 408.2 * installing *source* package ‘Rhdf5lib’ ... +#11 408.2 ** using staged installation +#11 408.3 checking for gcc... gcc +#11 408.3 checking whether the C compiler works... yes +#11 408.3 checking for C compiler default output file name... a.out +#11 408.3 checking for suffix of executables... +#11 408.4 checking whether we are cross compiling... no +#11 408.4 checking for suffix of object files... o +#11 408.4 checking whether we are using the GNU C compiler... yes +#11 408.4 checking whether gcc accepts -g... yes +#11 408.4 checking for gcc option to accept ISO C89... none needed +#11 408.5 checking whether we are using the GNU C++ compiler... yes +#11 408.5 checking whether g++ -std=gnu++14 accepts -g... yes +#11 408.5 COMPILER = gcc +#11 408.5 checking whether C++ compiler accepts -Wno-unused-variable -Wno-unused-parameter... yes +#11 408.5 checking whether C++ compiler accepts -Wno-cast-qual... yes +#11 408.5 checking whether C++ compiler accepts -Wno-pedantic -Wno-extra... yes +#11 408.5 checking whether C++ compiler accepts -Wno-format-overflow -Wno-format-truncation... yes +#11 408.5 checking whether C++ compiler accepts -Wno-stringop-overflow -Wno-overlength-strings -Wno-stringop-truncation... yes +#11 408.5 checking how to run the C++ preprocessor... g++ -std=gnu++14 -E +#11 408.6 checking for grep that handles long lines and -e... /usr/bin/grep +#11 408.6 checking for egrep... /usr/bin/grep -E +#11 408.6 checking for ANSI C header files... yes +#11 408.7 checking for sys/types.h... yes +#11 408.7 checking for sys/stat.h... yes +#11 408.7 checking for stdlib.h... yes +#11 408.7 checking for string.h... yes +#11 408.7 checking for memory.h... yes +#11 408.7 checking for strings.h... yes +#11 408.8 checking for inttypes.h... yes +#11 408.8 checking for stdint.h... yes +#11 408.8 checking for unistd.h... yes +#11 408.8 checking for zlib.h... yes +#11 408.8 checking curl/curl.h usability... yes +#11 408.9 checking curl/curl.h presence... yes +#11 408.9 checking for curl/curl.h... yes +#11 408.9 checking openssl/evp.h usability... yes +#11 408.9 checking openssl/evp.h presence... yes +#11 408.9 checking for openssl/evp.h... yes +#11 408.9 checking openssl/hmac.h usability... yes +#11 408.9 checking openssl/hmac.h presence... yes +#11 409.0 checking for openssl/hmac.h... yes +#11 409.0 checking openssl/sha.h usability... yes +#11 409.0 checking openssl/sha.h presence... yes +#11 409.0 checking for openssl/sha.h... yes +#11 409.0 checking for curl_global_init in -lcurl... yes +#11 409.1 checking for EVP_sha256 in -lcrypto... yes +#11 409.1 S3_VFD=--enable-ros3-vfd +#11 409.1 untarring hdf5small_cxx_hl_1.10.7.tar.gz ... +#11 409.2 building the szip library... +#11 409.3 checking for a BSD-compatible install... /usr/bin/install -c +#11 409.3 checking whether build environment is sane... yes +#11 409.3 checking for a thread-safe mkdir -p... /usr/bin/mkdir -p +#11 409.3 checking for gawk... no +#11 409.3 checking for mawk... mawk +#11 409.3 checking whether make sets $(MAKE)... yes +#11 409.3 checking whether make supports nested variables... yes +#11 409.3 checking whether to enable maintainer-specific portions of Makefiles... no +#11 409.3 checking build system type... aarch64-unknown-linux-gnu +#11 409.3 checking host system type... aarch64-unknown-linux-gnu +#11 409.3 checking for config aarch64-unknown-linux-gnu... no +#11 409.3 checking for config aarch64-unknown-linux-gnu... no +#11 409.3 checking for config unknown-linux-gnu... no +#11 409.3 checking for config unknown-linux-gnu... no +#11 409.3 checking for config aarch64-linux-gnu... no +#11 409.3 checking for config aarch64-linux-gnu... no +#11 409.3 checking for config aarch64-unknown... no +#11 409.3 checking for config linux-gnu... found +#11 409.3 compiler 'gcc' is GNU gcc-11.4.0 +#11 409.3 checking for gcc... gcc +#11 409.3 checking whether the C compiler works... yes +#11 409.3 checking for C compiler default output file name... a.out +#11 409.3 checking for suffix of executables... +#11 409.3 checking whether we are cross compiling... no +#11 409.4 checking for suffix of object files... o +#11 409.4 checking whether we are using the GNU C compiler... yes +#11 409.4 checking whether gcc accepts -g... yes +#11 409.4 checking for gcc option to accept ISO C89... none needed +#11 409.4 checking whether gcc understands -c and -o together... yes +#11 409.4 checking for style of include used by make... GNU +#11 409.4 checking dependency style of gcc... gcc3 +#11 409.4 checking how to run the C preprocessor... gcc -E +#11 409.5 checking whether make sets $(MAKE)... (cached) yes +#11 409.5 checking how to print strings... printf +#11 409.5 checking for a sed that does not truncate output... /bin/sed +#11 409.5 checking for grep that handles long lines and -e... /usr/bin/grep +#11 409.5 checking for egrep... /usr/bin/grep -E +#11 409.5 checking for fgrep... /usr/bin/grep -F +#11 409.5 checking for ld used by gcc... /usr/bin/ld +#11 409.5 checking if the linker (/usr/bin/ld) is GNU ld... yes +#11 409.5 checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B +#11 409.5 checking the name lister (/usr/bin/nm -B) interface... BSD nm +#11 409.5 checking whether ln -s works... yes +#11 409.5 checking the maximum length of command line arguments... 1572864 +#11 409.5 checking how to convert aarch64-unknown-linux-gnu file names to aarch64-unknown-linux-gnu format... func_convert_file_noop +#11 409.5 checking how to convert aarch64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop +#11 409.5 checking for /usr/bin/ld option to reload object files... -r +#11 409.5 checking for objdump... objdump +#11 409.5 checking how to recognize dependent libraries... pass_all +#11 409.5 checking for dlltool... no +#11 409.5 checking how to associate runtime and link libraries... printf %s\n +#11 409.5 checking for archiver @FILE support... @ +#11 409.5 checking for strip... strip +#11 409.5 checking for ranlib... ranlib +#11 409.5 checking command to parse /usr/bin/nm -B output from gcc object... ok +#11 409.5 checking for sysroot... no +#11 409.5 checking for a working dd... /usr/bin/dd +#11 409.5 checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1 +#11 409.5 checking for mt... no +#11 409.5 checking if : is a manifest tool... no +#11 409.5 checking for ANSI C header files... yes +#11 409.6 checking for sys/types.h... yes +#11 409.6 checking for sys/stat.h... yes +#11 409.6 checking for stdlib.h... yes +#11 409.6 checking for string.h... yes +#11 409.6 checking for memory.h... yes +#11 409.7 checking for strings.h... yes +#11 409.7 checking for inttypes.h... yes +#11 409.7 checking for stdint.h... yes +#11 409.7 checking for unistd.h... yes +#11 409.7 checking for dlfcn.h... yes +#11 409.7 checking for objdir... .libs +#11 409.8 checking if gcc supports -fno-rtti -fno-exceptions... no +#11 409.8 checking for gcc option to produce PIC... -fPIC -DPIC +#11 409.8 checking if gcc PIC flag -fPIC -DPIC works... yes +#11 409.8 checking if gcc static flag -static works... yes +#11 409.8 checking if gcc supports -c -o file.o... yes +#11 409.8 checking if gcc supports -c -o file.o... (cached) yes +#11 409.8 checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes +#11 409.8 checking dynamic linker characteristics... GNU/Linux ld.so +#11 409.8 checking how to hardcode library paths into programs... immediate +#11 409.8 checking for shl_load... no +#11 409.9 checking for shl_load in -ldld... no +#11 409.9 checking for dlopen... yes +#11 409.9 checking whether a program can dlopen itself... yes +#11 409.9 checking whether a statically linked program can dlopen itself... no +#11 409.9 checking whether stripping libraries is possible... yes +#11 409.9 checking if libtool supports shared libraries... yes +#11 409.9 checking whether to build shared libraries... no +#11 409.9 checking whether to build static libraries... yes +#11 409.9 checking for build mode... production +#11 409.9 checking for math library support... no +#11 410.0 checking for ANSI C header files... (cached) yes +#11 410.0 checking fcntl.h usability... yes +#11 410.0 checking fcntl.h presence... yes +#11 410.0 checking for fcntl.h... yes +#11 410.0 checking for stdlib.h... (cached) yes +#11 410.0 checking for string.h... (cached) yes +#11 410.0 checking for an ANSI C-conforming const... yes +#11 410.0 checking for size_t... yes +#11 410.0 checking for error_at_line... yes +#11 410.1 checking for working memcmp... yes +#11 410.1 checking for vprintf... yes +#11 410.1 checking for _doprnt... no +#11 410.1 checking for memset... yes +#11 410.1 checking if encoding enabled... yes +#11 410.2 checking that generated files are newer than configure... done +#11 410.3 configure: creating ./config.status +#11 410.4 config.status: creating Makefile +#11 410.4 config.status: creating src/Makefile +#11 410.4 config.status: creating src/SZconfig.h +#11 410.4 config.status: executing depfiles commands +#11 410.4 config.status: executing libtool commands +#11 410.5 Making all in src +#11 410.5 make[1]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/src' +#11 410.5 make all-am +#11 410.5 make[2]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/src' +#11 410.5 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-unused-variable -Wno-unused-parameter -Wno-cast-qual -Wno-pedantic -Wno-extra -Wno-format-overflow -Wno-format-truncation -Wno-stringop-overflow -Wno-overlength-strings -Wno-stringop-truncation -fpic -ansi -pedantic -Wall -W -Wundef -Wshadow -Wpointer-arith -Wbad-function-cast -Wcast-qual -Wcast-align -Wwrite-strings -Wconversion -Wsign-compare -Waggregate-return -Wstrict-prototypes -Wmissing-prototypes -Wmissing-declarations -Wredundant-decls -Wnested-externs -Winline -O -fomit-frame-pointer -finline-functions -MT rice.lo -MD -MP -MF .deps/rice.Tpo -c -o rice.lo rice.c +#11 410.5 libtool: compile: gcc -DHAVE_CONFIG_H -I. -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-unused-variable -Wno-unused-parameter -Wno-cast-qual -Wno-pedantic -Wno-extra -Wno-format-overflow -Wno-format-truncation -Wno-stringop-overflow -Wno-overlength-strings -Wno-stringop-truncation -fpic -ansi -pedantic -Wall -W -Wundef -Wshadow -Wpointer-arith -Wbad-function-cast -Wcast-qual -Wcast-align -Wwrite-strings -Wconversion -Wsign-compare -Waggregate-return -Wstrict-prototypes -Wmissing-prototypes -Wmissing-declarations -Wredundant-decls -Wnested-externs -Winline -O -fomit-frame-pointer -finline-functions -MT rice.lo -MD -MP -MF .deps/rice.Tpo -c rice.c -fPIC -DPIC -o rice.o +#11 410.5 rice.c:106:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 106 | static int (*winner_function)(); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:107:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 107 | static int (*winner_ref_function)(); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:301:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 301 | getch() +#11 410.5 | ^~~~~ +#11 410.5 rice.c:333:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 333 | read_header() +#11 410.5 | ^~~~~~~~~~~ +#11 410.5 rice.c: In function 'read_header': +#11 410.5 rice.c:340:13: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 340 | value = getch(); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:341:26: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 341 | value = (value << 8) | getch(); +#11 410.5 | ^ +#11 410.5 rice.c:355:30: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 355 | value = (value << 8) | getch(); +#11 410.5 | ^ +#11 410.5 rice.c:356:30: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 356 | value = (value << 8) | getch(); +#11 410.5 | ^ +#11 410.5 rice.c:360:28: warning: conversion from 'long unsigned int' to 'int' may change value [-Wconversion] +#11 410.5 360 | pixels_per_block = ((value >> 17) & 0x1f) * 2 + 2; +#11 410.5 | ^ +#11 410.5 rice.c:366:30: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 366 | value = (value << 8) | getch(); +#11 410.5 | ^ +#11 410.5 rice.c:367:30: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 367 | value = (value << 8) | getch(); +#11 410.5 | ^ +#11 410.5 rice.c:371:28: warning: conversion from 'long unsigned int' to 'int' may change value [-Wconversion] +#11 410.5 371 | pixels_per_block = ((value >> 14) & 0x1f) * 2 + 2; +#11 410.5 | ^ +#11 410.5 rice.c:380:13: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 380 | value = getch(); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:392:30: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 392 | value = (value << 8) | getch(); +#11 410.5 | ^ +#11 410.5 rice.c:393:30: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 393 | value = (value << 8) | getch(); +#11 410.5 | ^ +#11 410.5 rice.c:394:30: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 394 | value = (value << 8) | getch(); +#11 410.5 | ^ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:423:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 423 | write_header() +#11 410.5 | ^~~~~~~~~~~~ +#11 410.5 rice.c: In function 'write_header': +#11 410.5 rice.c:455:15: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 455 | value |= (msb_first == 1) << 14; +#11 410.5 | ^~ +#11 410.5 rice.c:456:15: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 456 | value |= (compression_mode == NN_MODE) << 12; +#11 410.5 | ^~ +#11 410.5 rice.c:457:15: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 457 | value |= n << 9; +#11 410.5 | ^~ +#11 410.5 rice.c:458:15: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 458 | value |= j << 6; +#11 410.5 | ^~ +#11 410.5 rice.c:459:15: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 459 | value |= m << 2; +#11 410.5 | ^~ +#11 410.5 rice.c:467:15: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 467 | value |= (msb_first == 1) << 29; +#11 410.5 | ^~ +#11 410.5 rice.c:468:15: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 468 | value |= (compression_mode == NN_MODE) << 26; +#11 410.5 | ^~ +#11 410.5 rice.c:469:15: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 469 | value |= (bits_per_pixel - 1) << 22; +#11 410.5 | ^~ +#11 410.5 rice.c:470:15: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 470 | value |= (pixels_per_block/2 - 1) << 17; +#11 410.5 | ^~ +#11 410.5 rice.c:471:15: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 471 | value |= (pixels_per_scanline - 1) << 3; +#11 410.5 | ^~ +#11 410.5 rice.c:482:15: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 482 | value |= (msb_first == 1) << 28; +#11 410.5 | ^~ +#11 410.5 rice.c:483:15: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 483 | value |= (compression_mode == NN_MODE) << 25; +#11 410.5 | ^~ +#11 410.5 rice.c:484:15: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 484 | value |= (bits_per_pixel - 1) << 19; +#11 410.5 | ^~ +#11 410.5 rice.c:485:15: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 485 | value |= (pixels_per_block/2 - 1) << 14; +#11 410.5 | ^~ +#11 410.5 rice.c:486:15: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 486 | value |= (pixels_per_scanline - 1); +#11 410.5 | ^~ +#11 410.5 rice.c:500:26: warning: conversion from 'long int' to 'int' may change value [-Wconversion] +#11 410.5 500 | scanline_count = input_pixel_count / pixels_per_scanline; +#11 410.5 | ^~~~~~~~~~~~~~~~~ +#11 410.5 rice.c:509:19: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 509 | value |= i; +#11 410.5 | ^~ +#11 410.5 rice.c:516:19: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 516 | value |= input_pixel_count; +#11 410.5 | ^~ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:537:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 537 | fix_last_scanline(byte_buffer, n) +#11 410.5 | ^~~~~~~~~~~~~~~~~ +#11 410.5 rice.c: In function 'fix_last_scanline': +#11 410.5 rice.c:554:57: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 554 | memset(byte_buffer + n, ch, pixels_per_scanline - n); +#11 410.5 | ~~~~~~~~~~~~~~~~~~~~^~~ +#11 410.5 rice.c:565:20: warning: conversion from 'int' to 'unsigned char' may change value [-Wconversion] +#11 410.5 565 | *p++ = ch1; +#11 410.5 | ^~~ +#11 410.5 rice.c:566:20: warning: conversion from 'int' to 'unsigned char' may change value [-Wconversion] +#11 410.5 566 | *p++ = ch2; +#11 410.5 | ^~~ +#11 410.5 rice.c:580:20: warning: conversion from 'int' to 'unsigned char' may change value [-Wconversion] +#11 410.5 580 | *p++ = ch1; +#11 410.5 | ^~~ +#11 410.5 rice.c:581:20: warning: conversion from 'int' to 'unsigned char' may change value [-Wconversion] +#11 410.5 581 | *p++ = ch2; +#11 410.5 | ^~~ +#11 410.5 rice.c:582:20: warning: conversion from 'int' to 'unsigned char' may change value [-Wconversion] +#11 410.5 582 | *p++ = ch3; +#11 410.5 | ^~~ +#11 410.5 rice.c:583:20: warning: conversion from 'int' to 'unsigned char' may change value [-Wconversion] +#11 410.5 583 | *p++ = ch4; +#11 410.5 | ^~~ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:604:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 604 | encode_scanline() +#11 410.5 | ^~~~~~~~~~~~~~~ +#11 410.5 rice.c: In function 'encode_scanline': +#11 410.5 rice.c:606:11: warning: declaration of 'bptr' shadows a global declaration [-Wshadow] +#11 410.5 606 | char *bptr; +#11 410.5 | ^~~~ +#11 410.5 rice.c:163:14: note: shadowed declaration is here +#11 410.5 163 | static char *bptr; +#11 410.5 | ^~~~ +#11 410.5 rice.c:638:12: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 638 | mask = masknot[bits_per_pixel]; +#11 410.5 | ^~~~~~~ +#11 410.5 rice.c:656:17: warning: conversion from 'long int' to 'int' may change value [-Wconversion] +#11 410.5 656 | n = input_pixel_count >= pixels_per_scanline ? pixels_per_scanline : input_pixel_count; +#11 410.5 | ^~~~~~~~~~~~~~~~~ +#11 410.5 rice.c:658:51: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 658 | memcpy(byte_buffer, input_byte_data, 2*n); +#11 410.5 | ~^~ +#11 410.5 rice.c:679:55: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 679 | x1 = ((*(b+0) << 8) + *(b+1)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:679:30: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 679 | x1 = ((*(b+0) << 8) + *(b+1)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:680:55: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 680 | x2 = ((*(b+2) << 8) + *(b+3)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:680:30: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 680 | x2 = ((*(b+2) << 8) + *(b+3)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:681:55: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 681 | x3 = ((*(b+4) << 8) + *(b+5)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:681:30: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 681 | x3 = ((*(b+4) << 8) + *(b+5)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:682:55: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 682 | x4 = ((*(b+6) << 8) + *(b+7)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:682:30: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 682 | x4 = ((*(b+6) << 8) + *(b+7)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:688:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 688 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:690:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 690 | *s++ = x1; +#11 410.5 | ^~ +#11 410.5 rice.c:695:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 695 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:697:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 697 | *s++ = xmax-x1; +#11 410.5 | ^~~~ +#11 410.5 rice.c:704:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 704 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:706:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 706 | *s++ = x2; +#11 410.5 | ^~ +#11 410.5 rice.c:711:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 711 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:713:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 713 | *s++ = xmax-x2; +#11 410.5 | ^~~~ +#11 410.5 rice.c:720:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 720 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:722:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 722 | *s++ = x3; +#11 410.5 | ^~ +#11 410.5 rice.c:727:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 727 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:729:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 729 | *s++ = xmax-x3; +#11 410.5 | ^~~~ +#11 410.5 rice.c:736:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 736 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:738:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 738 | *s++ = x4; +#11 410.5 | ^~ +#11 410.5 rice.c:743:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 743 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:745:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 745 | *s++ = xmax-x4; +#11 410.5 | ^~~~ +#11 410.5 rice.c:753:50: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 753 | x = ((*b << 8) + *(b+1)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:753:29: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 753 | x = ((*b << 8) + *(b+1)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:759:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 759 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:761:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 761 | *s++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:766:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 766 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:768:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 768 | *s++ = xmax-x; +#11 410.5 | ^~~~ +#11 410.5 rice.c:778:49: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 778 | *s++ = ((*b << 8) + *(b+1)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:791:55: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 791 | x1 = ((*(b+1) << 8) + *(b+0)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:791:30: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 791 | x1 = ((*(b+1) << 8) + *(b+0)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:792:55: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 792 | x2 = ((*(b+3) << 8) + *(b+2)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:792:30: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 792 | x2 = ((*(b+3) << 8) + *(b+2)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:793:55: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 793 | x3 = ((*(b+5) << 8) + *(b+4)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:793:30: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 793 | x3 = ((*(b+5) << 8) + *(b+4)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:794:55: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 794 | x4 = ((*(b+7) << 8) + *(b+6)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:794:30: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 794 | x4 = ((*(b+7) << 8) + *(b+6)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:800:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 800 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:802:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 802 | *s++ = x1; +#11 410.5 | ^~ +#11 410.5 rice.c:807:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 807 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:809:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 809 | *s++ = xmax-x1; +#11 410.5 | ^~~~ +#11 410.5 rice.c:816:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 816 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:818:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 818 | *s++ = x2; +#11 410.5 | ^~ +#11 410.5 rice.c:823:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 823 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:825:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 825 | *s++ = xmax-x2; +#11 410.5 | ^~~~ +#11 410.5 rice.c:832:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 832 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:834:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 834 | *s++ = x3; +#11 410.5 | ^~ +#11 410.5 rice.c:839:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 839 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:841:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 841 | *s++ = xmax-x3; +#11 410.5 | ^~~~ +#11 410.5 rice.c:848:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 848 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:850:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 850 | *s++ = x4; +#11 410.5 | ^~ +#11 410.5 rice.c:855:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 855 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:857:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 857 | *s++ = xmax-x4; +#11 410.5 | ^~~~ +#11 410.5 rice.c:865:50: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 865 | x = ((*(b+1) << 8) + *b) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:865:29: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 865 | x = ((*(b+1) << 8) + *b) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:871:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 871 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:873:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 873 | *s++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:878:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 878 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:880:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 880 | *s++ = xmax-x; +#11 410.5 | ^~~~ +#11 410.5 rice.c:890:48: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 890 | *s++ =((*(b+1) << 8) + *b) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:916:17: warning: conversion from 'long int' to 'int' may change value [-Wconversion] +#11 410.5 916 | n = input_pixel_count >= pixels_per_scanline ? pixels_per_scanline : input_pixel_count; +#11 410.5 | ^~~~~~~~~~~~~~~~~ +#11 410.5 rice.c:918:50: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 918 | memcpy(byte_buffer, input_byte_data, n); +#11 410.5 | ^ +#11 410.5 rice.c:937:26: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 937 | x1 = *b++ & mask; +#11 410.5 | ^ +#11 410.5 rice.c:938:26: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 938 | x2 = *b++ & mask; +#11 410.5 | ^ +#11 410.5 rice.c:939:26: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 939 | x3 = *b++ & mask; +#11 410.5 | ^ +#11 410.5 rice.c:940:26: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 940 | x4 = *b++ & mask; +#11 410.5 | ^ +#11 410.5 rice.c:945:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 945 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:947:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 947 | *s++ = x1; +#11 410.5 | ^~ +#11 410.5 rice.c:952:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 952 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:954:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 954 | *s++ = xmax-x1; +#11 410.5 | ^~~~ +#11 410.5 rice.c:961:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 961 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:963:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 963 | *s++ = x2; +#11 410.5 | ^~ +#11 410.5 rice.c:968:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 968 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:970:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 970 | *s++ = xmax-x2; +#11 410.5 | ^~~~ +#11 410.5 rice.c:977:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 977 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:979:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 979 | *s++ = x3; +#11 410.5 | ^~ +#11 410.5 rice.c:984:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 984 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:986:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 986 | *s++ = xmax-x3; +#11 410.5 | ^~~~ +#11 410.5 rice.c:993:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 993 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:995:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 995 | *s++ = x4; +#11 410.5 | ^~ +#11 410.5 rice.c:1000:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1000 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:1002:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1002 | *s++ = xmax-x4; +#11 410.5 | ^~~~ +#11 410.5 rice.c:1010:25: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1010 | x = *b++ & mask; +#11 410.5 | ^ +#11 410.5 rice.c:1015:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1015 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:1017:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1017 | *s++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:1022:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1022 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:1024:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1024 | *s++ = xmax-x; +#11 410.5 | ^~~~ +#11 410.5 rice.c:1062:17: warning: conversion from 'long int' to 'int' may change value [-Wconversion] +#11 410.5 1062 | n = input_pixel_count >= pixels_per_scanline ? pixels_per_scanline : input_pixel_count; +#11 410.5 | ^~~~~~~~~~~~~~~~~ +#11 410.5 rice.c:1064:51: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1064 | memcpy(byte_buffer, input_byte_data, 4*n); +#11 410.5 | ~^~ +#11 410.5 rice.c:1085:30: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1085 | x1 = ((*(b+1) << 16) | (*(b+2) << 8) | *(b+3)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:1086:30: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1086 | x2 = ((*(b+5) << 16) | (*(b+6) << 8) | *(b+7)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:1087:30: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1087 | x3 = ((*(b+9) << 16) | (*(b+10) << 8) | *(b+11)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:1088:30: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1088 | x4 = ((*(b+13) << 16) | (*(b+14) << 8) | *(b+15)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:1094:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1094 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:1096:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1096 | *s++ = x1; +#11 410.5 | ^~ +#11 410.5 rice.c:1101:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1101 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:1103:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1103 | *s++ = xmax-x1; +#11 410.5 | ^~~~ +#11 410.5 rice.c:1110:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1110 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:1112:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1112 | *s++ = x2; +#11 410.5 | ^~ +#11 410.5 rice.c:1117:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1117 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:1119:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1119 | *s++ = xmax-x2; +#11 410.5 | ^~~~ +#11 410.5 rice.c:1126:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1126 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:1128:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1128 | *s++ = x3; +#11 410.5 | ^~ +#11 410.5 rice.c:1133:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1133 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:1135:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1135 | *s++ = xmax-x3; +#11 410.5 | ^~~~ +#11 410.5 rice.c:1142:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1142 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:1144:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1144 | *s++ = x4; +#11 410.5 | ^~ +#11 410.5 rice.c:1149:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1149 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:1151:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1151 | *s++ = xmax-x4; +#11 410.5 | ^~~~ +#11 410.5 rice.c:1159:29: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1159 | x = ((*(b+1) << 16) | (*(b+2) << 8) | *(b+3)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:1165:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1165 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:1167:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1167 | *s++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:1172:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1172 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:1174:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1174 | *s++ = xmax-x; +#11 410.5 | ^~~~ +#11 410.5 rice.c:1197:30: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1197 | x1 = ((*(b+2) << 16) | (*(b+1) << 8) | *(b+0)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:1198:30: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1198 | x2 = ((*(b+6) << 16) | (*(b+5) << 8) | *(b+4)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:1199:30: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1199 | x3 = ((*(b+10) << 16) | (*(b+9) << 8) | *(b+8)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:1200:30: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1200 | x4 = ((*(b+14) << 16) | (*(b+13) << 8) | *(b+12)) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:1206:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1206 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:1208:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1208 | *s++ = x1; +#11 410.5 | ^~ +#11 410.5 rice.c:1213:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1213 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:1215:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1215 | *s++ = xmax-x1; +#11 410.5 | ^~~~ +#11 410.5 rice.c:1222:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1222 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:1224:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1224 | *s++ = x2; +#11 410.5 | ^~ +#11 410.5 rice.c:1229:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1229 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:1231:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1231 | *s++ = xmax-x2; +#11 410.5 | ^~~~ +#11 410.5 rice.c:1238:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1238 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:1240:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1240 | *s++ = x3; +#11 410.5 | ^~ +#11 410.5 rice.c:1245:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1245 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:1247:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1247 | *s++ = xmax-x3; +#11 410.5 | ^~~~ +#11 410.5 rice.c:1254:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1254 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:1256:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1256 | *s++ = x4; +#11 410.5 | ^~ +#11 410.5 rice.c:1261:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1261 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:1263:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1263 | *s++ = xmax-x4; +#11 410.5 | ^~~~ +#11 410.5 rice.c:1271:29: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1271 | x = ((*(b+2) << 16) | (*(b+1) << 8) | *b) & mask; +#11 410.5 | ^ +#11 410.5 rice.c:1277:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1277 | *s++ = del << 1; +#11 410.5 | ^~~ +#11 410.5 rice.c:1279:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1279 | *s++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:1284:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1284 | *s++ = ((-del)<<1) - 1; +#11 410.5 | ^ +#11 410.5 rice.c:1286:40: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1286 | *s++ = xmax-x; +#11 410.5 | ^~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1326:13: note: in expansion of macro 'pack1' +#11 410.5 1326 | pack1(0, id_bits+1); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:220:19: warning: declaration of 'value' shadows a previous local [-Wshadow] +#11 410.5 220 | unsigned long value; \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1327:13: note: in expansion of macro 'pack2' +#11 410.5 1327 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:632:19: note: shadowed declaration is here +#11 410.5 632 | unsigned long value; +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:230:9: note: in expansion of macro 'pack1' +#11 410.5 230 | pack1(v16, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1327:13: note: in expansion of macro 'pack2' +#11 410.5 1327 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:209:23: warning: declaration of 'v16' shadows a previous local [-Wshadow] +#11 410.5 209 | unsigned long v16; \ +#11 410.5 | ^~~ +#11 410.5 rice.c:230:9: note: in expansion of macro 'pack1' +#11 410.5 230 | pack1(v16, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1327:13: note: in expansion of macro 'pack2' +#11 410.5 1327 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:227:23: note: shadowed declaration is here +#11 410.5 227 | unsigned long v16; \ +#11 410.5 | ^~~ +#11 410.5 rice.c:1327:13: note: in expansion of macro 'pack2' +#11 410.5 1327 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:235:5: note: in expansion of macro 'pack1' +#11 410.5 235 | pack1(value, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1327:13: note: in expansion of macro 'pack2' +#11 410.5 1327 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1344:17: note: in expansion of macro 'pack1' +#11 410.5 1344 | pack1(id, id_bits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:206:18: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 206 | packed_value |= value << packed_bits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1344:17: note: in expansion of macro 'pack1' +#11 410.5 1344 | pack1(id, id_bits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:220:19: warning: declaration of 'value' shadows a previous local [-Wshadow] +#11 410.5 220 | unsigned long value; \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1345:17: note: in expansion of macro 'pack2' +#11 410.5 1345 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:632:19: note: shadowed declaration is here +#11 410.5 632 | unsigned long value; +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:230:9: note: in expansion of macro 'pack1' +#11 410.5 230 | pack1(v16, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1345:17: note: in expansion of macro 'pack2' +#11 410.5 1345 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:209:23: warning: declaration of 'v16' shadows a previous local [-Wshadow] +#11 410.5 209 | unsigned long v16; \ +#11 410.5 | ^~~ +#11 410.5 rice.c:230:9: note: in expansion of macro 'pack1' +#11 410.5 230 | pack1(v16, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1345:17: note: in expansion of macro 'pack2' +#11 410.5 1345 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:227:23: note: shadowed declaration is here +#11 410.5 227 | unsigned long v16; \ +#11 410.5 | ^~~ +#11 410.5 rice.c:1345:17: note: in expansion of macro 'pack2' +#11 410.5 1345 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:235:5: note: in expansion of macro 'pack1' +#11 410.5 235 | pack1(value, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1345:17: note: in expansion of macro 'pack2' +#11 410.5 1345 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:220:19: warning: declaration of 'value' shadows a previous local [-Wshadow] +#11 410.5 220 | unsigned long value; \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1349:25: note: in expansion of macro 'pack2' +#11 410.5 1349 | pack2(*s++, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:632:19: note: shadowed declaration is here +#11 410.5 632 | unsigned long value; +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:230:9: note: in expansion of macro 'pack1' +#11 410.5 230 | pack1(v16, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1349:25: note: in expansion of macro 'pack2' +#11 410.5 1349 | pack2(*s++, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:209:23: warning: declaration of 'v16' shadows a previous local [-Wshadow] +#11 410.5 209 | unsigned long v16; \ +#11 410.5 | ^~~ +#11 410.5 rice.c:230:9: note: in expansion of macro 'pack1' +#11 410.5 230 | pack1(v16, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1349:25: note: in expansion of macro 'pack2' +#11 410.5 1349 | pack2(*s++, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:227:23: note: shadowed declaration is here +#11 410.5 227 | unsigned long v16; \ +#11 410.5 | ^~~ +#11 410.5 rice.c:1349:25: note: in expansion of macro 'pack2' +#11 410.5 1349 | pack2(*s++, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:235:5: note: in expansion of macro 'pack1' +#11 410.5 235 | pack1(value, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1349:25: note: in expansion of macro 'pack2' +#11 410.5 1349 | pack2(*s++, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1357:33: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1357 | fsval = (*s1++ >> ksplits) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1358:25: note: in expansion of macro 'packfs' +#11 410.5 1358 | packfs(fsval); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:1361:28: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1361 | mask = masknot[ksplits]; +#11 410.5 | ^~~~~~~ +#11 410.5 rice.c:220:19: warning: declaration of 'value' shadows a previous local [-Wshadow] +#11 410.5 220 | unsigned long value; \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1365:25: note: in expansion of macro 'pack2' +#11 410.5 1365 | pack2(num, ksplits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:632:19: note: shadowed declaration is here +#11 410.5 632 | unsigned long value; +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:230:9: note: in expansion of macro 'pack1' +#11 410.5 230 | pack1(v16, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1365:25: note: in expansion of macro 'pack2' +#11 410.5 1365 | pack2(num, ksplits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:209:23: warning: declaration of 'v16' shadows a previous local [-Wshadow] +#11 410.5 209 | unsigned long v16; \ +#11 410.5 | ^~~ +#11 410.5 rice.c:230:9: note: in expansion of macro 'pack1' +#11 410.5 230 | pack1(v16, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1365:25: note: in expansion of macro 'pack2' +#11 410.5 1365 | pack2(num, ksplits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:227:23: note: shadowed declaration is here +#11 410.5 227 | unsigned long v16; \ +#11 410.5 | ^~~ +#11 410.5 rice.c:1365:25: note: in expansion of macro 'pack2' +#11 410.5 1365 | pack2(num, ksplits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:235:5: note: in expansion of macro 'pack1' +#11 410.5 235 | pack1(value, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1365:25: note: in expansion of macro 'pack2' +#11 410.5 1365 | pack2(num, ksplits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1371:17: note: in expansion of macro 'pack1' +#11 410.5 1371 | pack1(id, id_bits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:206:18: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 206 | packed_value |= value << packed_bits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1371:17: note: in expansion of macro 'pack1' +#11 410.5 1371 | pack1(id, id_bits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:220:19: warning: declaration of 'value' shadows a previous local [-Wshadow] +#11 410.5 220 | unsigned long value; \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1372:17: note: in expansion of macro 'pack2' +#11 410.5 1372 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:632:19: note: shadowed declaration is here +#11 410.5 632 | unsigned long value; +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:230:9: note: in expansion of macro 'pack1' +#11 410.5 230 | pack1(v16, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1372:17: note: in expansion of macro 'pack2' +#11 410.5 1372 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:209:23: warning: declaration of 'v16' shadows a previous local [-Wshadow] +#11 410.5 209 | unsigned long v16; \ +#11 410.5 | ^~~ +#11 410.5 rice.c:230:9: note: in expansion of macro 'pack1' +#11 410.5 230 | pack1(v16, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1372:17: note: in expansion of macro 'pack2' +#11 410.5 1372 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:227:23: note: shadowed declaration is here +#11 410.5 227 | unsigned long v16; \ +#11 410.5 | ^~~ +#11 410.5 rice.c:1372:17: note: in expansion of macro 'pack2' +#11 410.5 1372 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:235:5: note: in expansion of macro 'pack1' +#11 410.5 235 | pack1(value, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1372:17: note: in expansion of macro 'pack2' +#11 410.5 1372 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1375:29: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1375 | fsval = *s++ + 1; +#11 410.5 | ^ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1376:21: note: in expansion of macro 'packfs' +#11 410.5 1376 | packfs(fsval); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1381:17: note: in expansion of macro 'pack1' +#11 410.5 1381 | pack1(1, id_bits+1); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:220:19: warning: declaration of 'value' shadows a previous local [-Wshadow] +#11 410.5 220 | unsigned long value; \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1382:17: note: in expansion of macro 'pack2' +#11 410.5 1382 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:632:19: note: shadowed declaration is here +#11 410.5 632 | unsigned long value; +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:230:9: note: in expansion of macro 'pack1' +#11 410.5 230 | pack1(v16, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1382:17: note: in expansion of macro 'pack2' +#11 410.5 1382 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:209:23: warning: declaration of 'v16' shadows a previous local [-Wshadow] +#11 410.5 209 | unsigned long v16; \ +#11 410.5 | ^~~ +#11 410.5 rice.c:230:9: note: in expansion of macro 'pack1' +#11 410.5 230 | pack1(v16, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1382:17: note: in expansion of macro 'pack2' +#11 410.5 1382 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:227:23: note: shadowed declaration is here +#11 410.5 227 | unsigned long v16; \ +#11 410.5 | ^~~ +#11 410.5 rice.c:1382:17: note: in expansion of macro 'pack2' +#11 410.5 1382 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:235:5: note: in expansion of macro 'pack1' +#11 410.5 235 | pack1(value, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1382:17: note: in expansion of macro 'pack2' +#11 410.5 1382 | pack2(*sigma, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1384:17: note: in expansion of macro 'packfs' +#11 410.5 1384 | packfs(fsval); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1388:21: note: in expansion of macro 'packfs' +#11 410.5 1388 | packfs(fsval); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1410:17: note: in expansion of macro 'pack1' +#11 410.5 1410 | pack1(0, id_bits+1); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1420:17: note: in expansion of macro 'packfs' +#11 410.5 1420 | packfs(newbits); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1435:17: note: in expansion of macro 'packfs' +#11 410.5 1435 | packfs(newbits); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1444:17: note: in expansion of macro 'pack1' +#11 410.5 1444 | pack1(id, id_bits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:206:18: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 206 | packed_value |= value << packed_bits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1444:17: note: in expansion of macro 'pack1' +#11 410.5 1444 | pack1(id, id_bits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:220:19: warning: declaration of 'value' shadows a previous local [-Wshadow] +#11 410.5 220 | unsigned long value; \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1448:25: note: in expansion of macro 'pack2' +#11 410.5 1448 | pack2(*s++, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:632:19: note: shadowed declaration is here +#11 410.5 632 | unsigned long value; +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:230:9: note: in expansion of macro 'pack1' +#11 410.5 230 | pack1(v16, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1448:25: note: in expansion of macro 'pack2' +#11 410.5 1448 | pack2(*s++, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:209:23: warning: declaration of 'v16' shadows a previous local [-Wshadow] +#11 410.5 209 | unsigned long v16; \ +#11 410.5 | ^~~ +#11 410.5 rice.c:230:9: note: in expansion of macro 'pack1' +#11 410.5 230 | pack1(v16, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1448:25: note: in expansion of macro 'pack2' +#11 410.5 1448 | pack2(*s++, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:227:23: note: shadowed declaration is here +#11 410.5 227 | unsigned long v16; \ +#11 410.5 | ^~~ +#11 410.5 rice.c:1448:25: note: in expansion of macro 'pack2' +#11 410.5 1448 | pack2(*s++, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:235:5: note: in expansion of macro 'pack1' +#11 410.5 235 | pack1(value, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1448:25: note: in expansion of macro 'pack2' +#11 410.5 1448 | pack2(*s++, bits_per_pixel); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1459:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1459 | fsval = (*s1++ >> 1) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:1460:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1460 | fsval2 = (*s1++ >> 1) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1464:37: note: in expansion of macro 'pack1' +#11 410.5 1464 | pack1(value, fsval + fsval2); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1468:37: note: in expansion of macro 'packfs' +#11 410.5 1468 | packfs(fsval); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1469:37: note: in expansion of macro 'packfs' +#11 410.5 1469 | packfs(fsval2); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:1478:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1478 | value = (value << 1) | *s++ & 1; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1479:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1479 | value = (value << 1) | *s++ & 1; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1480:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1480 | value = (value << 1) | *s++ & 1; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1481:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1481 | value = (value << 1) | *s++ & 1; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1482:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1482 | value = (value << 1) | *s++ & 1; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1483:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1483 | value = (value << 1) | *s++ & 1; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1484:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1484 | value = (value << 1) | *s++ & 1; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1492:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1492 | value = (value << 1) | *s++ & 1; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1500:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1500 | fsval = (*s1++ >> 2) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:1501:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1501 | fsval2 = (*s1++ >> 2) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1505:37: note: in expansion of macro 'pack1' +#11 410.5 1505 | pack1(value, fsval + fsval2); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1509:37: note: in expansion of macro 'packfs' +#11 410.5 1509 | packfs(fsval); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1510:37: note: in expansion of macro 'packfs' +#11 410.5 1510 | packfs(fsval2); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:1519:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1519 | value = (value << 2) | *s++ & 3; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1520:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1520 | value = (value << 2) | *s++ & 3; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1521:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1521 | value = (value << 2) | *s++ & 3; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1522:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1522 | value = (value << 2) | *s++ & 3; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1523:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1523 | value = (value << 2) | *s++ & 3; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1524:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1524 | value = (value << 2) | *s++ & 3; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1525:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1525 | value = (value << 2) | *s++ & 3; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1533:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1533 | value = (value << 2) | *s++ & 3; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1541:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1541 | fsval = (*s1++ >> 3) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:1542:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1542 | fsval2 = (*s1++ >> 3) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1546:37: note: in expansion of macro 'pack1' +#11 410.5 1546 | pack1(value, fsval + fsval2); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1550:37: note: in expansion of macro 'packfs' +#11 410.5 1550 | packfs(fsval); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1551:37: note: in expansion of macro 'packfs' +#11 410.5 1551 | packfs(fsval2); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:1560:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1560 | value = (value << 3) | *s++ & 7; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1561:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1561 | value = (value << 3) | *s++ & 7; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1562:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1562 | value = (value << 3) | *s++ & 7; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1563:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1563 | value = (value << 3) | *s++ & 7; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1567:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1567 | value = (value << 3) | *s++ & 7; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1568:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1568 | value = (value << 3) | *s++ & 7; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1576:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1576 | value = (value << 3) | *s++ & 7; +#11 410.5 | ~~~~~^~~ +#11 410.5 rice.c:1584:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1584 | fsval = (*s1++ >> 4) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:1585:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1585 | fsval2 = (*s1++ >> 4) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1589:37: note: in expansion of macro 'pack1' +#11 410.5 1589 | pack1(value, fsval + fsval2); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1593:37: note: in expansion of macro 'packfs' +#11 410.5 1593 | packfs(fsval); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1594:37: note: in expansion of macro 'packfs' +#11 410.5 1594 | packfs(fsval2); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:1603:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1603 | value = (value << 4) | *s++ & 0xf; +#11 410.5 | ~~~~~^~~~~ +#11 410.5 rice.c:1604:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1604 | value = (value << 4) | *s++ & 0xf; +#11 410.5 | ~~~~~^~~~~ +#11 410.5 rice.c:1605:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1605 | value = (value << 4) | *s++ & 0xf; +#11 410.5 | ~~~~~^~~~~ +#11 410.5 rice.c:1609:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1609 | value = (value << 4) | *s++ & 0xf; +#11 410.5 | ~~~~~^~~~~ +#11 410.5 rice.c:1610:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1610 | value = (value << 4) | *s++ & 0xf; +#11 410.5 | ~~~~~^~~~~ +#11 410.5 rice.c:1611:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1611 | value = (value << 4) | *s++ & 0xf; +#11 410.5 | ~~~~~^~~~~ +#11 410.5 rice.c:1619:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1619 | value = (value << 4) | *s++ & 0xf; +#11 410.5 | ~~~~~^~~~~ +#11 410.5 rice.c:1627:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1627 | fsval = (*s1++ >> 5) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:1628:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1628 | fsval2 = (*s1++ >> 5) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1632:37: note: in expansion of macro 'pack1' +#11 410.5 1632 | pack1(value, fsval + fsval2); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1636:37: note: in expansion of macro 'packfs' +#11 410.5 1636 | packfs(fsval); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1637:37: note: in expansion of macro 'packfs' +#11 410.5 1637 | packfs(fsval2); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:1646:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1646 | value = (value << 5) | *s++ & 0x1f; +#11 410.5 | ~~~~~^~~~~~ +#11 410.5 rice.c:1647:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1647 | value = (value << 5) | *s++ & 0x1f; +#11 410.5 | ~~~~~^~~~~~ +#11 410.5 rice.c:1651:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1651 | value = (value << 5) | *s++ & 0x1f; +#11 410.5 | ~~~~~^~~~~~ +#11 410.5 rice.c:1652:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1652 | value = (value << 5) | *s++ & 0x1f; +#11 410.5 | ~~~~~^~~~~~ +#11 410.5 rice.c:1656:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1656 | value = (value << 5) | *s++ & 0x1f; +#11 410.5 | ~~~~~^~~~~~ +#11 410.5 rice.c:1664:65: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1664 | value = (value << 5) | *s++ & 0x1f; +#11 410.5 | ~~~~~^~~~~~ +#11 410.5 rice.c:1672:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1672 | fsval = (*s1++ >> 6) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:1673:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1673 | fsval2 = (*s1++ >> 6) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1677:37: note: in expansion of macro 'pack1' +#11 410.5 1677 | pack1(value, fsval + fsval2); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1681:37: note: in expansion of macro 'packfs' +#11 410.5 1681 | packfs(fsval); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1682:37: note: in expansion of macro 'packfs' +#11 410.5 1682 | packfs(fsval2); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:1689:61: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1689 | value = (value << 6) | *s++ & 0x3f; +#11 410.5 | ~~~~~^~~~~~ +#11 410.5 rice.c:1697:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1697 | fsval = (*s1++ >> 7) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:1698:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1698 | fsval2 = (*s1++ >> 7) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1699:33: note: in expansion of macro 'packfs' +#11 410.5 1699 | packfs(fsval); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1700:33: note: in expansion of macro 'packfs' +#11 410.5 1700 | packfs(fsval2); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:1706:61: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1706 | value = (value << 7) | *s++ & 0x7f; +#11 410.5 | ~~~~~^~~~~~ +#11 410.5 rice.c:1714:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1714 | fsval = (*s1++ >> 8) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:1715:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1715 | fsval2 = (*s1++ >> 8) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1716:33: note: in expansion of macro 'packfs' +#11 410.5 1716 | packfs(fsval); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1717:33: note: in expansion of macro 'packfs' +#11 410.5 1717 | packfs(fsval2); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:1723:61: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.5 1723 | value = (value << 8) | *s++ & 0xff; +#11 410.5 | ~~~~~^~~~~~ +#11 410.5 rice.c:1737:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1737 | fsval = (*s1++ >> ksplits) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:1738:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1738 | fsval2 = (*s1++ >> ksplits) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1739:33: note: in expansion of macro 'packfs' +#11 410.5 1739 | packfs(fsval); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1740:33: note: in expansion of macro 'packfs' +#11 410.5 1740 | packfs(fsval2); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:1743:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1743 | mask = masknot[ksplits]; +#11 410.5 | ^~~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1747:33: note: in expansion of macro 'pack1' +#11 410.5 1747 | pack1(num, ksplits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1754:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1754 | fsval = (*s1++ >> ksplits) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:1755:42: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1755 | fsval2 = (*s1++ >> ksplits) + 1; +#11 410.5 | ^ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1756:33: note: in expansion of macro 'packfs' +#11 410.5 1756 | packfs(fsval); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1757:33: note: in expansion of macro 'packfs' +#11 410.5 1757 | packfs(fsval2); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:1760:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1760 | mask = masknot[ksplits]; +#11 410.5 | ^~~~~~~ +#11 410.5 rice.c:220:19: warning: declaration of 'value' shadows a previous local [-Wshadow] +#11 410.5 220 | unsigned long value; \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1764:33: note: in expansion of macro 'pack2' +#11 410.5 1764 | pack2(num, ksplits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:632:19: note: shadowed declaration is here +#11 410.5 632 | unsigned long value; +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:230:9: note: in expansion of macro 'pack1' +#11 410.5 230 | pack1(v16, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1764:33: note: in expansion of macro 'pack2' +#11 410.5 1764 | pack2(num, ksplits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:209:23: warning: declaration of 'v16' shadows a previous local [-Wshadow] +#11 410.5 209 | unsigned long v16; \ +#11 410.5 | ^~~ +#11 410.5 rice.c:230:9: note: in expansion of macro 'pack1' +#11 410.5 230 | pack1(v16, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1764:33: note: in expansion of macro 'pack2' +#11 410.5 1764 | pack2(num, ksplits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:227:23: note: shadowed declaration is here +#11 410.5 227 | unsigned long v16; \ +#11 410.5 | ^~~ +#11 410.5 rice.c:1764:33: note: in expansion of macro 'pack2' +#11 410.5 1764 | pack2(num, ksplits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:235:5: note: in expansion of macro 'pack1' +#11 410.5 235 | pack1(value, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1764:33: note: in expansion of macro 'pack2' +#11 410.5 1764 | pack2(num, ksplits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1772:17: note: in expansion of macro 'pack1' +#11 410.5 1772 | pack1(id, id_bits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:206:18: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 206 | packed_value |= value << packed_bits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:1772:17: note: in expansion of macro 'pack1' +#11 410.5 1772 | pack1(id, id_bits); +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1775:29: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1775 | fsval = *s++ + 1; +#11 410.5 | ^ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1776:21: note: in expansion of macro 'packfs' +#11 410.5 1776 | packfs(fsval); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1781:17: note: in expansion of macro 'packfs' +#11 410.5 1781 | packfs(id_bits+1); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:204:17: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 204 | packed_bits -= pbits; \ +#11 410.5 | ^~ +#11 410.5 rice.c:248:5: note: in expansion of macro 'pack1' +#11 410.5 248 | pack1(1, pbits); \ +#11 410.5 | ^~~~~ +#11 410.5 rice.c:1785:21: note: in expansion of macro 'packfs' +#11 410.5 1785 | packfs(fsval); +#11 410.5 | ^~~~~~ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:1824:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 1824 | flush_encoded_bits() +#11 410.5 | ^~~~~~~~~~~~~~~~~~ +#11 410.5 rice.c: In function 'flush_encoded_bits': +#11 410.5 rice.c:1830:15: warning: conversion from 'long unsigned int' to 'unsigned int' may change value [-Wconversion] +#11 410.5 1830 | v16 = global_packed_value >> 16; +#11 410.5 | ^~~~~~~~~~~~~~~~~~~ +#11 410.5 rice.c:1831:26: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 1831 | *global_bptr++ = v16 >> 8; +#11 410.5 | ^~~ +#11 410.5 rice.c:1833:30: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 1833 | *global_bptr++ = v16; +#11 410.5 | ^~~ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:1845:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 1845 | rice_encode() +#11 410.5 | ^~~~~~~~~~~ +#11 410.5 rice.c:1902:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 1902 | c_ext2(sigma, end) +#11 410.5 | ^~~~~~ +#11 410.5 rice.c:1935:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 1935 | find_winner8(sigma, end) +#11 410.5 | ^~~~~~~~~~~~ +#11 410.5 rice.c: In function 'find_winner8': +#11 410.5 rice.c:1949:13: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1949 | sum += *s++; +#11 410.5 | ^~ +#11 410.5 rice.c:1949:16: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1949 | sum += *s++; +#11 410.5 | ^ +#11 410.5 rice.c:1950:13: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1950 | sum += *s++; +#11 410.5 | ^~ +#11 410.5 rice.c:1950:16: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 1950 | sum += *s++; +#11 410.5 | ^ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:2019:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 2019 | find_ref_winner8(sigma, end) +#11 410.5 | ^~~~~~~~~~~~~~~~ +#11 410.5 rice.c: In function 'find_ref_winner8': +#11 410.5 rice.c:2032:13: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2032 | sum += *s++; +#11 410.5 | ^~ +#11 410.5 rice.c:2032:16: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2032 | sum += *s++; +#11 410.5 | ^ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:2100:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 2100 | find_winner10(sigma, end) +#11 410.5 | ^~~~~~~~~~~~~ +#11 410.5 rice.c: In function 'find_winner10': +#11 410.5 rice.c:2114:13: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2114 | sum += *s++; +#11 410.5 | ^~ +#11 410.5 rice.c:2114:16: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2114 | sum += *s++; +#11 410.5 | ^ +#11 410.5 rice.c:2115:13: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2115 | sum += *s++; +#11 410.5 | ^~ +#11 410.5 rice.c:2115:16: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2115 | sum += *s++; +#11 410.5 | ^ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:2184:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 2184 | find_ref_winner10(sigma, end) +#11 410.5 | ^~~~~~~~~~~~~~~~~ +#11 410.5 rice.c: In function 'find_ref_winner10': +#11 410.5 rice.c:2197:13: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2197 | sum += *s++; +#11 410.5 | ^~ +#11 410.5 rice.c:2197:16: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2197 | sum += *s++; +#11 410.5 | ^ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:2265:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 2265 | find_winner16(sigma, end) +#11 410.5 | ^~~~~~~~~~~~~ +#11 410.5 rice.c: In function 'find_winner16': +#11 410.5 rice.c:2279:13: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2279 | sum += *s++; +#11 410.5 | ^~ +#11 410.5 rice.c:2279:16: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2279 | sum += *s++; +#11 410.5 | ^ +#11 410.5 rice.c:2280:13: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2280 | sum += *s++; +#11 410.5 | ^~ +#11 410.5 rice.c:2280:16: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2280 | sum += *s++; +#11 410.5 | ^ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:2349:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 2349 | find_ref_winner16(sigma, end) +#11 410.5 | ^~~~~~~~~~~~~~~~~ +#11 410.5 rice.c: In function 'find_ref_winner16': +#11 410.5 rice.c:2362:13: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2362 | sum += *s++; +#11 410.5 | ^~ +#11 410.5 rice.c:2362:16: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2362 | sum += *s++; +#11 410.5 | ^ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:2430:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 2430 | find_winner(start, end) +#11 410.5 | ^~~~~~~~~~~ +#11 410.5 rice.c: In function 'find_winner': +#11 410.5 rice.c:2443:12: warning: conversion from 'long int' to 'int' may change value [-Wconversion] +#11 410.5 2443 | jcnt = end - start; +#11 410.5 | ^~~ +#11 410.5 rice.c:2449:14: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2449 | msb1 += *s >> 2; +#11 410.5 | ^~ +#11 410.5 rice.c:2449:17: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2449 | msb1 += *s >> 2; +#11 410.5 | ^ +#11 410.5 rice.c:2450:14: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2450 | msb2 += *s >> 3; +#11 410.5 | ^~ +#11 410.5 rice.c:2450:17: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2450 | msb2 += *s >> 3; +#11 410.5 | ^ +#11 410.5 rice.c:2467:18: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2467 | msb1 += *s; +#11 410.5 | ^~ +#11 410.5 rice.c:2467:21: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2467 | msb1 += *s; +#11 410.5 | ^ +#11 410.5 rice.c:2468:18: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2468 | msb2 += *s >> 1; +#11 410.5 | ^~ +#11 410.5 rice.c:2468:21: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2468 | msb2 += *s >> 1; +#11 410.5 | ^ +#11 410.5 rice.c:2508:18: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2508 | msb1 += *s >> 4; +#11 410.5 | ^~ +#11 410.5 rice.c:2508:21: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2508 | msb1 += *s >> 4; +#11 410.5 | ^ +#11 410.5 rice.c:2509:18: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2509 | msb2 += *s >> 5; +#11 410.5 | ^~ +#11 410.5 rice.c:2509:21: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2509 | msb2 += *s >> 5; +#11 410.5 | ^ +#11 410.5 rice.c:2533:18: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2533 | msb1 += *s >> 6; +#11 410.5 | ^~ +#11 410.5 rice.c:2533:21: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2533 | msb1 += *s >> 6; +#11 410.5 | ^ +#11 410.5 rice.c:2534:18: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2534 | msb2 += *s >> 7; +#11 410.5 | ^~ +#11 410.5 rice.c:2534:21: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2534 | msb2 += *s >> 7; +#11 410.5 | ^ +#11 410.5 rice.c:2554:22: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2554 | msb1 += *s >> 8; +#11 410.5 | ^~ +#11 410.5 rice.c:2554:25: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2554 | msb1 += *s >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:2555:22: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2555 | msb2 += *s >> 9; +#11 410.5 | ^~ +#11 410.5 rice.c:2555:25: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2555 | msb2 += *s >> 9; +#11 410.5 | ^ +#11 410.5 rice.c:2575:26: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2575 | msb1 += *s >> 10; +#11 410.5 | ^~ +#11 410.5 rice.c:2575:29: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2575 | msb1 += *s >> 10; +#11 410.5 | ^ +#11 410.5 rice.c:2576:26: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2576 | msb2 += *s >> 11; +#11 410.5 | ^~ +#11 410.5 rice.c:2576:29: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2576 | msb2 += *s >> 11; +#11 410.5 | ^ +#11 410.5 rice.c:2594:30: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2594 | msb1 += *s >>12; +#11 410.5 | ^~ +#11 410.5 rice.c:2594:33: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2594 | msb1 += *s >>12; +#11 410.5 | ^ +#11 410.5 rice.c:2611:26: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2611 | msb1 += *s >> i; +#11 410.5 | ^~ +#11 410.5 rice.c:2611:29: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 2611 | msb1 += *s >> i; +#11 410.5 | ^ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:2822:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 2822 | check_args() +#11 410.5 | ^~~~~~~~~~ +#11 410.5 rice.c:2959:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 2959 | encode_initialize() +#11 410.5 | ^~~~~~~~~~~~~~~~~ +#11 410.5 rice.c: In function 'encode_initialize': +#11 410.5 rice.c:2998:32: warning: conversion from 'int' to 'unsigned char' may change value [-Wconversion] +#11 410.5 2998 | ext2_array[i][j] = (i+j)*(i+j+1)/2 + j + 1; +#11 410.5 | ^ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:3034:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 3034 | decode_initialize() +#11 410.5 | ^~~~~~~~~~~~~~~~~ +#11 410.5 rice.c: In function 'decode_initialize': +#11 410.5 rice.c:3084:34: warning: conversion from 'int' to 'unsigned char' may change value [-Wconversion] +#11 410.5 3084 | ext2_array1[index] = i; +#11 410.5 | ^ +#11 410.5 rice.c:3085:34: warning: conversion from 'int' to 'unsigned char' may change value [-Wconversion] +#11 410.5 3085 | ext2_array2[index] = j; +#11 410.5 | ^ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:3175:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 3175 | compress_memory_bytes(new_options_mask, new_bits_per_pixel, new_pixels_per_block, new_pixels_per_scanline, in, pixels, out) +#11 410.5 | ^~~~~~~~~~~~~~~~~~~~~ +#11 410.5 rice.c: In function 'compress_memory_bytes': +#11 410.5 rice.c:3209:23: warning: cast discards 'const' qualifier from pointer target type [-Wcast-qual] +#11 410.5 3209 | input_byte_data = (unsigned char *) in; +#11 410.5 | ^ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:3240:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 3240 | compress_memory_words(new_options_mask, new_bits_per_pixel, new_pixels_per_block, new_pixels_per_scanline, in, pixels, out) +#11 410.5 | ^~~~~~~~~~~~~~~~~~~~~ +#11 410.5 rice.c: In function 'compress_memory_words': +#11 410.5 rice.c:3274:23: warning: cast discards 'const' qualifier from pointer target type [-Wcast-qual] +#11 410.5 3274 | input_byte_data = (unsigned char *) in; +#11 410.5 | ^ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:3304:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 3304 | compress_memory_longs(new_options_mask, new_bits_per_pixel, new_pixels_per_block, new_pixels_per_scanline, in, pixels, out) +#11 410.5 | ^~~~~~~~~~~~~~~~~~~~~ +#11 410.5 rice.c: In function 'compress_memory_longs': +#11 410.5 rice.c:3338:23: warning: cast discards 'const' qualifier from pointer target type [-Wcast-qual] +#11 410.5 3338 | input_byte_data = (unsigned char *) in; +#11 410.5 | ^ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:3368:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 3368 | interleave(in, bytes, bits, out) +#11 410.5 | ^~~~~~~~~~ +#11 410.5 rice.c: In function 'interleave': +#11 410.5 rice.c:3382:13: warning: conversion from 'long int' to 'int' may change value [-Wconversion] +#11 410.5 3382 | words = bytes/word_size; +#11 410.5 | ^~~~~ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:3407:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 3407 | compress_memory_floats(new_options_mask, new_bits_per_pixel, new_pixels_per_block, new_pixels_per_scanline, in, pixels, out) +#11 410.5 | ^~~~~~~~~~~~~~~~~~~~~~ +#11 410.5 rice.c: In function 'compress_memory_floats': +#11 410.5 rice.c:3443:51: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 3443 | interleave_array = (unsigned char *) malloc(4 * pixels); +#11 410.5 | ~~^~~~~~~~ +#11 410.5 rice.c:3450:16: warning: cast discards 'const' qualifier from pointer target type [-Wcast-qual] +#11 410.5 3450 | interleave((char *) in, pixels*4, new_bits_per_pixel, (char *) interleave_array); +#11 410.5 | ^ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:3491:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 3491 | compress_memory_doubles(new_options_mask, new_bits_per_pixel, new_pixels_per_block, new_pixels_per_scanline, in, pixels, out) +#11 410.5 | ^~~~~~~~~~~~~~~~~~~~~~~ +#11 410.5 rice.c: In function 'compress_memory_doubles': +#11 410.5 rice.c:3527:51: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.5 3527 | interleave_array = (unsigned char *) malloc(8 * pixels); +#11 410.5 | ~~^~~~~~~~ +#11 410.5 rice.c:3534:16: warning: cast discards 'const' qualifier from pointer target type [-Wcast-qual] +#11 410.5 3534 | interleave((char *) in, pixels*8, new_bits_per_pixel, (char *) interleave_array); +#11 410.5 | ^ +#11 410.5 rice.c: In function 'szip_compress_memory': +#11 410.5 rice.c:3582:5: warning: declaration of 'bits_per_pixel' shadows a global declaration [-Wshadow] +#11 410.5 3582 | int bits_per_pixel; +#11 410.5 | ^~~~~~~~~~~~~~ +#11 410.5 rice.c:126:12: note: shadowed declaration is here +#11 410.5 126 | static int bits_per_pixel; +#11 410.5 | ^~~~~~~~~~~~~~ +#11 410.5 rice.c:3583:5: warning: declaration of 'pixels_per_block' shadows a global declaration [-Wshadow] +#11 410.5 3583 | int pixels_per_block; +#11 410.5 | ^~~~~~~~~~~~~~~~ +#11 410.5 rice.c:131:12: note: shadowed declaration is here +#11 410.5 131 | static int pixels_per_block; +#11 410.5 | ^~~~~~~~~~~~~~~~ +#11 410.5 rice.c:3584:5: warning: declaration of 'pixels_per_scanline' shadows a global declaration [-Wshadow] +#11 410.5 3584 | int pixels_per_scanline; +#11 410.5 | ^~~~~~~~~~~~~~~~~~~ +#11 410.5 rice.c:132:12: note: shadowed declaration is here +#11 410.5 132 | static int pixels_per_scanline; +#11 410.5 | ^~~~~~~~~~~~~~~~~~~ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:3776:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 3776 | deinterleave(in, bytes, bits, out) +#11 410.5 | ^~~~~~~~~~~~ +#11 410.5 rice.c: In function 'deinterleave': +#11 410.5 rice.c:3790:13: warning: conversion from 'long int' to 'int' may change value [-Wconversion] +#11 410.5 3790 | words = bytes/word_size; +#11 410.5 | ^~~~~ +#11 410.5 rice.c: At top level: +#11 410.5 rice.c:3804:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.5 3804 | unmap_nn(sigma, pixels) +#11 410.5 | ^~~~~~~~ +#11 410.5 rice.c: In function 'unmap_nn': +#11 410.5 rice.c:3822:17: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 3822 | x = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:3823:23: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 3823 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:3827:24: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 3827 | sig1 = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:3837:27: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 3837 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:3846:21: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 3846 | x = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:3847:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 3847 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:3848:27: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 3848 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:3852:28: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 3852 | sig1 = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:3862:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 3862 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:3863:31: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 3863 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:3870:21: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 3870 | x = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:3871:27: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 3871 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:3872:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 3872 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:3876:28: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 3876 | sig1 = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:3886:31: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 3886 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:3887:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 3887 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:3897:21: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 3897 | x = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:3898:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 3898 | *xptr++ = (unsigned) x >> 24; +#11 410.5 | ^ +#11 410.5 rice.c:3899:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 3899 | *xptr++ = (unsigned) x >> 16; +#11 410.5 | ^ +#11 410.5 rice.c:3900:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 3900 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:3901:27: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 3901 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:3905:28: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 3905 | sig1 = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:3915:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 3915 | *xptr++ = (unsigned) x >> 24; +#11 410.5 | ^ +#11 410.5 rice.c:3916:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 3916 | *xptr++ = (unsigned) x >> 16; +#11 410.5 | ^ +#11 410.5 rice.c:3917:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 3917 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:3918:31: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 3918 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:3925:21: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 3925 | x = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:3926:27: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 3926 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:3927:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 3927 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:3928:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 3928 | *xptr++ = (unsigned) x >> 16; +#11 410.5 | ^ +#11 410.5 rice.c:3929:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 3929 | *xptr++ = (unsigned) x >> 24; +#11 410.5 | ^ +#11 410.5 rice.c:3933:28: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 3933 | sig1 = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:3943:31: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 3943 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:3944:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 3944 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:3945:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 3945 | *xptr++ = (unsigned) x >> 16; +#11 410.5 | ^ +#11 410.5 rice.c:3946:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 3946 | *xptr++ = (unsigned) x >> 24; +#11 410.5 | ^ +#11 410.5 rice.c:3957:17: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 3957 | x = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:3958:23: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 3958 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:3960:20: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 3960 | sig1 = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:3970:23: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 3970 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:3974:24: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 3974 | sig1 = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:3975:24: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 3975 | sig2 = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:3985:27: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 3985 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:3996:27: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 3996 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:4005:21: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 4005 | x = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:4006:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 4006 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:4007:27: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 4007 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:4009:24: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 4009 | sig1 = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:4019:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 4019 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:4020:27: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 4020 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:4024:28: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 4024 | sig1 = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:4025:28: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 4025 | sig2 = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:4035:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 4035 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:4036:31: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 4036 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:4047:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 4047 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:4048:31: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 4048 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:4055:21: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 4055 | x = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:4056:27: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 4056 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:4057:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 4057 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:4059:24: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 4059 | sig1 = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:4069:27: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 4069 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:4070:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 4070 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:4074:28: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 4074 | sig1 = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:4075:28: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 4075 | sig2 = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:4085:31: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 4085 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:4086:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 4086 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:4097:31: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 4097 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:4098:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 4098 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:4108:21: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 4108 | x = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:4109:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 4109 | *xptr++ = (unsigned) x >> 24; +#11 410.5 | ^ +#11 410.5 rice.c:4110:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 4110 | *xptr++ = (unsigned) x >> 16; +#11 410.5 | ^ +#11 410.5 rice.c:4111:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 4111 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.5 rice.c:4112:27: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.5 4112 | *xptr++ = x; +#11 410.5 | ^ +#11 410.5 rice.c:4114:24: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.5 4114 | sig1 = *s++; +#11 410.5 | ^ +#11 410.5 rice.c:4124:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 4124 | *xptr++ = (unsigned) x >> 24; +#11 410.5 | ^ +#11 410.5 rice.c:4125:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 4125 | *xptr++ = (unsigned) x >> 16; +#11 410.5 | ^ +#11 410.5 rice.c:4126:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.5 4126 | *xptr++ = (unsigned) x >> 8; +#11 410.5 | ^ +#11 410.6 rice.c:4127:27: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.6 4127 | *xptr++ = x; +#11 410.6 | ^ +#11 410.6 rice.c:4131:28: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4131 | sig1 = *s++; +#11 410.6 | ^ +#11 410.6 rice.c:4132:28: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4132 | sig2 = *s++; +#11 410.6 | ^ +#11 410.6 rice.c:4142:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4142 | *xptr++ = (unsigned) x >> 24; +#11 410.6 | ^ +#11 410.6 rice.c:4143:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4143 | *xptr++ = (unsigned) x >> 16; +#11 410.6 | ^ +#11 410.6 rice.c:4144:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4144 | *xptr++ = (unsigned) x >> 8; +#11 410.6 | ^ +#11 410.6 rice.c:4145:31: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.6 4145 | *xptr++ = x; +#11 410.6 | ^ +#11 410.6 rice.c:4156:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4156 | *xptr++ = (unsigned) x >> 24; +#11 410.6 | ^ +#11 410.6 rice.c:4157:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4157 | *xptr++ = (unsigned) x >> 16; +#11 410.6 | ^ +#11 410.6 rice.c:4158:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4158 | *xptr++ = (unsigned) x >> 8; +#11 410.6 | ^ +#11 410.6 rice.c:4159:31: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.6 4159 | *xptr++ = x; +#11 410.6 | ^ +#11 410.6 rice.c:4166:21: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4166 | x = *s++; +#11 410.6 | ^ +#11 410.6 rice.c:4167:27: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.6 4167 | *xptr++ = x; +#11 410.6 | ^ +#11 410.6 rice.c:4168:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4168 | *xptr++ = (unsigned) x >> 8; +#11 410.6 | ^ +#11 410.6 rice.c:4169:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4169 | *xptr++ = (unsigned) x >> 16; +#11 410.6 | ^ +#11 410.6 rice.c:4170:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4170 | *xptr++ = (unsigned) x >> 24; +#11 410.6 | ^ +#11 410.6 rice.c:4172:24: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4172 | sig1 = *s++; +#11 410.6 | ^ +#11 410.6 rice.c:4182:27: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.6 4182 | *xptr++ = x; +#11 410.6 | ^ +#11 410.6 rice.c:4183:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4183 | *xptr++ = (unsigned) x >> 8; +#11 410.6 | ^ +#11 410.6 rice.c:4184:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4184 | *xptr++ = (unsigned) x >> 16; +#11 410.6 | ^ +#11 410.6 rice.c:4185:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4185 | *xptr++ = (unsigned) x >> 24; +#11 410.6 | ^ +#11 410.6 rice.c:4189:28: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4189 | sig1 = *s++; +#11 410.6 | ^ +#11 410.6 rice.c:4190:28: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4190 | sig2 = *s++; +#11 410.6 | ^ +#11 410.6 rice.c:4200:31: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.6 4200 | *xptr++ = x; +#11 410.6 | ^ +#11 410.6 rice.c:4201:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4201 | *xptr++ = (unsigned) x >> 8; +#11 410.6 | ^ +#11 410.6 rice.c:4202:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4202 | *xptr++ = (unsigned) x >> 16; +#11 410.6 | ^ +#11 410.6 rice.c:4203:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4203 | *xptr++ = (unsigned) x >> 24; +#11 410.6 | ^ +#11 410.6 rice.c:4214:31: warning: conversion from 'int' to 'char' may change value [-Wconversion] +#11 410.6 4214 | *xptr++ = x; +#11 410.6 | ^ +#11 410.6 rice.c:4215:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4215 | *xptr++ = (unsigned) x >> 8; +#11 410.6 | ^ +#11 410.6 rice.c:4216:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4216 | *xptr++ = (unsigned) x >> 16; +#11 410.6 | ^ +#11 410.6 rice.c:4217:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4217 | *xptr++ = (unsigned) x >> 24; +#11 410.6 | ^ +#11 410.6 rice.c: At top level: +#11 410.6 rice.c:4227:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.6 4227 | output_decoded_data(sigma) +#11 410.6 | ^~~~~~~~~~~~~~~~~~~ +#11 410.6 rice.c: In function 'output_decoded_data': +#11 410.6 rice.c:4233:14: warning: conversion from 'long int' to 'int' may change value [-Wconversion] +#11 410.6 4233 | pixels = (output_pixel_count < pixels_per_scanline) ? output_pixel_count : pixels_per_scanline; +#11 410.6 | ^ +#11 410.6 rice.c:4245:27: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4245 | *bptr++ = sigma[i]; +#11 410.6 | ^~~~~ +#11 410.6 rice.c:4251:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4251 | *bptr++ = sigma[i] >> 8; +#11 410.6 | ^~~~~ +#11 410.6 rice.c:4252:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4252 | *bptr++ = sigma[i]; +#11 410.6 | ^~~~~ +#11 410.6 rice.c:4257:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4257 | *bptr++ = sigma[i]; +#11 410.6 | ^~~~~ +#11 410.6 rice.c:4258:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4258 | *bptr++ = sigma[i] >> 8; +#11 410.6 | ^~~~~ +#11 410.6 rice.c:4266:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4266 | *bptr++ = sigma[i] >> 24; +#11 410.6 | ^~~~~ +#11 410.6 rice.c:4267:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4267 | *bptr++ = sigma[i] >> 16; +#11 410.6 | ^~~~~ +#11 410.6 rice.c:4268:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4268 | *bptr++ = sigma[i] >> 8; +#11 410.6 | ^~~~~ +#11 410.6 rice.c:4269:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4269 | *bptr++ = sigma[i]; +#11 410.6 | ^~~~~ +#11 410.6 rice.c:4274:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4274 | *bptr++ = sigma[i]; +#11 410.6 | ^~~~~ +#11 410.6 rice.c:4275:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4275 | *bptr++ = sigma[i] >> 8; +#11 410.6 | ^~~~~ +#11 410.6 rice.c:4276:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4276 | *bptr++ = sigma[i] >> 16; +#11 410.6 | ^~~~~ +#11 410.6 rice.c:4277:31: warning: conversion from 'unsigned int' to 'char' may change value [-Wconversion] +#11 410.6 4277 | *bptr++ = sigma[i] >> 24; +#11 410.6 | ^~~~~ +#11 410.6 rice.c: At top level: +#11 410.6 rice.c:4310:1: warning: function declaration isn't a prototype [-Wstrict-prototypes] +#11 410.6 4310 | rice_decode() +#11 410.6 | ^~~~~~~~~~~ +#11 410.6 rice.c: In function 'rice_decode': +#11 410.6 rice.c:4349:21: warning: conversion from 'long int' to 'int' may change value [-Wconversion] +#11 410.6 4349 | n = input_byte_count >= INPUT_BUFFER_SIZE ? INPUT_BUFFER_SIZE : input_byte_count; +#11 410.6 | ^~~~~~~~~~~~~~~~ +#11 410.6 rice.c:4351:54: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4351 | memcpy(byte_buffer, input_byte_data, n); +#11 410.6 | ^ +#11 410.6 rice.c:4363:25: warning: conversion from 'long int' to 'int' may change value [-Wconversion] +#11 410.6 4363 | count = input_end - input_ptr; +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4364:54: warning: conversion to 'long unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4364 | memcpy(input_buffer, input_ptr, count*sizeof(short)); +#11 410.6 | ^ +#11 410.6 rice.c:4401:22: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4401 | id = data_word >> 29; +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4407:22: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4407 | id = data_word >> 28; +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4413:22: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4413 | id = data_word >> 27; +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4420:28: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4420 | ext2_bit = data_word & 0x80000000; +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4474:36: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4474 | bits = data_word >> shift; +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4483:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4483 | *s++ = bits; +#11 410.6 | ^~~~ +#11 410.6 rice.c:4490:36: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4490 | bits = data_word >> 16; +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4497:34: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4497 | bits |= data_word >> (32 - extra); +#11 410.6 | ^~ +#11 410.6 rice.c:4497:37: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4497 | bits |= data_word >> (32 - extra); +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4506:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4506 | *s++ = bits; +#11 410.6 | ^~~~ +#11 410.6 rice.c:4542:32: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4542 | *s++ = zero_count + big_zero_count; +#11 410.6 | ^~~~~~~~~~ +#11 410.6 rice.c:4552:36: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4552 | bits = data_word >> shift; +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4561:49: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4561 | *s = (*s << k_bits) | bits; +#11 410.6 | ^ +#11 410.6 rice.c:4569:36: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4569 | bits = data_word >> 16; +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4576:34: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4576 | bits |= data_word >> (32 - extra); +#11 410.6 | ^~ +#11 410.6 rice.c:4576:37: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4576 | bits |= data_word >> (32 - extra); +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4586:49: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4586 | *s = (*s << k_bits) | bits; +#11 410.6 | ^ +#11 410.6 rice.c:4621:28: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4621 | *s++ = zero_count + big_zero_count; +#11 410.6 | ^~~~~~~~~~ +#11 410.6 rice.c:4666:32: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4666 | *t++ = zero_count + big_zero_count; +#11 410.6 | ^~~~~~~~~~ +#11 410.6 rice.c:4670:25: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4670 | m = *t++; +#11 410.6 | ^ +#11 410.6 rice.c:4677:29: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4677 | m = *t++; +#11 410.6 | ^ +#11 410.6 rice.c:4730:41: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4730 | memset(s, 0, (end-s)*sizeof(int)); +#11 410.6 | ^ +#11 410.6 rice.c:4747:22: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4747 | id = data_word >> 29; +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4753:22: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4753 | id = data_word >> 28; +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4759:22: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4759 | id = data_word >> 27; +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4766:28: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4766 | ext2_bit = data_word & 0x80000000; +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4792:36: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4792 | bits = data_word >> shift; +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4801:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4801 | *s++ = bits; +#11 410.6 | ^~~~ +#11 410.6 rice.c:4808:36: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4808 | bits = data_word >> 16; +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4815:34: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4815 | bits |= data_word >> (32 - extra); +#11 410.6 | ^~ +#11 410.6 rice.c:4815:37: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4815 | bits |= data_word >> (32 - extra); +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c:4824:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4824 | *s++ = bits; +#11 410.6 | ^~~~ +#11 410.6 rice.c:4941:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4941 | *s++ = zero_count + big_zero_count; +#11 410.6 | ^~~~~~~~~~ +#11 410.6 rice.c:4965:36: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 4965 | *s++ = zero_count + big_zero_count; +#11 410.6 | ^~~~~~~~~~ +#11 410.6 rice.c:4977:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 4977 | *(s+1) = (*(s+1) << 1) | (data_word >> 30) & 1; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:4978:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 4978 | *(s+2) = (*(s+2) << 1) | (data_word >> 29) & 1; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:4979:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 4979 | *(s+3) = (*(s+3) << 1) | (data_word >> 28) & 1; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:4980:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 4980 | *(s+4) = (*(s+4) << 1) | (data_word >> 27) & 1; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:4981:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 4981 | *(s+5) = (*(s+5) << 1) | (data_word >> 26) & 1; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:4982:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 4982 | *(s+6) = (*(s+6) << 1) | (data_word >> 25) & 1; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:4983:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 4983 | *(s+7) = (*(s+7) << 1) | (data_word >> 24) & 1; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:4998:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 4998 | *(s+0) = (*(s+0) << 2) | (data_word >> 30) & 3; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:4999:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 4999 | *(s+1) = (*(s+1) << 2) | (data_word >> 28) & 3; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:5000:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5000 | *(s+2) = (*(s+2) << 2) | (data_word >> 26) & 3; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:5001:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5001 | *(s+3) = (*(s+3) << 2) | (data_word >> 24) & 3; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:5002:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5002 | *(s+4) = (*(s+4) << 2) | (data_word >> 22) & 3; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:5003:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5003 | *(s+5) = (*(s+5) << 2) | (data_word >> 20) & 3; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:5004:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5004 | *(s+6) = (*(s+6) << 2) | (data_word >> 18) & 3; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:5005:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5005 | *(s+7) = (*(s+7) << 2) | (data_word >> 16) & 3; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:5017:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5017 | *(s+0) = (*(s+0) << 3) | (data_word >> 29) & 7; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:5018:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5018 | *(s+1) = (*(s+1) << 3) | (data_word >> 26) & 7; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:5019:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5019 | *(s+2) = (*(s+2) << 3) | (data_word >> 23) & 7; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:5020:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5020 | *(s+3) = (*(s+3) << 3) | (data_word >> 20) & 7; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:5021:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5021 | *(s+4) = (*(s+4) << 3) | (data_word >> 17) & 7; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:5031:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5031 | *(s+0) = (*(s+0) << 3) | (data_word >> 29) & 7; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:5032:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5032 | *(s+1) = (*(s+1) << 3) | (data_word >> 26) & 7; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:5033:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5033 | *(s+2) = (*(s+2) << 3) | (data_word >> 23) & 7; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~ +#11 410.6 rice.c:5048:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5048 | *(s+0) = (*(s+0) << 4) | (data_word >> 28) & 0xf; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~ +#11 410.6 rice.c:5049:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5049 | *(s+1) = (*(s+1) << 4) | (data_word >> 24) & 0xf; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~ +#11 410.6 rice.c:5050:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5050 | *(s+2) = (*(s+2) << 4) | (data_word >> 20) & 0xf; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~ +#11 410.6 rice.c:5051:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5051 | *(s+3) = (*(s+3) << 4) | (data_word >> 16) & 0xf; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~ +#11 410.6 rice.c:5058:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5058 | *(s+0) = (*(s+0) << 4) | (data_word >> 28) & 0xf; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~ +#11 410.6 rice.c:5059:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5059 | *(s+1) = (*(s+1) << 4) | (data_word >> 24) & 0xf; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~ +#11 410.6 rice.c:5060:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5060 | *(s+2) = (*(s+2) << 4) | (data_word >> 20) & 0xf; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~ +#11 410.6 rice.c:5061:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5061 | *(s+3) = (*(s+3) << 4) | (data_word >> 16) & 0xf; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~ +#11 410.6 rice.c:5073:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5073 | *(s+0) = (*(s+0) << 5) | (data_word >> 27) & 0x1f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5074:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5074 | *(s+1) = (*(s+1) << 5) | (data_word >> 22) & 0x1f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5075:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5075 | *(s+2) = (*(s+2) << 5) | (data_word >> 17) & 0x1f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5085:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5085 | *(s+0) = (*(s+0) << 5) | (data_word >> 27) & 0x1f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5086:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5086 | *(s+1) = (*(s+1) << 5) | (data_word >> 22) & 0x1f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5087:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5087 | *(s+2) = (*(s+2) << 5) | (data_word >> 17) & 0x1f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5097:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5097 | *(s+0) = (*(s+0) << 5) | (data_word >> 27) & 0x1f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5098:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5098 | *(s+1) = (*(s+1) << 5) | (data_word >> 22) & 0x1f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5113:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5113 | *(s+0) = (*(s+0) << 6) | (data_word >> 26) & 0x3f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5114:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5114 | *(s+1) = (*(s+1) << 6) | (data_word >> 20) & 0x3f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5124:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5124 | *(s+0) = (*(s+0) << 6) | (data_word >> 26) & 0x3f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5125:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5125 | *(s+1) = (*(s+1) << 6) | (data_word >> 20) & 0x3f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5135:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5135 | *(s+0) = (*(s+0) << 6) | (data_word >> 26) & 0x3f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5136:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5136 | *(s+1) = (*(s+1) << 6) | (data_word >> 20) & 0x3f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5146:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5146 | *(s+0) = (*(s+0) << 6) | (data_word >> 26) & 0x3f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5147:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5147 | *(s+1) = (*(s+1) << 6) | (data_word >> 20) & 0x3f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5162:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5162 | *(s+0) = (*(s+0) << 7) | (data_word >> 25) & 0x7f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5163:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5163 | *(s+1) = (*(s+1) << 7) | (data_word >> 18) & 0x7f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5173:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5173 | *(s+0) = (*(s+0) << 7) | (data_word >> 25) & 0x7f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5174:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5174 | *(s+1) = (*(s+1) << 7) | (data_word >> 18) & 0x7f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5184:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5184 | *(s+0) = (*(s+0) << 7) | (data_word >> 25) & 0x7f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5185:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5185 | *(s+1) = (*(s+1) << 7) | (data_word >> 18) & 0x7f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5195:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5195 | *(s+0) = (*(s+0) << 7) | (data_word >> 25) & 0x7f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5196:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5196 | *(s+1) = (*(s+1) << 7) | (data_word >> 18) & 0x7f; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5211:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5211 | *(s+0) = (*(s+0) << 8) | (data_word >> 24) & 0xff; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5212:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5212 | *(s+1) = (*(s+1) << 8) | (data_word >> 16) & 0xff; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5219:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5219 | *(s+0) = (*(s+0) << 8) | (data_word >> 24) & 0xff; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5220:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5220 | *(s+1) = (*(s+1) << 8) | (data_word >> 16) & 0xff; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5227:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5227 | *(s+0) = (*(s+0) << 8) | (data_word >> 24) & 0xff; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5228:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5228 | *(s+1) = (*(s+1) << 8) | (data_word >> 16) & 0xff; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5235:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5235 | *(s+0) = (*(s+0) << 8) | (data_word >> 24) & 0xff; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5236:80: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses] +#11 410.6 5236 | *(s+1) = (*(s+1) << 8) | (data_word >> 16) & 0xff; +#11 410.6 | ~~~~~~~~~~~~~~~~~~^~~~~~ +#11 410.6 rice.c:5353:28: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 5353 | *s++ = zero_count + big_zero_count; +#11 410.6 | ^~~~~~~~~~ +#11 410.6 rice.c:5398:32: warning: conversion to 'unsigned int' from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.6 5398 | *t++ = zero_count + big_zero_count; +#11 410.6 | ^~~~~~~~~~ +#11 410.6 rice.c:5404:29: warning: conversion to 'int' from 'unsigned int' may change the sign of the result [-Wsign-conversion] +#11 410.6 5404 | m = *t++; +#11 410.6 | ^ +#11 410.6 rice.c:5464:41: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.6 5464 | memset(s, 0, (end-s)*sizeof(int)); +#11 410.6 | ^ +#11 410.6 rice.c: In function 'szip_uncompress_memory': +#11 410.6 rice.c:5518:23: warning: cast discards 'const' qualifier from pointer target type [-Wcast-qual] +#11 410.6 5518 | input_byte_data = (unsigned char *) in; +#11 410.6 | ^ +#11 410.6 rice.c:5530:44: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.6 5530 | interleave_array = (char *) malloc(out_bytes); +#11 410.6 | ^~~~~~~~~ +#11 410.6 rice.c: In function 'szip_check_params': +#11 410.6 rice.c:5800:5: warning: declaration of 'bits_per_pixel' shadows a global declaration [-Wshadow] +#11 410.6 5800 | int bits_per_pixel; +#11 410.6 | ^~~~~~~~~~~~~~ +#11 410.6 rice.c:126:12: note: shadowed declaration is here +#11 410.6 126 | static int bits_per_pixel; +#11 410.6 | ^~~~~~~~~~~~~~ +#11 410.6 rice.c:5801:5: warning: declaration of 'pixels_per_block' shadows a global declaration [-Wshadow] +#11 410.6 5801 | int pixels_per_block; +#11 410.6 | ^~~~~~~~~~~~~~~~ +#11 410.6 rice.c:131:12: note: shadowed declaration is here +#11 410.6 131 | static int pixels_per_block; +#11 410.6 | ^~~~~~~~~~~~~~~~ +#11 410.6 rice.c:5802:5: warning: declaration of 'pixels_per_scanline' shadows a global declaration [-Wshadow] +#11 410.6 5802 | int pixels_per_scanline; +#11 410.6 | ^~~~~~~~~~~~~~~~~~~ +#11 410.6 rice.c:132:12: note: shadowed declaration is here +#11 410.6 132 | static int pixels_per_scanline; +#11 410.6 | ^~~~~~~~~~~~~~~~~~~ +#11 410.6 rice.c:5812:14: warning: assignment discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] +#11 410.6 5812 | *msg = "bits per pixel must be in range 1..24,32,64"; +#11 410.6 | ^ +#11 410.6 rice.c:5818:14: warning: assignment discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] +#11 410.6 5818 | *msg = "maximum pixels per block exceeded"; +#11 410.6 | ^ +#11 410.6 rice.c:5824:14: warning: assignment discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] +#11 410.6 5824 | *msg = "pixels per block must be even"; +#11 410.6 | ^ +#11 410.6 rice.c:5830:14: warning: assignment discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] +#11 410.6 5830 | *msg = "pixels per block > pixels per scanline"; +#11 410.6 | ^ +#11 410.6 rice.c:5836:14: warning: assignment discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] +#11 410.6 5836 | *msg = "maximum pixels per scanline exceeded"; +#11 410.6 | ^ +#11 410.6 rice.c:5842:14: warning: assignment discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] +#11 410.6 5842 | *msg = "image pixels less than pixels per scanline"; +#11 410.6 | ^ +#11 410.8 rice.c: In function 'rice_decode': +#11 410.8 rice.c:5358:20: warning: 'ext2_bit' may be used uninitialized in this function [-Wmaybe-uninitialized] +#11 410.8 5358 | if (ext2_bit) +#11 410.8 | ^ +#11 410.9 mv -f .deps/rice.Tpo .deps/rice.Plo +#11 410.9 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-unused-variable -Wno-unused-parameter -Wno-cast-qual -Wno-pedantic -Wno-extra -Wno-format-overflow -Wno-format-truncation -Wno-stringop-overflow -Wno-overlength-strings -Wno-stringop-truncation -fpic -ansi -pedantic -Wall -W -Wundef -Wshadow -Wpointer-arith -Wbad-function-cast -Wcast-qual -Wcast-align -Wwrite-strings -Wconversion -Wsign-compare -Waggregate-return -Wstrict-prototypes -Wmissing-prototypes -Wmissing-declarations -Wredundant-decls -Wnested-externs -Winline -O -fomit-frame-pointer -finline-functions -MT sz_api.lo -MD -MP -MF .deps/sz_api.Tpo -c -o sz_api.lo sz_api.c +#11 410.9 libtool: compile: gcc -DHAVE_CONFIG_H -I. -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-unused-variable -Wno-unused-parameter -Wno-cast-qual -Wno-pedantic -Wno-extra -Wno-format-overflow -Wno-format-truncation -Wno-stringop-overflow -Wno-overlength-strings -Wno-stringop-truncation -fpic -ansi -pedantic -Wall -W -Wundef -Wshadow -Wpointer-arith -Wbad-function-cast -Wcast-qual -Wcast-align -Wwrite-strings -Wconversion -Wsign-compare -Waggregate-return -Wstrict-prototypes -Wmissing-prototypes -Wmissing-declarations -Wredundant-decls -Wnested-externs -Winline -O -fomit-frame-pointer -finline-functions -MT sz_api.lo -MD -MP -MF .deps/sz_api.Tpo -c sz_api.c -fPIC -DPIC -o sz_api.o +#11 410.9 sz_api.c:47:6: warning: redundant redeclaration of 'szip_compress_memory' [-Wredundant-decls] +#11 410.9 47 | long szip_compress_memory( +#11 410.9 | ^~~~~~~~~~~~~~~~~~~~ +#11 410.9 In file included from szlib.h:42, +#11 410.9 from sz_api.c:45: +#11 410.9 ricehdf.h:62:6: note: previous declaration of 'szip_compress_memory' with type 'long int(int, int, int, int, const void *, long int, char *)' +#11 410.9 62 | long szip_compress_memory( +#11 410.9 | ^~~~~~~~~~~~~~~~~~~~ +#11 410.9 sz_api.c:56:6: warning: redundant redeclaration of 'szip_uncompress_memory' [-Wredundant-decls] +#11 410.9 56 | long szip_uncompress_memory( +#11 410.9 | ^~~~~~~~~~~~~~~~~~~~~~ +#11 410.9 In file included from szlib.h:42, +#11 410.9 from sz_api.c:45: +#11 410.9 ricehdf.h:71:6: note: previous declaration of 'szip_uncompress_memory' with type 'long int(int, int, int, int, const char *, long int, void *, long int)' +#11 410.9 71 | long szip_uncompress_memory( +#11 410.9 | ^~~~~~~~~~~~~~~~~~~~~~ +#11 410.9 sz_api.c:66:5: warning: redundant redeclaration of 'szip_check_params' [-Wredundant-decls] +#11 410.9 66 | int szip_check_params( +#11 410.9 | ^~~~~~~~~~~~~~~~~ +#11 410.9 In file included from szlib.h:42, +#11 410.9 from sz_api.c:45: +#11 410.9 ricehdf.h:81:5: note: previous declaration of 'szip_check_params' with type 'int(int, int, int, long int, char **)' +#11 410.9 81 | int szip_check_params( +#11 410.9 | ^~~~~~~~~~~~~~~~~ +#11 410.9 sz_api.c: In function 'SZ_Compress': +#11 410.9 sz_api.c:124:44: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.9 124 | hidden->image_in = (char *) malloc(image_size); +#11 410.9 | ^~~~~~~~~~ +#11 410.9 sz_api.c:131:66: warning: conversion from 'long int' to 'double' may change value [-Wconversion] +#11 410.9 131 | image_size = (long)(strm->image_pixels * bytes_per_pixel * 1.75); +#11 410.9 | ^ +#11 410.9 sz_api.c:132:45: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.9 132 | hidden->image_out = (char *) malloc(image_size); +#11 410.9 | ^~~~~~~~~~ +#11 410.9 sz_api.c:141:48: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.9 141 | memcpy(hidden->next_in, strm->next_in, size_in); +#11 410.9 | ^~~~~~~ +#11 410.9 sz_api.c:146:27: warning: conversion from 'long int' to 'unsigned int' may change value [-Wconversion] +#11 410.9 146 | strm->avail_in -= size_in; +#11 410.9 | ^~~~~~~ +#11 410.9 sz_api.c:147:24: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.9 147 | strm->total_in += size_in; +#11 410.9 | ^~ +#11 410.9 sz_api.c:154:24: warning: conversion from 'long int' to 'int' may change value [-Wconversion] +#11 410.9 154 | return output_bytes; +#11 410.9 | ^~~~~~~~~~~~ +#11 410.9 sz_api.c:169:50: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.9 169 | memcpy(strm->next_out, hidden->next_out, size_out); +#11 410.9 | ^~~~~~~~ +#11 410.9 sz_api.c:174:28: warning: conversion from 'long int' to 'unsigned int' may change value [-Wconversion] +#11 410.9 174 | strm->avail_out -= size_out; +#11 410.9 | ^~~~~~~~ +#11 410.9 sz_api.c:175:25: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.9 175 | strm->total_out += size_out; +#11 410.9 | ^~ +#11 410.9 sz_api.c: In function 'SZ_Decompress': +#11 410.9 sz_api.c:270:66: warning: conversion from 'long int' to 'double' may change value [-Wconversion] +#11 410.9 270 | image_size = (long)(strm->image_pixels * bytes_per_pixel * 1.75); +#11 410.9 | ^ +#11 410.9 sz_api.c:271:44: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.9 271 | hidden->image_in = (char *) malloc(image_size); +#11 410.9 | ^~~~~~~~~~ +#11 410.9 sz_api.c:278:66: warning: conversion from 'long int' to 'double' may change value [-Wconversion] +#11 410.9 278 | image_size = (long)(strm->image_pixels * bytes_per_pixel * 1.0); +#11 410.9 | ^ +#11 410.9 sz_api.c:279:45: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.9 279 | hidden->image_out = (char *) malloc(image_size); +#11 410.9 | ^~~~~~~~~~ +#11 410.9 sz_api.c:288:48: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.9 288 | memcpy(hidden->next_in, strm->next_in, size_in); +#11 410.9 | ^~~~~~~ +#11 410.9 sz_api.c:293:27: warning: conversion from 'long int' to 'unsigned int' may change value [-Wconversion] +#11 410.9 293 | strm->avail_in -= size_in; +#11 410.9 | ^~~~~~~ +#11 410.9 sz_api.c:294:24: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.9 294 | strm->total_in += size_in; +#11 410.9 | ^~ +#11 410.9 sz_api.c:302:24: warning: conversion from 'long int' to 'int' may change value [-Wconversion] +#11 410.9 302 | return output_bytes; +#11 410.9 | ^~~~~~~~~~~~ +#11 410.9 sz_api.c:313:50: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.9 313 | memcpy(strm->next_out, hidden->next_out, size_out); +#11 410.9 | ^~~~~~~~ +#11 410.9 sz_api.c:318:28: warning: conversion from 'long int' to 'unsigned int' may change value [-Wconversion] +#11 410.9 318 | strm->avail_out -= size_out; +#11 410.9 | ^~~~~~~~ +#11 410.9 sz_api.c:319:25: warning: conversion to 'long unsigned int' from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.9 319 | strm->total_out += size_out; +#11 410.9 | ^~ +#11 410.9 sz_api.c: In function 'SZ_BufftoBuffCompress': +#11 410.9 sz_api.c:396:24: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.9 396 | pixels = (sourceLen+bytes_per_pixel-1)/bytes_per_pixel; +#11 410.9 | ^ +#11 410.9 sz_api.c:396:43: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.9 396 | pixels = (sourceLen+bytes_per_pixel-1)/bytes_per_pixel; +#11 410.9 | ^ +#11 410.9 sz_api.c:396:14: warning: conversion to 'long int' from 'size_t' {aka 'long unsigned int'} may change the sign of the result [-Wsign-conversion] +#11 410.9 396 | pixels = (sourceLen+bytes_per_pixel-1)/bytes_per_pixel; +#11 410.9 | ^ +#11 410.9 sz_api.c:397:33: warning: conversion from 'size_t' {aka 'long unsigned int'} to 'double' may change value [-Wconversion] +#11 410.9 397 | out_size = (long)(sourceLen * 2.00); +#11 410.9 | ^ +#11 410.9 sz_api.c:399:18: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'long int' [-Wsign-compare] +#11 410.9 399 | if (*destLen >= out_size) +#11 410.9 | ^~ +#11 410.9 sz_api.c:403:37: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.9 403 | image_out = (char *) malloc(out_size); +#11 410.9 | ^~~~~~~~ +#11 410.9 sz_api.c:414:16: warning: conversion from 'long int' to 'int' may change value [-Wconversion] +#11 410.9 414 | return output_bytes; +#11 410.9 | ^~~~~~~~~~~~ +#11 410.9 sz_api.c:418:18: warning: comparison of integer expressions of different signedness: 'size_t' {aka 'long unsigned int'} and 'long int' [-Wsign-compare] +#11 410.9 418 | if (*destLen >= output_bytes) +#11 410.9 | ^~ +#11 410.9 sz_api.c:419:20: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.9 419 | *destLen = output_bytes; +#11 410.9 | ^~~~~~~~~~~~ +#11 410.9 sz_api.c: In function 'SZ_BufftoBuffDecompress': +#11 410.9 sz_api.c:454:22: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'int' may change the sign of the result [-Wsign-conversion] +#11 410.9 454 | pixels = *destLen/bytes_per_pixel; +#11 410.9 | ^ +#11 410.9 sz_api.c:454:14: warning: conversion to 'long int' from 'size_t' {aka 'long unsigned int'} may change the sign of the result [-Wsign-conversion] +#11 410.9 454 | pixels = *destLen/bytes_per_pixel; +#11 410.9 | ^ +#11 410.9 sz_api.c:456:136: warning: conversion to 'long int' from 'size_t' {aka 'long unsigned int'} may change the sign of the result [-Wsign-conversion] +#11 410.9 456 | output_bytes = szip_uncompress_memory(sz->options_mask, sz->bits_per_pixel, sz->pixels_per_block, sz->pixels_per_scanline, source, sourceLen, dest, pixels); +#11 410.9 | ^~~~~~~~~ +#11 410.9 sz_api.c:458:16: warning: conversion from 'long int' to 'int' may change value [-Wconversion] +#11 410.9 458 | return output_bytes; +#11 410.9 | ^~~~~~~~~~~~ +#11 410.9 sz_api.c:464:20: warning: conversion to 'size_t' {aka 'long unsigned int'} from 'long int' may change the sign of the result [-Wsign-conversion] +#11 410.9 464 | *destLen = output_bytes; +#11 410.9 | ^~~~~~~~~~~~ +#11 410.9 mv -f .deps/sz_api.Tpo .deps/sz_api.Plo +#11 410.9 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-unused-variable -Wno-unused-parameter -Wno-cast-qual -Wno-pedantic -Wno-extra -Wno-format-overflow -Wno-format-truncation -Wno-stringop-overflow -Wno-overlength-strings -Wno-stringop-truncation -fpic -ansi -pedantic -Wall -W -Wundef -Wshadow -Wpointer-arith -Wbad-function-cast -Wcast-qual -Wcast-align -Wwrite-strings -Wconversion -Wsign-compare -Waggregate-return -Wstrict-prototypes -Wmissing-prototypes -Wmissing-declarations -Wredundant-decls -Wnested-externs -Winline -O -fomit-frame-pointer -finline-functions -MT encoding.lo -MD -MP -MF .deps/encoding.Tpo -c -o encoding.lo encoding.c +#11 411.0 libtool: compile: gcc -DHAVE_CONFIG_H -I. -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-unused-variable -Wno-unused-parameter -Wno-cast-qual -Wno-pedantic -Wno-extra -Wno-format-overflow -Wno-format-truncation -Wno-stringop-overflow -Wno-overlength-strings -Wno-stringop-truncation -fpic -ansi -pedantic -Wall -W -Wundef -Wshadow -Wpointer-arith -Wbad-function-cast -Wcast-qual -Wcast-align -Wwrite-strings -Wconversion -Wsign-compare -Waggregate-return -Wstrict-prototypes -Wmissing-prototypes -Wmissing-declarations -Wredundant-decls -Wnested-externs -Winline -O -fomit-frame-pointer -finline-functions -MT encoding.lo -MD -MP -MF .deps/encoding.Tpo -c encoding.c -fPIC -DPIC -o encoding.o +#11 411.0 encoding.c:16:30: warning: initialization discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] +#11 411.0 16 | char * szip_encoder_status = "SZIP ENCODER ENABLED"; +#11 411.0 | ^~~~~~~~~~~~~~~~~~~~~~ +#11 411.0 mv -f .deps/encoding.Tpo .deps/encoding.Plo +#11 411.0 /bin/bash ../libtool --tag=CC --mode=link gcc -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-unused-variable -Wno-unused-parameter -Wno-cast-qual -Wno-pedantic -Wno-extra -Wno-format-overflow -Wno-format-truncation -Wno-stringop-overflow -Wno-overlength-strings -Wno-stringop-truncation -fpic -ansi -pedantic -Wall -W -Wundef -Wshadow -Wpointer-arith -Wbad-function-cast -Wcast-qual -Wcast-align -Wwrite-strings -Wconversion -Wsign-compare -Waggregate-return -Wstrict-prototypes -Wmissing-prototypes -Wmissing-declarations -Wredundant-decls -Wnested-externs -Winline -O -fomit-frame-pointer -finline-functions -version-info 2:0:0 -o libsz.la -rpath /tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/szip/lib rice.lo sz_api.lo encoding.lo -lm +#11 411.0 libtool: link: ar cru .libs/libsz.a rice.o sz_api.o encoding.o +#11 411.0 ar: `u' modifier ignored since `D' is the default (see `U') +#11 411.0 libtool: link: ranlib .libs/libsz.a +#11 411.0 libtool: link: ( cd ".libs" && rm -f "libsz.la" && ln -s "../libsz.la" "libsz.la" ) +#11 411.0 make[2]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/src' +#11 411.0 make[1]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/src' +#11 411.0 make[1]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip' +#11 411.0 make[1]: Nothing to be done for 'all-am'. +#11 411.0 make[1]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip' +#11 411.0 Making install in src +#11 411.0 make[1]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/src' +#11 411.0 make[2]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/src' +#11 411.0 /usr/bin/mkdir -p '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/szip/lib' +#11 411.0 /bin/bash ../libtool --mode=install /usr/bin/install -c libsz.la '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/szip/lib' +#11 411.0 libtool: install: /usr/bin/install -c .libs/libsz.lai /tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/szip/lib/libsz.la +#11 411.0 libtool: install: /usr/bin/install -c .libs/libsz.a /tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/szip/lib/libsz.a +#11 411.0 libtool: install: chmod 644 /tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/szip/lib/libsz.a +#11 411.0 libtool: install: ranlib /tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/szip/lib/libsz.a +#11 411.1 libtool: finish: PATH="/opt/conda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/sbin" ldconfig -n /tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/szip/lib +#11 411.1 ---------------------------------------------------------------------- +#11 411.1 Libraries have been installed in: +#11 411.1 /tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/szip/lib +#11 411.1 +#11 411.1 If you ever happen to want to link against installed libraries +#11 411.1 in a given directory, LIBDIR, you must either use libtool, and +#11 411.1 specify the full pathname of the library, or use the '-LLIBDIR' +#11 411.1 flag during linking and do at least one of the following: +#11 411.1 - add LIBDIR to the 'LD_LIBRARY_PATH' environment variable +#11 411.1 during execution +#11 411.1 - add LIBDIR to the 'LD_RUN_PATH' environment variable +#11 411.1 during linking +#11 411.1 - use the '-Wl,-rpath -Wl,LIBDIR' linker flag +#11 411.1 - have your system administrator add LIBDIR to '/etc/ld.so.conf' +#11 411.1 +#11 411.1 See any operating system documentation about shared libraries for +#11 411.1 more information, such as the ld(1) and ld.so(8) manual pages. +#11 411.1 ---------------------------------------------------------------------- +#11 411.1 /usr/bin/mkdir -p '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/szip/include' +#11 411.1 /usr/bin/install -c -m 644 ricehdf.h szip_adpt.h szlib.h '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/szip/include' +#11 411.1 make[2]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/src' +#11 411.1 make[1]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/src' +#11 411.1 make[1]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip' +#11 411.1 make[2]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip' +#11 411.1 make[2]: Nothing to be done for 'install-exec-am'. +#11 411.1 make[2]: Nothing to be done for 'install-data-am'. +#11 411.1 make[2]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip' +#11 411.1 make[1]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip' +#11 411.1 building the hdf5 library... +#11 411.1 checking for a BSD-compatible install... /usr/bin/install -c +#11 411.1 checking whether build environment is sane... yes +#11 411.1 checking for a thread-safe mkdir -p... /usr/bin/mkdir -p +#11 411.1 checking for gawk... no +#11 411.1 checking for mawk... mawk +#11 411.1 checking whether make sets $(MAKE)... yes +#11 411.1 checking whether make supports nested variables... yes +#11 411.1 checking whether make supports nested variables... (cached) yes +#11 411.1 checking whether to enable maintainer-specific portions of Makefiles... no +#11 411.1 checking build system type... aarch64-unknown-linux-gnu +#11 411.1 checking host system type... aarch64-unknown-linux-gnu +#11 411.1 checking shell variables initial values... done +#11 411.1 checking if basename works... yes +#11 411.1 checking if xargs works... yes +#11 411.1 checking for cached host... none +#11 411.1 checking for config aarch64-unknown-linux-gnu... no +#11 411.1 checking for config aarch64-unknown-linux-gnu... no +#11 411.1 checking for config unknown-linux-gnu... no +#11 411.1 checking for config unknown-linux-gnu... no +#11 411.1 checking for config aarch64-linux-gnu... no +#11 411.1 checking for config aarch64-linux-gnu... no +#11 411.1 checking for config aarch64-unknown... no +#11 411.1 checking for config linux-gnu... found +#11 411.1 compiler 'gcc' is GNU gcc-11.4.0 +#11 411.1 compiler 'gfortran' is GNU gfortran-11.4.0 +#11 411.2 compiler 'g++ -std=gnu++14' is GNU g++-11.4.0 +#11 411.2 checking for config ./config/site-specific/host-buildkitsandbox... no +#11 411.2 checking for clang sanitizer checks... checking build mode... production +#11 411.2 checking for gcc... gcc +#11 411.2 checking whether the C compiler works... yes +#11 411.2 checking for C compiler default output file name... a.out +#11 411.2 checking for suffix of executables... +#11 411.3 checking whether we are cross compiling... no +#11 411.3 checking for suffix of object files... o +#11 411.3 checking whether we are using the GNU C compiler... yes +#11 411.3 checking whether gcc accepts -g... yes +#11 411.3 checking for gcc option to accept ISO C89... none needed +#11 411.3 checking whether gcc understands -c and -o together... yes +#11 411.3 checking for style of include used by make... GNU +#11 411.4 checking dependency style of gcc... gcc3 +#11 411.4 checking if unsupported combinations of configure options are allowed... no +#11 411.4 checking how to run the C preprocessor... gcc -E +#11 411.4 checking for grep that handles long lines and -e... /usr/bin/grep +#11 411.4 checking for egrep... /usr/bin/grep -E +#11 411.4 checking for ANSI C header files... yes +#11 411.5 checking for sys/types.h... yes +#11 411.5 checking for sys/stat.h... yes +#11 411.5 checking for stdlib.h... yes +#11 411.5 checking for string.h... yes +#11 411.5 checking for memory.h... yes +#11 411.5 checking for strings.h... yes +#11 411.5 checking for inttypes.h... yes +#11 411.6 checking for stdint.h... yes +#11 411.6 checking for unistd.h... yes +#11 411.6 checking for off_t... yes +#11 411.6 checking for size_t... yes +#11 411.7 checking for ssize_t... yes +#11 411.7 checking for ptrdiff_t... yes +#11 411.7 checking whether byte ordering is bigendian... no +#11 411.7 checking size of char... 1 +#11 411.8 checking size of short... 2 +#11 411.9 checking size of int... 4 +#11 411.9 checking size of unsigned... 4 +#11 412.0 checking size of long... 8 +#11 412.0 checking size of long long... 8 +#11 412.1 checking size of __int64... 0 +#11 412.1 checking size of float... 4 +#11 412.1 checking size of double... 8 +#11 412.2 checking size of long double... 16 +#11 412.2 checking size of __float128... 0 +#11 412.3 checking size of _Quad... 0 +#11 412.3 checking quadmath.h usability... no +#11 412.3 checking quadmath.h presence... no +#11 412.3 checking for quadmath.h... no +#11 412.3 checking maximum decimal precision for C... 36 +#11 412.4 checking if Fortran interface enabled... no +#11 412.4 checking whether we are using the GNU C++ compiler... yes +#11 412.4 checking whether g++ -std=gnu++14 accepts -g... yes +#11 412.4 checking dependency style of g++ -std=gnu++14... gcc3 +#11 412.4 checking how to run the C++ preprocessor... g++ -std=gnu++14 -E +#11 412.4 checking if c++ interface enabled... yes +#11 412.4 checking if g++ -std=gnu++14 needs old style header files in includes... no +#11 412.6 checking if g++ -std=gnu++14 can handle namespaces... yes +#11 412.6 checking if g++ -std=gnu++14 can handle static cast... yes +#11 412.7 checking if g++ -std=gnu++14 has offsetof extension... yes +#11 412.7 checking if the high-level library is enabled... yes +#11 412.7 checking whether make sets $(MAKE)... (cached) yes +#11 412.7 checking for tr... /usr/bin/tr +#11 412.7 checking if srcdir= and time commands work together... no +#11 412.7 checking if Java JNI interface enabled... no +#11 412.7 checking if building tests is disabled... checking if building tools is disabled... checking how to print strings... printf +#11 412.7 checking for a sed that does not truncate output... /bin/sed +#11 412.7 checking for fgrep... /usr/bin/grep -F +#11 412.7 checking for ld used by gcc... /usr/bin/ld +#11 412.7 checking if the linker (/usr/bin/ld) is GNU ld... yes +#11 412.7 checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B +#11 412.7 checking the name lister (/usr/bin/nm -B) interface... BSD nm +#11 412.7 checking whether ln -s works... yes +#11 412.7 checking the maximum length of command line arguments... 1572864 +#11 412.7 checking how to convert aarch64-unknown-linux-gnu file names to aarch64-unknown-linux-gnu format... func_convert_file_noop +#11 412.7 checking how to convert aarch64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop +#11 412.7 checking for /usr/bin/ld option to reload object files... -r +#11 412.7 checking for objdump... objdump +#11 412.7 checking how to recognize dependent libraries... pass_all +#11 412.7 checking for dlltool... no +#11 412.7 checking how to associate runtime and link libraries... printf %s\n +#11 412.7 checking for archiver @FILE support... @ +#11 412.8 checking for strip... strip +#11 412.8 checking for ranlib... ranlib +#11 412.8 checking command to parse /usr/bin/nm -B output from gcc object... ok +#11 412.8 checking for sysroot... no +#11 412.8 checking for a working dd... /usr/bin/dd +#11 412.8 checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1 +#11 412.8 checking for mt... no +#11 412.8 checking if : is a manifest tool... no +#11 412.8 checking for dlfcn.h... yes +#11 412.8 checking for objdir... .libs +#11 412.9 checking if gcc supports -fno-rtti -fno-exceptions... no +#11 412.9 checking for gcc option to produce PIC... -fPIC -DPIC +#11 412.9 checking if gcc PIC flag -fPIC -DPIC works... yes +#11 412.9 checking if gcc static flag -static works... yes +#11 413.0 checking if gcc supports -c -o file.o... yes +#11 413.0 checking if gcc supports -c -o file.o... (cached) yes +#11 413.0 checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes +#11 413.0 checking dynamic linker characteristics... GNU/Linux ld.so +#11 413.0 checking how to hardcode library paths into programs... immediate +#11 413.0 checking for shl_load... no +#11 413.1 checking for shl_load in -ldld... no +#11 413.1 checking for dlopen... yes +#11 413.1 checking whether a program can dlopen itself... yes +#11 413.2 checking whether a statically linked program can dlopen itself... no +#11 413.2 checking whether stripping libraries is possible... yes +#11 413.2 checking if libtool supports shared libraries... yes +#11 413.2 checking whether to build shared libraries... no +#11 413.2 checking whether to build static libraries... yes +#11 413.2 checking how to run the C++ preprocessor... g++ -std=gnu++14 -E +#11 413.3 checking for ld used by g++ -std=gnu++14... /usr/bin/ld +#11 413.3 checking if the linker (/usr/bin/ld) is GNU ld... yes +#11 413.3 checking whether the g++ -std=gnu++14 linker (/usr/bin/ld) supports shared libraries... yes +#11 413.3 checking for g++ -std=gnu++14 option to produce PIC... -fPIC -DPIC +#11 413.3 checking if g++ -std=gnu++14 PIC flag -fPIC -DPIC works... yes +#11 413.3 checking if g++ -std=gnu++14 static flag -static works... yes +#11 413.4 checking if g++ -std=gnu++14 supports -c -o file.o... yes +#11 413.4 checking if g++ -std=gnu++14 supports -c -o file.o... (cached) yes +#11 413.4 checking whether the g++ -std=gnu++14 linker (/usr/bin/ld) supports shared libraries... yes +#11 413.4 checking dynamic linker characteristics... (cached) GNU/Linux ld.so +#11 413.4 checking how to hardcode library paths into programs... immediate +#11 413.4 checking if we should install only statically linked executables... no +#11 413.4 checking if -Wl,-rpath should be used to link shared libs in nondefault directories... yes +#11 413.4 checking for ceil in -lm... yes +#11 413.5 checking for dlopen in -ldl... yes +#11 413.5 checking for ANSI C header files... (cached) yes +#11 413.5 checking whether time.h and sys/time.h may both be included... yes +#11 413.5 checking sys/resource.h usability... yes +#11 413.5 checking sys/resource.h presence... yes +#11 413.5 checking for sys/resource.h... yes +#11 413.5 checking sys/time.h usability... yes +#11 413.5 checking sys/time.h presence... yes +#11 413.5 checking for sys/time.h... yes +#11 413.6 checking for unistd.h... (cached) yes +#11 413.6 checking sys/ioctl.h usability... yes +#11 413.6 checking sys/ioctl.h presence... yes +#11 413.6 checking for sys/ioctl.h... yes +#11 413.6 checking for sys/stat.h... (cached) yes +#11 413.6 checking sys/socket.h usability... yes +#11 413.6 checking sys/socket.h presence... yes +#11 413.6 checking for sys/socket.h... yes +#11 413.6 checking for sys/types.h... (cached) yes +#11 413.6 checking sys/file.h usability... yes +#11 413.6 checking sys/file.h presence... yes +#11 413.6 checking for sys/file.h... yes +#11 413.6 checking stddef.h usability... yes +#11 413.6 checking stddef.h presence... yes +#11 413.6 checking for stddef.h... yes +#11 413.6 checking setjmp.h usability... yes +#11 413.6 checking setjmp.h presence... yes +#11 413.7 checking for setjmp.h... yes +#11 413.7 checking features.h usability... yes +#11 413.7 checking features.h presence... yes +#11 413.7 checking for features.h... yes +#11 413.7 checking dirent.h usability... yes +#11 413.7 checking dirent.h presence... yes +#11 413.7 checking for dirent.h... yes +#11 413.7 checking for stdint.h... (cached) yes +#11 413.7 checking stdbool.h usability... yes +#11 413.7 checking stdbool.h presence... yes +#11 413.7 checking for stdbool.h... yes +#11 413.7 checking netdb.h usability... yes +#11 413.7 checking netdb.h presence... yes +#11 413.7 checking for netdb.h... yes +#11 413.7 checking netinet/in.h usability... yes +#11 413.7 checking netinet/in.h presence... yes +#11 413.7 checking for netinet/in.h... yes +#11 413.8 checking arpa/inet.h usability... yes +#11 413.8 checking arpa/inet.h presence... yes +#11 413.8 checking for arpa/inet.h... yes +#11 413.8 checking io.h usability... no +#11 413.8 checking io.h presence... no +#11 413.8 checking for io.h... no +#11 413.8 checking winsock2.h usability... no +#11 413.8 checking winsock2.h presence... no +#11 413.8 checking for winsock2.h... no +#11 413.8 checking sys/timeb.h usability... yes +#11 413.8 checking sys/timeb.h presence... yes +#11 413.8 checking for sys/timeb.h... yes +#11 413.8 checking for _FILE_OFFSET_BITS value needed for large files... no +#11 413.9 checking size of int8_t... 1 +#11 413.9 checking size of uint8_t... 1 +#11 414.0 checking size of int_least8_t... 1 +#11 414.0 checking size of uint_least8_t... 1 +#11 414.1 checking size of int_fast8_t... 1 +#11 414.1 checking size of uint_fast8_t... 1 +#11 414.2 checking size of int16_t... 2 +#11 414.2 checking size of uint16_t... 2 +#11 414.3 checking size of int_least16_t... 2 +#11 414.3 checking size of uint_least16_t... 2 +#11 414.4 checking size of int_fast16_t... 8 +#11 414.5 checking size of uint_fast16_t... 8 +#11 414.5 checking size of int32_t... 4 +#11 414.5 checking size of uint32_t... 4 +#11 414.6 checking size of int_least32_t... 4 +#11 414.6 checking size of uint_least32_t... 4 +#11 414.7 checking size of int_fast32_t... 8 +#11 414.8 checking size of uint_fast32_t... 8 +#11 414.8 checking size of int64_t... 8 +#11 414.9 checking size of uint64_t... 8 +#11 415.0 checking size of int_least64_t... 8 +#11 415.0 checking size of uint_least64_t... 8 +#11 415.1 checking size of int_fast64_t... 8 +#11 415.1 checking size of uint_fast64_t... 8 +#11 415.2 checking size of size_t... 8 +#11 415.2 checking size of ssize_t... 8 +#11 415.3 checking size of ptrdiff_t... 8 +#11 415.4 checking size of off_t... 8 +#11 415.4 checking size of bool... 1 +#11 415.5 checking size of time_t... 8 +#11 415.5 checking if dev_t is scalar... yes +#11 415.5 checking for dmalloc library... suppressed +#11 415.5 checking zlib.h usability... yes +#11 415.6 checking zlib.h presence... yes +#11 415.6 checking for zlib.h... yes +#11 415.6 checking for compress2 in -lz... yes +#11 415.6 checking for compress2... yes +#11 415.7 checking for SZ_BufftoBuffCompress in -lsz... yes +#11 415.7 checking szlib.h usability... yes +#11 415.7 checking szlib.h presence... yes +#11 415.8 checking for szlib.h... yes +#11 415.8 checking for szlib encoder... yes +#11 415.8 checking for thread safe support... no +#11 415.8 checking whether CLOCK_MONOTONIC is declared... yes +#11 415.8 checking for tm_gmtoff in struct tm... yes +#11 415.8 checking for global timezone variable... yes +#11 415.9 checking for st_blocks in struct stat... no +#11 415.9 checking for _getvideoconfig... no +#11 416.0 checking for gettextinfo... no +#11 416.0 checking for GetConsoleScreenBufferInfo... no +#11 416.0 checking for getpwuid... yes +#11 416.1 checking for _scrsize... no +#11 416.1 checking for ioctl... yes +#11 416.2 checking for struct videoconfig... no +#11 416.2 checking for struct text_info... no +#11 416.2 checking for TIOCGWINSZ... yes +#11 416.2 checking for TIOCGETD... yes +#11 416.2 checking for library containing clock_gettime... none required +#11 416.3 checking for alarm... yes +#11 416.3 checking for clock_gettime... yes +#11 416.4 checking for difftime... yes +#11 416.4 checking for fcntl... yes +#11 416.5 checking for flock... yes +#11 416.5 checking for fork... yes +#11 416.5 checking for frexpf... yes +#11 416.6 checking for frexpl... yes +#11 416.7 checking for gethostname... yes +#11 416.7 checking for getrusage... yes +#11 416.8 checking for gettimeofday... yes +#11 416.8 checking for lstat... yes +#11 416.9 checking for rand_r... yes +#11 416.9 checking for random... yes +#11 416.9 checking for setsysinfo... no +#11 417.0 checking for signal... yes +#11 417.0 checking for longjmp... yes +#11 417.1 checking for setjmp... yes +#11 417.1 checking for siglongjmp... yes +#11 417.2 checking for sigsetjmp... no +#11 417.2 checking for sigprocmask... yes +#11 417.3 checking for snprintf... yes +#11 417.3 checking for srandom... yes +#11 417.4 checking for strdup... yes +#11 417.4 checking for symlink... yes +#11 417.4 checking for system... yes +#11 417.5 checking for strtoll... yes +#11 417.5 checking for strtoull... yes +#11 417.6 checking for tmpfile... yes +#11 417.6 checking for asprintf... yes +#11 417.7 checking for vasprintf... yes +#11 417.8 checking for vsnprintf... yes +#11 417.8 checking for waitpid... yes +#11 417.9 checking for roundf... yes +#11 417.9 checking for lroundf... yes +#11 418.0 checking for llroundf... yes +#11 418.0 checking for round... yes +#11 418.1 checking for lround... yes +#11 418.1 checking for llround... yes +#11 418.2 checking for an ANSI C-conforming const... yes +#11 418.2 checking if the compiler understands __inline__... yes +#11 418.2 checking if the compiler understands __inline... yes +#11 418.2 checking if the compiler understands inline... yes +#11 418.2 checking for __attribute__ extension... yes +#11 418.2 checking for __func__ extension... yes +#11 418.2 checking for __FUNCTION__ extension... yes +#11 418.2 checking for C99 designated initialization support... yes +#11 418.3 checking how to print long long... %ld and %lu +#11 418.3 checking enable debugging symbols... no +#11 418.3 checking enable asserts... no +#11 418.3 checking enable developer warnings... no +#11 418.3 checking profiling... no +#11 418.3 checking optimization level... high +#11 418.3 checking enable file locking... best-effort +#11 418.3 checking for internal debug output... none +#11 418.3 checking whether function stack tracking is enabled... no +#11 418.3 checking for API tracing... no +#11 418.3 checking whether a memory checking tool will be used... no +#11 418.3 checking whether internal memory allocation sanity checking is used... no +#11 418.3 checking for parallel support files... skipped +#11 418.3 checking whether O_DIRECT is declared... yes +#11 418.3 checking for posix_memalign... yes +#11 418.4 checking if the direct I/O virtual file driver (VFD) is enabled... no +#11 418.4 checking if the Mirror virtual file driver (VFD) is enabled... no +#11 418.4 checking curl/curl.h usability... yes +#11 418.4 checking curl/curl.h presence... yes +#11 418.4 checking for curl/curl.h... yes +#11 418.4 checking openssl/evp.h usability... yes +#11 418.4 checking openssl/evp.h presence... yes +#11 418.4 checking for openssl/evp.h... yes +#11 418.4 checking openssl/hmac.h usability... yes +#11 418.5 checking openssl/hmac.h presence... yes +#11 418.5 checking for openssl/hmac.h... yes +#11 418.5 checking openssl/sha.h usability... yes +#11 418.5 checking openssl/sha.h presence... yes +#11 418.5 checking for openssl/sha.h... yes +#11 418.5 checking for curl_global_init in -lcurl... yes +#11 418.5 checking for EVP_sha256 in -lcrypto... yes +#11 418.6 checking if the Read-Only S3 virtual file driver (VFD) is enabled... yes +#11 418.6 checking for libhdfs... suppressed +#11 418.6 checking for custom examples path definition... ${prefix}/share/hdf5_examples +#11 418.6 checking for custom plugin default path definition... /usr/local/hdf5/lib/plugin +#11 418.6 checking whether exception handling functions is checked during data conversions... yes +#11 418.6 checking whether data accuracy is guaranteed during data conversions... yes +#11 418.6 checking if the machine has window style path name... no +#11 418.6 checking if using special algorithm to convert long double to (unsigned) long values... no +#11 418.7 checking if using special algorithm to convert (unsigned) long to long double values... no +#11 418.7 checking if correctly converting long double to (unsigned) long long values... yes +#11 418.8 checking if correctly converting (unsigned) long long to long double values... yes +#11 418.9 checking if the system is IBM ppc64le and cannot correctly convert some long double values... no +#11 418.9 checking additional programs should be built... no +#11 418.9 checking if deprecated public symbols are available... yes +#11 418.9 checking which version of public symbols to use by default... v110 +#11 418.9 checking whether to perform strict file format checks... no +#11 418.9 checking for pread... yes +#11 419.0 checking for pwrite... yes +#11 419.0 checking whether to use pread/pwrite instead of read/write in certain VFDs... yes +#11 419.0 checking whether to have library information embedded in the executables... yes +#11 419.0 checking if alignment restrictions are strictly enforced... no +#11 419.1 configure: creating ./config.lt +#11 419.3 config.lt: creating libtool +#11 419.3 checking that generated files are newer than configure... done +#11 419.3 configure: creating ./config.status +#11 419.6 config.status: creating src/libhdf5.settings +#11 419.6 config.status: creating Makefile +#11 419.6 config.status: creating src/Makefile +#11 419.6 config.status: creating utils/Makefile +#11 419.6 config.status: creating utils/mirror_vfd/Makefile +#11 419.6 config.status: creating bin/h5cc +#11 419.6 config.status: creating bin/Makefile +#11 419.6 config.status: creating c++/Makefile +#11 419.6 config.status: creating c++/src/Makefile +#11 419.6 config.status: creating c++/src/h5c++ +#11 419.6 config.status: creating hl/Makefile +#11 419.7 config.status: creating hl/src/Makefile +#11 419.7 config.status: creating hl/c++/Makefile +#11 419.7 config.status: creating hl/c++/src/Makefile +#11 419.7 config.status: creating src/H5config.h +#11 419.7 config.status: executing pubconf commands +#11 419.7 creating src/H5pubconf.h +#11 419.7 Post process src/libhdf5.settings +#11 419.7 config.status: executing depfiles commands +#11 419.9 config.status: executing libtool commands +#11 419.9 config.status: executing .classes commands +#11 419.9 SUMMARY OF THE HDF5 CONFIGURATION +#11 419.9 ================================= +#11 419.9 +#11 419.9 General Information: +#11 419.9 ------------------- +#11 419.9 HDF5 Version: 1.10.7 +#11 419.9 Configured on: Wed Nov 5 18:33:51 UTC 2025 +#11 419.9 Configured by: root@buildkitsandbox +#11 419.9 Host system: aarch64-unknown-linux-gnu +#11 419.9 Uname information: Linux buildkitsandbox 6.17.4-orbstack-00308-g195e9689a04f #1 SMP PREEMPT Fri Oct 24 07:22:34 UTC 2025 aarch64 aarch64 aarch64 GNU/Linux +#11 419.9 Byte sex: little-endian +#11 419.9 Installation point: /tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/hdf5 +#11 419.9 +#11 419.9 Compiling Options: +#11 419.9 ------------------ +#11 419.9 Build Mode: production +#11 419.9 Debugging Symbols: no +#11 419.9 Asserts: no +#11 419.9 Profiling: no +#11 419.9 Optimization Level: high +#11 419.9 +#11 419.9 Linking Options: +#11 419.9 ---------------- +#11 419.9 Libraries: static +#11 419.9 Statically Linked Executables: +#11 419.9 LDFLAGS: -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro +#11 419.9 H5_LDFLAGS: +#11 419.9 AM_LDFLAGS: -L/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/szip/lib +#11 419.9 Extra libraries: -lcrypto -lcurl -lsz -lz -ldl -lm +#11 419.9 Archiver: ar +#11 419.9 AR_FLAGS: cr +#11 419.9 Ranlib: ranlib +#11 419.9 +#11 419.9 Languages: +#11 419.9 ---------- +#11 419.9 C: yes +#11 419.9 C Compiler: /usr/bin/gcc +#11 419.9 CPPFLAGS: +#11 419.9 H5_CPPFLAGS: -D_GNU_SOURCE -D_POSIX_C_SOURCE=200809L -DNDEBUG -UH5_DEBUG_API +#11 419.9 AM_CPPFLAGS: -I/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/szip/szip/include +#11 419.9 C Flags: -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wno-unused-variable -Wno-unused-parameter -Wno-cast-qual -Wno-pedantic -Wno-extra -Wno-format-overflow -Wno-format-truncation -Wno-stringop-overflow -Wno-overlength-strings -Wno-stringop-truncation -fpic +#11 419.9 H5 C Flags: -std=c99 -Wno-c++-compat -Wno-format-nonliteral -Wshadow -Wundef -Wwrite-strings -Wlarger-than=2560 -Wlogical-op -Wframe-larger-than=16384 -Wpacked-bitfield-compat -Wsync-nand -Wstrict-overflow=5 -Wno-unsuffixed-float-constants -Wdouble-promotion -Wtrampolines -Wstack-usage=8192 -Wmaybe-uninitialized -Wdate-time -Warray-bounds=2 -Wc99-c11-compat -Wduplicated-cond -Whsa -Wnormalized -Wnull-dereference -Wunused-const-variable -Walloca -Walloc-zero -Wduplicated-branches -Wformat-overflow=2 -Wformat-truncation=1 -Wimplicit-fallthrough=5 -Wrestrict -Wattribute-alias -Wcast-align=strict -Wshift-overflow=2 -Wattribute-alias=2 -Wmissing-profile -fstdarg-opt -s -Wno-aggregate-return -Wno-inline -Wno-missing-format-attribute -Wno-missing-noreturn -Wno-overlength-strings -Wno-jump-misses-init -Wno-suggest-attribute=const -Wno-suggest-attribute=noreturn -Wno-suggest-attribute=pure -Wno-suggest-attribute=format -Wno-suggest-attribute=cold -Wno-suggest-attribute=malloc -O3 -Werror=bad-function-cast -Werror=declaration-after-statement -Werror=implicit-function-declaration -Werror=missing-declarations -Werror=missing-prototypes -Werror=nested-externs -Werror=old-style-definition -Werror=packed -Werror=pointer-sign -Werror=pointer-to-int-cast -Werror=redundant-decls -Werror=strict-prototypes -Werror=switch -Wunused-function -Wunused-variable -Wunused-parameter -Wcast-align -Wunused-but-set-variable -Wformat -Werror=incompatible-pointer-types -Werror=shadow -Wcast-function-type -Wmaybe-uninitialized +#11 419.9 AM C Flags: +#11 419.9 Shared C Library: no +#11 419.9 Static C Library: yes +#11 419.9 +#11 419.9 +#11 419.9 Fortran: no +#11 419.9 +#11 419.9 C++: yes +#11 419.9 C++ Compiler: /usr/bin/g++ -std=gnu++14 +#11 419.9 C++ Flags: -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic +#11 419.9 H5 C++ Flags: -Wall -Wcast-qual -Wconversion -Wctor-dtor-privacy -Weffc++ -Wextra -Wfloat-equal -Wformat=2 -Winit-self -Winvalid-pch -Wmissing-include-dirs -Wno-format-nonliteral -Wnon-virtual-dtor -Wold-style-cast -Woverloaded-virtual -Wreorder -Wshadow -Wsign-promo -Wundef -Wwrite-strings -pedantic -Wlarger-than=2560 -Wlogical-op -Wframe-larger-than=16384 -Wpacked-bitfield-compat -Wsync-nand -Wstrict-overflow=5 -Wno-unsuffixed-float-constants -Wdouble-promotion -Wtrampolines -Wstack-usage=8192 -Wmaybe-uninitialized -Wdate-time -Wopenmp-simd -Warray-bounds=2 -Wduplicated-cond -Whsa -Wnormalized -Wnull-dereference -Wunused-const-variable -Walloca -Walloc-zero -Wduplicated-branches -Wformat-overflow=2 -Wformat-truncation=1 -Wimplicit-fallthrough=5 -Wrestrict -Wattribute-alias -Wcast-align=strict -Wshift-overflow=2 -Wattribute-alias=2 -Wmissing-profile -fstdarg-opt -s -O3 -Wcast-align -Wmissing-declarations -Werror=packed -Werror=redundant-decls -Werror=switch -Wunused-but-set-variable -Werror=unused-function -Werror=unused-variable -Wunused-parameter -Werror=shadow +#11 419.9 AM C++ Flags: +#11 419.9 Shared C++ Library: no +#11 419.9 Static C++ Library: yes +#11 419.9 +#11 419.9 Java: no +#11 419.9 +#11 419.9 +#11 419.9 Features: +#11 419.9 --------- +#11 419.9 Parallel HDF5: no +#11 419.9 Parallel Filtered Dataset Writes: no +#11 419.9 Large Parallel I/O: no +#11 419.9 High-level library: yes +#11 419.9 Build HDF5 Tests: yes +#11 419.9 Build HDF5 Tools: yes +#11 419.9 Threadsafety: no +#11 419.9 Default API mapping: v110 +#11 419.9 With deprecated public symbols: yes +#11 419.9 I/O filters (external): deflate(zlib),szip(encoder) +#11 419.9 MPE: no +#11 419.9 Direct VFD: no +#11 419.9 Mirror VFD: no +#11 419.9 (Read-Only) S3 VFD: yes +#11 419.9 (Read-Only) HDFS VFD: no +#11 419.9 dmalloc: no +#11 419.9 Packages w/ extra debug output: none +#11 419.9 API tracing: no +#11 419.9 Using memory checker: no +#11 419.9 Memory allocation sanity checks: no +#11 419.9 Function stack tracing: no +#11 419.9 Use file locking: best-effort +#11 419.9 Strict file format checks: no +#11 419.9 Optimization instrumentation: no +#11 419.9 for d in src . c++ hl; do \ +#11 419.9 if test $d != .; then \ +#11 419.9 (cd $d && make lib) || exit 1; \ +#11 419.9 fi; \ +#11 419.9 done +#11 419.9 make[1]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/src' +#11 419.9 make[2]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/src' +#11 419.9 CC H5.lo +#11 420.1 CC H5checksum.lo +#11 420.2 CC H5dbg.lo +#11 420.3 CC H5system.lo +#11 420.5 CC H5timer.lo +#11 420.6 CC H5trace.lo +#11 420.6 H5trace.c: In function 'H5_trace': +#11 420.6 H5trace.c:244:13: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 420.6 244 | unsigned n = (unsigned)MAX (0, (int)HDstrlen(argname) - 3); +#11 420.6 | ^~~~~~~~ +#11 421.0 CC H5A.lo +#11 421.4 CC H5Abtree2.lo +#11 421.5 CC H5Adense.lo +#11 421.6 H5Adense.c: In function 'H5A__dense_fnd_cb': +#11 421.6 H5Adense.c:314:27: warning: initialization discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] +#11 421.6 314 | H5A_t *old_attr = *user_attr; +#11 421.6 | ^ +#11 421.8 CC H5Adeprec.lo +#11 421.9 CC H5Aint.lo +#11 422.3 CC H5Atest.lo +#11 422.4 CC H5AC.lo +#11 422.7 CC H5ACdbg.lo +#11 422.8 CC H5ACproxy_entry.lo +#11 422.9 CC H5B.lo +#11 423.2 CC H5Bcache.lo +#11 423.3 CC H5Bdbg.lo +#11 423.3 H5Bdbg.c: In function 'H5B_debug': +#11 423.3 H5Bdbg.c:129:13: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 423.3 129 | "Address:", bt->child[u]); +#11 423.3 | ^~~~~~~~~~ +#11 423.3 H5Bdbg.c:135:23: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 423.3 135 | "Left Key:"); +#11 423.3 | ^~~~~~~~~~~ +#11 423.3 H5Bdbg.c:137:13: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 423.3 137 | (void)(type->debug_key)(stream, indent + 6, MAX(0, fwidth - 6), H5B_NKEY(bt, shared, u), udata); +#11 423.3 | ^ +#11 423.3 H5Bdbg.c:141:23: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 423.3 141 | "Right Key:"); +#11 423.3 | ^~~~~~~~~~~~ +#11 423.3 H5Bdbg.c:143:13: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 423.3 143 | (void)(type->debug_key)(stream, indent + 6, MAX (0, fwidth - 6), H5B_NKEY(bt, shared, u + 1), udata); +#11 423.3 | ^ +#11 423.4 CC H5B2.lo +#11 423.6 CC H5B2cache.lo +#11 423.8 CC H5B2dbg.lo +#11 423.9 H5B2dbg.c: In function 'H5B2__hdr_debug': +#11 423.9 H5B2dbg.c:158:13: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 423.9 158 | hdr->node_info[u].max_nrec, hdr->node_info[u].split_nrec, hdr->node_info[u].merge_nrec); +#11 423.9 | ^~~ +#11 423.9 H5B2dbg.c: In function 'H5B2__int_debug': +#11 423.9 H5B2dbg.c:252:19: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 423.9 252 | internal->node_ptrs[u].addr); +#11 423.9 | ^~~~~~~~ +#11 423.9 H5B2dbg.c:257:19: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 423.9 257 | temp_str); +#11 423.9 | ^~~~~~~~ +#11 423.9 H5B2dbg.c:259:9: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 423.9 259 | (void)(type->debug)(stream, indent + 6, MAX (0, fwidth-6), H5B2_INT_NREC(internal, hdr, u), hdr->cb_ctx); +#11 423.9 | ^ +#11 423.9 H5B2dbg.c:268:15: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 423.9 268 | internal->node_ptrs[u].addr); +#11 423.9 | ^~~~~~~~ +#11 423.9 H5B2dbg.c: In function 'H5B2__leaf_debug': +#11 423.9 H5B2dbg.c:360:19: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 423.9 360 | temp_str); +#11 423.9 | ^~~~~~~~ +#11 423.9 H5B2dbg.c:362:9: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 423.9 362 | (void)(type->debug)(stream, indent + 6, MAX (0, fwidth-6), H5B2_LEAF_NREC(leaf, hdr, u), hdr->cb_ctx); +#11 423.9 | ^ +#11 423.9 CC H5B2hdr.lo +#11 424.1 CC H5B2int.lo +#11 424.4 CC H5B2internal.lo +#11 424.6 CC H5B2leaf.lo +#11 424.8 CC H5B2stat.lo +#11 424.9 CC H5B2test.lo +#11 425.0 CC H5C.lo +#11 425.1 H5C.c: In function 'H5C_flush_cache': +#11 425.1 H5C.c:1212:25: warning: variable 'ignore_protected' set but not used [-Wunused-but-set-variable] +#11 425.1 1212 | hbool_t ignore_protected; +#11 425.1 | ^~~~~~~~~~~~~~~~ +#11 425.1 H5C.c: In function 'H5C__autoadjust__ageout__remove_all_markers': +#11 425.1 H5C.c:9820:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 425.1 9820 | } /* H5C__remove_entry() */ +#11 425.1 | ^ +#11 425.1 H5C.c:9820:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 425.1 H5C.c: In function 'H5C__mark_flush_dep_clean': +#11 425.1 H5C.c:9820:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 425.1 H5C.c: In function 'H5C__autoadjust__ageout__insert_new_marker': +#11 425.1 H5C.c:9820:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 425.1 H5C.c: In function 'H5C__autoadjust__ageout__remove_excess_markers': +#11 425.1 H5C.c:9820:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 425.1 H5C.c:9820:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 425.1 H5C.c: In function 'H5C__autoadjust__ageout__cycle_epoch_marker': +#11 425.1 H5C.c:9820:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 425.1 H5C.c: In function 'H5C__mark_flush_dep_serialized': +#11 425.1 H5C.c:9820:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 425.2 H5C.c: In function 'H5C__mark_flush_dep_clean': +#11 425.2 H5C.c:8795:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 425.2 8795 | H5C__mark_flush_dep_clean(H5C_cache_entry_t * entry) +#11 425.2 | ^~~~~~~~~~~~~~~~~~~~~~~~~ +#11 425.2 H5C.c:8795:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 425.2 H5C.c:8795:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 425.3 H5C.c: In function 'H5C__mark_flush_dep_serialized': +#11 425.3 H5C.c:8842:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 425.3 8842 | H5C__mark_flush_dep_serialized(H5C_cache_entry_t * entry_ptr) +#11 425.3 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 425.3 H5C.c:8842:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 425.3 H5C.c:8842:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 425.4 H5C.c: In function 'H5C__flush_invalidate_cache': +#11 425.4 H5C.c:5612:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 425.4 5612 | H5C__flush_invalidate_cache(H5F_t *f, unsigned flags) +#11 425.4 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 425.7 CC H5Cdbg.lo +#11 425.8 CC H5Cepoch.lo +#11 425.9 CC H5Cimage.lo +#11 426.0 In file included from H5Cprivate.h:35, +#11 426.0 from H5Cpkg.h:37, +#11 426.0 from H5Cimage.c:42: +#11 426.0 H5Cimage.c: In function 'H5C__reconstruct_cache_entry': +#11 426.0 H5Fprivate.h:168:71: warning: this condition has identical branches [-Wduplicated-branches] +#11 426.0 168 | ((*(p) & (unsigned)0x80) ? (unsigned)(~0xffffffff) : (unsigned)0x0))); (p)++; \ +#11 426.0 | ^ +#11 426.0 H5Cimage.c:3397:5: note: in expansion of macro 'INT32DECODE' +#11 426.0 3397 | INT32DECODE(p, pf_entry_ptr->lru_rank); +#11 426.0 | ^~~~~~~~~~~ +#11 426.0 H5Cimage.c: In function 'H5C__prep_for_file_close__setup_image_entries_array': +#11 426.0 H5Cimage.c:3575:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 426.0 3575 | } /* H5C__write_cache_image() */ +#11 426.0 | ^ +#11 426.0 H5Cimage.c:3575:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 426.0 H5Cimage.c: In function 'H5C__deserialize_prefetched_entry': +#11 426.0 H5Cimage.c:3575:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 426.1 H5Cimage.c:471:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 426.1 471 | H5C__deserialize_prefetched_entry(H5F_t *f, H5C_t *cache_ptr, +#11 426.1 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 426.1 H5Cimage.c:471:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 426.1 H5Cimage.c:471:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 426.3 CC H5Clog.lo +#11 426.4 CC H5Clog_json.lo +#11 426.6 CC H5Clog_trace.lo +#11 426.7 CC H5Cprefetched.lo +#11 426.8 CC H5Cquery.lo +#11 427.0 CC H5Ctag.lo +#11 427.1 CC H5Ctest.lo +#11 427.2 CC H5CS.lo +#11 427.3 CC H5CX.lo +#11 427.5 CC H5D.lo +#11 427.8 CC H5Dbtree.lo +#11 428.0 CC H5Dbtree2.lo +#11 428.2 CC H5Dchunk.lo +#11 428.3 H5Dchunk.c: In function 'H5D__create_chunk_file_map_hyper': +#11 428.3 H5Dchunk.c:1873:40: warning: passing argument 1 of 'H5S_combine_hyperslab' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] +#11 428.3 1873 | if(H5S_combine_hyperslab(fm->file_space, H5S_SELECT_AND, coords, NULL, fm->chunk_dim, NULL, &tmp_fchunk) < 0) +#11 428.3 | ~~^~~~~~~~~~~~ +#11 428.3 In file included from H5Rprivate.h:26, +#11 428.3 from H5Tprivate.h:32, +#11 428.3 from H5Zprivate.h:28, +#11 428.3 from H5CXprivate.h:30, +#11 428.3 from H5Dchunk.c:55: +#11 428.3 H5Sprivate.h:313:44: note: expected 'H5S_t *' but argument is of type 'const H5S_t *' +#11 428.3 313 | H5_DLL herr_t H5S_combine_hyperslab(H5S_t *old_space, H5S_seloper_t op, +#11 428.3 | ~~~~~~~^~~~~~~~~ +#11 428.3 H5Dchunk.c: In function 'H5D__chunk_allocate': +#11 428.3 H5Dchunk.c:4433:32: warning: cast between incompatible function types from 'void * (*)(void *, const H5O_pline_t *)' to 'void (*)(void *, void *)' [-Wcast-function-type] +#11 428.3 4433 | (void *)pline, (H5MM_free_t)H5D__chunk_mem_xfree, (void *)pline, +#11 428.3 | ^ +#11 428.3 H5Dchunk.c:4482:22: warning: assignment discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] +#11 428.3 4482 | idx_info.storage = sc; +#11 428.3 | ^ +#11 428.3 H5Dchunk.c: In function 'H5D__chunk_copy_cb': +#11 428.3 H5Dchunk.c:6159:111: warning: passing argument 5 of 'H5D__chunk_file_alloc' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] +#11 428.3 6159 | if(H5D__chunk_file_alloc(udata->idx_info_dst, NULL, &udata_dst.chunk_block, &need_insert, udata_dst.common.scaled) < 0) +#11 428.3 | ~~~~~~~~~~~~~~~~^~~~~~~ +#11 428.3 In file included from H5Dchunk.c:56: +#11 428.3 H5Dpkg.h:653:59: note: expected 'hsize_t *' {aka 'long long unsigned int *'} but argument is of type 'const hsize_t *' {aka 'const long long unsigned int *'} +#11 428.3 653 | H5F_block_t *new_chunk, hbool_t *need_insert, hsize_t scaled[]); +#11 428.3 | ~~~~~~~~^~~~~~~~ +#11 428.3 H5Dchunk.c: In function 'H5D__chunk_update_old_edge_chunks': +#11 428.3 H5Dchunk.c:7492:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 428.3 7492 | } /* end H5D__get_chunk_info_by_coord() */ +#11 428.3 | ^ +#11 428.3 H5Dchunk.c:7492:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 428.4 H5Dchunk.c: In function 'H5D__chunk_allocate': +#11 428.4 H5Dchunk.c:7492:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 428.8 H5Dchunk.c: In function 'H5D__chunk_update_old_edge_chunks': +#11 428.8 H5Dchunk.c:4771:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 428.8 4771 | H5D__chunk_update_old_edge_chunks(H5D_t *dset, hsize_t old_dim[]) +#11 428.8 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 428.9 H5Dchunk.c: In function 'H5D__chunk_allocate': +#11 428.9 H5Dchunk.c:4309:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 428.9 4309 | H5D__chunk_allocate(const H5D_io_info_t *io_info, hbool_t full_overwrite, hsize_t old_dim[]) +#11 428.9 | ^~~~~~~~~~~~~~~~~~~ +#11 428.9 H5Dchunk.c: In function 'H5D__chunk_copy_cb': +#11 428.9 H5Dchunk.c:6063:33: warning: potential null pointer dereference [-Wnull-dereference] +#11 428.9 6063 | H5MM_memcpy(buf, ent->chunk, nbytes); +#11 428.9 | ~~~^~~~~~~ +#11 428.9 H5Dchunk.c:6063:33: warning: potential null pointer dereference [-Wnull-dereference] +#11 429.1 CC H5Dcompact.lo +#11 429.2 CC H5Dcontig.lo +#11 429.4 CC H5Ddbg.lo +#11 429.5 CC H5Ddeprec.lo +#11 429.6 CC H5Dearray.lo +#11 429.8 CC H5Defl.lo +#11 430.0 CC H5Dfarray.lo +#11 430.2 CC H5Dfill.lo +#11 430.3 CC H5Dint.lo +#11 430.4 H5Dint.c:100:21: warning: size of 'H5D_def_dset' 4672 bytes exceeds maximum object size 2560 [-Wlarger-than=] +#11 430.4 100 | static H5D_shared_t H5D_def_dset; +#11 430.4 | ^~~~~~~~~~~~ +#11 430.4 In file included from H5Dint.c:24: +#11 430.4 H5Dint.c: In function 'H5D_nameof': +#11 430.4 H5Dint.c:2230:49: warning: return discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] +#11 430.4 2230 | FUNC_LEAVE_NOAPI(dataset ? &(dataset->path) : NULL) +#11 430.4 H5private.h:2437:12: note: in definition of macro 'FUNC_LEAVE_NOAPI' +#11 430.4 2437 | return(ret_value); \ +#11 430.4 | ^~~~~~~~~ +#11 430.4 H5Dint.c: In function 'H5D_flush_all': +#11 430.4 H5Dint.c:3327:52: warning: passing argument 3 of 'H5I_iterate' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] +#11 430.4 3327 | if(H5I_iterate(H5I_DATASET, H5D__flush_all_cb, f, FALSE) < 0) /* Casting away const OK -QAK */ +#11 430.4 | ^ +#11 430.4 In file included from H5Dint.c:31: +#11 430.4 H5Iprivate.h:70:74: note: expected 'void *' but argument is of type 'const H5F_t *' +#11 430.4 70 | H5_DLL herr_t H5I_iterate(H5I_type_t type, H5I_search_func_t func, void *udata, hbool_t app_ref); +#11 430.4 | ~~~~~~^~~~~ +#11 430.9 CC H5Dio.lo +#11 431.1 CC H5Dlayout.lo +#11 431.2 CC H5Dnone.lo +#11 431.3 CC H5Doh.lo +#11 431.4 CC H5Dscatgath.lo +#11 431.7 CC H5Dselect.lo +#11 431.8 CC H5Dsingle.lo +#11 431.9 CC H5Dtest.lo +#11 432.0 CC H5Dvirtual.lo +#11 432.5 CC H5E.lo +#11 433.1 CC H5Edeprec.lo +#11 433.2 CC H5Eint.lo +#11 433.3 CC H5EA.lo +#11 433.5 CC H5EAcache.lo +#11 433.7 CC H5EAdbg.lo +#11 433.8 H5EAdbg.c: In function 'H5EA__iblock_debug': +#11 433.8 H5EAdbg.c:251:21: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 433.8 251 | ((uint8_t *)iblock->elmts) + (hdr->cparam.cls->nat_elmt_size * u)) < 0) +#11 433.8 | ^ +#11 433.8 H5EAdbg.c:268:17: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 433.8 268 | iblock->dblk_addrs[u]); +#11 433.8 | ^~~~~~ +#11 433.8 H5EAdbg.c:284:17: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 433.8 284 | iblock->sblk_addrs[u]); +#11 433.8 | ^~~~~~ +#11 433.8 H5EAdbg.c: In function 'H5EA__sblock_debug': +#11 433.8 H5EAdbg.c:374:17: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 433.8 374 | sblock->dblk_addrs[u]); +#11 433.8 | ^~~~~~ +#11 433.8 H5EAdbg.c: In function 'H5EA__dblock_debug': +#11 433.8 H5EAdbg.c:455:17: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 433.8 455 | ((uint8_t *)dblock->elmts) + (hdr->cparam.cls->nat_elmt_size * u)) < 0) +#11 433.8 | ^ +#11 433.9 CC H5EAdblkpage.lo +#11 434.0 CC H5EAdblock.lo +#11 434.1 CC H5EAhdr.lo +#11 434.2 CC H5EAiblock.lo +#11 434.4 CC H5EAint.lo +#11 434.5 CC H5EAsblock.lo +#11 434.6 CC H5EAstat.lo +#11 434.7 CC H5EAtest.lo +#11 434.8 CC H5F.lo +#11 435.1 CC H5Faccum.lo +#11 435.3 CC H5Fcwfs.lo +#11 435.4 CC H5Fdbg.lo +#11 435.5 H5Fdbg.c: In function 'H5F_debug': +#11 435.5 H5Fdbg.c:125:13: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 435.5 125 | H5G__ent_debug(f->shared->sblock->root_ent, stream, indent + 3, MAX(0, fwidth - 3), NULL); +#11 435.5 | ^~~~~~~~~~~~~~ +#11 435.5 H5Fdbg.c:140:13: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 435.5 140 | H5G__ent_debug(&root_ent, stream, indent + 3, MAX(0, fwidth - 3), NULL); +#11 435.5 | ^~~~~~~~~~~~~~ +#11 435.5 CC H5Fdeprec.lo +#11 435.6 CC H5Fefc.lo +#11 435.7 CC H5Ffake.lo +#11 435.8 CC H5Fint.lo +#11 436.3 CC H5Fio.lo +#11 436.4 CC H5Fmount.lo +#11 436.6 CC H5Fquery.lo +#11 436.7 CC H5Fsfile.lo +#11 436.8 CC H5Fspace.lo +#11 436.9 CC H5Fsuper.lo +#11 437.0 H5Fsuper.c: In function 'H5F__super_read': +#11 437.0 H5Fsuper.c:528:11: warning: this condition has identical branches [-Wduplicated-branches] +#11 437.0 528 | if(H5F_addr_lt(super_addr, sblock->base_addr)) +#11 437.0 | ^ +#11 437.2 CC H5Fsuper_cache.lo +#11 437.3 CC H5Ftest.lo +#11 437.5 CC H5FA.lo +#11 437.6 CC H5FAcache.lo +#11 437.8 CC H5FAdbg.lo +#11 437.8 H5FAdbg.c: In function 'H5FA__dblock_debug': +#11 437.8 H5FAdbg.c:251:21: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 437.8 251 | if((hdr->cparam.cls->debug)(stream, (indent + 3), MAX(0, (fwidth - 3)), (hsize_t)u, ((uint8_t *)dblk_page->elmts) + (hdr->cparam.cls->nat_elmt_size * u)) < 0) +#11 437.8 | ^~ +#11 437.8 H5FAdbg.c:267:13: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 437.8 267 | if((hdr->cparam.cls->debug)(stream, (indent + 3), MAX(0, (fwidth - 3)), (hsize_t)u, ((uint8_t *)dblock->elmts) + (hdr->cparam.cls->nat_elmt_size * u)) < 0) +#11 437.8 | ^~ +#11 437.9 CC H5FAdblock.lo +#11 438.0 CC H5FAdblkpage.lo +#11 438.1 CC H5FAhdr.lo +#11 438.2 CC H5FAint.lo +#11 438.3 CC H5FAstat.lo +#11 438.4 CC H5FAtest.lo +#11 438.5 CC H5FD.lo +#11 438.8 CC H5FDcore.lo +#11 439.0 CC H5FDfamily.lo +#11 439.1 H5FDfamily.c: In function 'H5FD__family_get_eof': +#11 439.1 H5FDfamily.c:1369:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 439.1 1369 | } /* end H5FD__family_unlock() */ +#11 439.1 | ^ +#11 439.1 H5FDfamily.c:1011:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 439.1 1011 | H5FD__family_get_eof(const H5FD_t *_file, H5FD_mem_t type) +#11 439.1 | ^~~~~~~~~~~~~~~~~~~~ +#11 439.1 H5FDfamily.c:1011:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 439.2 CC H5FDhdfs.lo +#11 439.3 CC H5FDint.lo +#11 439.4 CC H5FDlog.lo +#11 439.6 CC H5FDmulti.lo +#11 439.9 CC H5FDsec2.lo +#11 440.0 CC H5FDspace.lo +#11 440.1 CC H5FDsplitter.lo +#11 440.4 CC H5FDstdio.lo +#11 440.5 CC H5FDtest.lo +#11 440.6 CC H5FL.lo +#11 440.8 CC H5FO.lo +#11 440.9 CC H5FS.lo +#11 441.1 CC H5FScache.lo +#11 441.1 H5FScache.c: In function 'H5FS__cache_sinfo_deserialize': +#11 441.1 H5FScache.c:1002:17: warning: variable 'old_tot_sect_count' set but not used [-Wunused-but-set-variable] +#11 441.1 1002 | hsize_t old_tot_sect_count; /* Total section count from header */ +#11 441.1 | ^~~~~~~~~~~~~~~~~~ +#11 441.3 CC H5FSdbg.lo +#11 441.4 H5FSdbg.c: In function 'H5FS_sects_debug': +#11 441.4 H5FSdbg.c:281:13: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 441.4 281 | if(H5HF_sects_debug(f, client_addr, stream, indent + 3, MAX(0, fwidth - 3)) < 0) +#11 441.4 | ^~ +#11 441.4 H5FSdbg.c:286:13: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 441.4 286 | if(H5MF_sects_debug(f, fs_addr, stream, indent + 3, MAX(0, fwidth - 3)) < 0) +#11 441.4 | ^~ +#11 441.4 CC H5FSint.lo +#11 441.5 CC H5FSsection.lo +#11 441.8 CC H5FSstat.lo +#11 441.8 CC H5FStest.lo +#11 441.9 CC H5G.lo +#11 442.1 CC H5Gbtree2.lo +#11 442.2 CC H5Gcache.lo +#11 442.3 CC H5Gcompact.lo +#11 442.5 CC H5Gdense.lo +#11 442.7 CC H5Gdeprec.lo +#11 443.0 CC H5Gent.lo +#11 443.1 H5Gent.c: In function 'H5G__ent_debug': +#11 443.1 H5Gent.c:542:5: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 443.1 542 | nested_fwidth = MAX(0, fwidth - 3); +#11 443.1 | ^~~~~~~~~~~~~ +#11 443.1 CC H5Gint.lo +#11 443.3 CC H5Glink.lo +#11 443.5 CC H5Gloc.lo +#11 443.6 CC H5Gname.lo +#11 443.8 CC H5Gnode.lo +#11 443.9 H5Gnode.c: In function 'H5G_node_debug': +#11 443.9 H5Gnode.c:1517:9: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 443.9 1517 | fwidth = MAX(0, fwidth - 3); +#11 443.9 | ^~~~~~ +#11 444.1 CC H5Gobj.lo +#11 444.3 CC H5Goh.lo +#11 444.4 CC H5Groot.lo +#11 444.5 CC H5Gstab.lo +#11 444.7 CC H5Gtest.lo +#11 444.9 CC H5Gtraverse.lo +#11 445.1 CC H5HF.lo +#11 445.2 CC H5HFbtree2.lo +#11 445.4 CC H5HFcache.lo +#11 445.5 H5HFcache.c: In function 'H5HF__cache_hdr_serialize': +#11 445.5 H5HFcache.c:770:12: warning: assignment discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] +#11 445.5 770 | hdr->f = f; +#11 445.5 | ^ +#11 445.5 H5HFcache.c: In function 'H5HF__cache_iblock_serialize': +#11 445.5 H5HFcache.c:1360:12: warning: assignment discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] +#11 445.5 1360 | hdr->f = f; +#11 445.5 | ^ +#11 445.7 CC H5HFdbg.lo +#11 445.8 H5HFdbg.c: In function 'H5HF_hdr_print': +#11 445.8 H5HFdbg.c:328:5: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 445.8 328 | H5HF__dtable_debug(&hdr->man_dtable, stream, indent + 3, MAX(0, fwidth - 3)); +#11 445.8 | ^~~~~~~~~~~~~~~~~~ +#11 445.8 H5HFdbg.c:336:23: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 445.8 336 | hdr->pline_root_direct_size); +#11 445.8 | ^~~ +#11 445.8 H5HFdbg.c:339:23: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 445.8 339 | hdr->pline_root_direct_filter_mask); +#11 445.8 | ^~~ +#11 445.8 H5HFdbg.c:341:9: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 445.8 341 | H5O_debug_id(H5O_PLINE_ID, hdr->f, &(hdr->pline), stream, indent + 3, MAX(0, fwidth - 3)); +#11 445.8 | ^~~~~~~~~~~~ +#11 445.8 H5HFdbg.c:351:19: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 445.8 351 | hdr->root_iblock_flags); +#11 445.8 | ^~~ +#11 445.8 H5HFdbg.c:354:19: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 445.8 354 | hdr->root_iblock); +#11 445.8 | ^~~ +#11 445.8 H5HFdbg.c: In function 'H5HF_dblock_debug_cb': +#11 445.8 H5HFdbg.c:468:17: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 445.8 468 | start, len); +#11 445.8 | ^~~~~ +#11 445.8 H5HFdbg.c: In function 'H5HF_iblock_print': +#11 445.8 H5HFdbg.c:683:17: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 445.8 683 | temp_str); +#11 445.8 | ^~~~~~~~ +#11 445.8 H5HFdbg.c:693:25: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 445.8 693 | iblock->filt_ents[off].filter_mask); +#11 445.8 | ^~~~~~ +#11 445.8 H5HFdbg.c:697:25: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 445.8 697 | iblock->ents[off].addr); +#11 445.8 | ^~~~~~ +#11 445.8 H5HFdbg.c:711:21: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 445.8 711 | temp_str); +#11 445.8 | ^~~~~~~~ +#11 445.8 H5HFdbg.c:718:25: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 445.8 718 | iblock->ents[off].addr); +#11 445.8 | ^~~~~~ +#11 445.8 H5HFdbg.c:724:19: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 445.8 724 | ""); +#11 445.8 | ^~~~~~~~ +#11 445.8 H5HFdbg.c:733:19: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 445.8 733 | iblock->rc); +#11 445.8 | ^~~~~~ +#11 445.8 H5HFdbg.c:738:19: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 445.8 738 | iblock->parent); +#11 445.8 | ^~~~~~ +#11 445.8 H5HFdbg.c: In function 'H5HF_sects_debug_cb': +#11 445.8 H5HFdbg.c:845:5: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 445.8 845 | if(H5FS_sect_debug(udata->fspace, _sect, udata->stream, udata->indent + 3, MAX(0, udata->fwidth - 3)) < 0) +#11 445.8 | ^~ +#11 445.9 CC H5HFdblock.lo +#11 446.1 CC H5HFdtable.lo +#11 446.2 CC H5HFhdr.lo +#11 446.4 CC H5HFhuge.lo +#11 446.6 H5HFhuge.c: In function 'H5HF__huge_write': +#11 446.6 H5HFhuge.c:863:8: warning: 'obj_size' may be used uninitialized in this function [-Wmaybe-uninitialized] +#11 446.6 863 | if(H5F_block_write(hdr->f, H5FD_MEM_FHEAP_HUGE_OBJ, obj_addr, obj_size, obj) < 0) +#11 446.6 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 446.6 CC H5HFiblock.lo +#11 446.9 CC H5HFiter.lo +#11 447.0 CC H5HFman.lo +#11 447.2 CC H5HFsection.lo +#11 447.3 H5HFsection.c: In function 'H5HF__sect_row_debug': +#11 447.3 H5HFsection.c:2108:9: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 447.3 2108 | H5HF_sect_indirect_debug(sect->u.row.under, stream, indent + 3, MAX(0, fwidth - 3)); +#11 447.3 | ^~~~~~~~~~~~~~~~~~~~~~~~ +#11 447.4 H5HFsection.c: In function 'H5HF__sect_row_merge': +#11 447.4 H5HFsection.c:3541:25: warning: potential null pointer dereference [-Wnull-dereference] +#11 447.4 3541 | if(sect2->u.indirect.dir_nrows > 0) { +#11 447.4 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~ +#11 447.4 H5HFsection.c:3535:16: warning: potential null pointer dereference [-Wnull-dereference] +#11 447.4 3535 | start_row2 = sect2->u.indirect.row; +#11 447.4 | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +#11 447.5 CC H5HFspace.lo +#11 447.7 CC H5HFstat.lo +#11 447.8 CC H5HFtest.lo +#11 447.9 CC H5HFtiny.lo +#11 448.0 CC H5HG.lo +#11 448.2 CC H5HGcache.lo +#11 448.3 CC H5HGdbg.lo +#11 448.4 H5HGdbg.c: In function 'H5HG_debug': +#11 448.4 H5HGdbg.c:140:22: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 448.4 140 | (unsigned long)(h->obj[u].begin - h->chunk)); +#11 448.4 | ^ +#11 448.4 H5HGdbg.c:143:22: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 448.4 143 | h->obj[u].nrefs); +#11 448.4 | ^ +#11 448.4 H5HGdbg.c:148:22: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 448.4 148 | (unsigned long)H5HG_ALIGN(h->obj[u].size)); +#11 448.4 | ^ +#11 448.4 CC H5HGquery.lo +#11 448.5 CC H5HL.lo +#11 448.7 CC H5HLcache.lo +#11 448.8 CC H5HLdbg.lo +#11 448.9 H5HLdbg.c: In function 'H5HL_debug': +#11 448.9 H5HLdbg.c:91:9: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 448.9 91 | HDfprintf(stream, "%*s%-*s %8Zu, %8Zu\n", indent+3, "", MAX(0,fwidth-9), temp_str, freelist->offset, freelist->size); +#11 448.9 | ^~~~~~~~~ +#11 448.9 CC H5HLint.lo +#11 449.0 CC H5HLprfx.lo +#11 449.1 CC H5HLdblk.lo +#11 449.2 CC H5HP.lo +#11 449.3 CC H5I.lo +#11 449.4 H5I.c: In function 'H5I__id_dump_cb': +#11 449.4 H5I.c:2135:31: warning: passing argument 1 of 'H5G_nameof' discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] +#11 449.4 2135 | path = H5G_nameof((const H5G_t *)item->obj_ptr); +#11 449.4 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 449.4 In file included from H5Tprivate.h:31, +#11 449.4 from H5Zprivate.h:28, +#11 449.4 from H5CXprivate.h:30, +#11 449.4 from H5I.c:34: +#11 449.4 H5Gprivate.h:190:39: note: expected 'H5G_t *' but argument is of type 'const H5G_t *' +#11 449.4 190 | H5_DLL H5G_name_t * H5G_nameof(H5G_t *grp); +#11 449.4 | ~~~~~~~^~~ +#11 449.4 H5I.c: At top level: +#11 449.4 H5I.c:125:12: warning: 'H5I__debug_cb' declared 'static' but never defined [-Wunused-function] +#11 449.4 125 | static int H5I__debug_cb(void *_item, void *_key, void *_udata); +#11 449.4 | ^~~~~~~~~~~~~ +#11 449.6 CC H5Itest.lo +#11 449.7 CC H5L.lo +#11 450.2 CC H5Lexternal.lo +#11 450.4 CC H5make_libsettings.o +#11 450.4 CCLD H5make_libsettings +#11 450.5 LD_LIBRARY_PATH="$LD_LIBRARY_PATH`echo -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro | \ +#11 450.5 sed -e 's/-L/:/g' -e 's/ //g'`" \ +#11 450.5 ./H5make_libsettings > H5lib_settings.c || \ +#11 450.5 (test $HDF5_Make_Ignore && echo "*** Error ignored") || \ +#11 450.5 (rm -f H5lib_settings.c ; exit 1) +#11 450.5 CC H5lib_settings.lo +#11 450.6 H5lib_settings.c:31:6: warning: size of 'H5libhdf5_settings' 6334 bytes exceeds maximum object size 2560 [-Wlarger-than=] +#11 450.6 31 | char H5libhdf5_settings[]= +#11 450.6 | ^~~~~~~~~~~~~~~~~~ +#11 450.6 CC H5MF.lo +#11 451.0 CC H5MFaggr.lo +#11 451.1 CC H5MFdbg.lo +#11 451.2 H5MFdbg.c: In function 'H5MF__sects_debug_cb': +#11 451.2 H5MFdbg.c:134:5: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 451.2 134 | if(H5FS_sect_debug(udata->fspace, _sect, udata->stream, udata->indent + 3, MAX(0, udata->fwidth - 3)) < 0) +#11 451.2 | ^~ +#11 451.2 CC H5MFsection.lo +#11 451.4 CC H5MM.lo +#11 451.5 CC H5MP.lo +#11 451.6 CC H5MPtest.lo +#11 451.6 CC H5O.lo +#11 451.9 CC H5Odeprec.lo +#11 452.1 CC H5Oainfo.lo +#11 452.2 CC H5Oalloc.lo +#11 452.6 CC H5Oattr.lo +#11 452.7 H5Oattr.c: In function 'H5O__attr_debug': +#11 452.7 H5Oattr.c:882:13: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 452.7 882 | (unsigned long)(mesg->shared->dt_size)); +#11 452.7 | ^ +#11 452.7 H5Oattr.c:883:5: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 452.7 883 | if((H5O_MSG_DTYPE->debug)(f, mesg->shared->dt, stream, indent + 3, MAX(0, fwidth - 3)) < 0) +#11 452.7 | ^~ +#11 452.7 H5Oattr.c:889:13: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 452.7 889 | (unsigned long)(mesg->shared->ds_size)); +#11 452.7 | ^ +#11 452.7 H5Oattr.c:890:5: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 452.7 890 | if(H5S_debug(f, mesg->shared->ds, stream, indent + 3, MAX(0, fwidth - 3)) < 0) +#11 452.7 | ^~ +#11 452.8 CC H5Oattribute.lo +#11 453.1 CC H5Obogus.lo +#11 453.1 CC H5Obtreek.lo +#11 453.2 CC H5Ocache.lo +#11 453.4 CC H5Ocache_image.lo +#11 453.6 CC H5Ochunk.lo +#11 453.7 CC H5Ocont.lo +#11 453.8 CC H5Ocopy.lo +#11 454.1 CC H5Odbg.lo +#11 454.2 H5Odbg.c: In function 'H5O_debug_real': +#11 454.2 H5Odbg.c:385:19: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.2 385 | oh->chunk[i].addr); +#11 454.2 | ^~ +#11 454.2 H5Odbg.c:402:19: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.2 402 | chunk_size); +#11 454.2 | ^~~~~~~~~~ +#11 454.2 H5Odbg.c:406:19: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.2 406 | oh->chunk[i].gap); +#11 454.2 | ^~ +#11 454.2 H5Odbg.c:437:19: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.2 437 | sequence[oh->mesg[i].type->id]++); +#11 454.2 | ^~~~~~~~ +#11 454.2 H5Odbg.c:440:20: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.2 440 | oh->mesg[i].dirty); +#11 454.2 | ^~ +#11 454.2 H5Odbg.c:442:20: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.2 442 | "Message flags:"); +#11 454.2 | ^~~~~~~~~~~~~~~~ +#11 454.2 H5Odbg.c:488:28: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.2 488 | oh->mesg[i].flags & ~H5O_MSG_FLAG_BITS); +#11 454.2 | ^~ +#11 454.2 H5Odbg.c:495:19: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.2 495 | oh->mesg[i].chunkno); +#11 454.2 | ^~ +#11 454.2 H5Odbg.c:502:19: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.2 502 | oh->mesg[i].raw_size); +#11 454.2 | ^~ +#11 454.2 H5Odbg.c:517:19: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.2 517 | "Message Information:"); +#11 454.2 | ^~~~~~~~~~~~~~~~~~~~~~ +#11 454.2 H5Odbg.c:519:13: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.2 519 | (debug_type->debug)(f, oh->mesg[i].native, stream, indent + 6, MAX(0, fwidth - 6)); +#11 454.2 | ^ +#11 454.3 CC H5Odrvinfo.lo +#11 454.4 CC H5Odtype.lo +#11 454.4 H5Odtype.c: In function 'H5O__dtype_debug': +#11 454.4 H5Odtype.c:1748:17: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.4 1748 | (unsigned long)(dt->shared->u.compnd.memb[i].offset)); +#11 454.4 | ^ +#11 454.4 H5Odtype.c:1750:21: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.4 1750 | indent + 3, MAX(0, fwidth - 3)); +#11 454.4 | ^~~~~~ +#11 454.4 H5Odtype.c:1755:9: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.4 1755 | H5O__dtype_debug(f, dt->shared->parent, stream, indent+3, MAX(0, fwidth-3)); +#11 454.4 | ^~~~~~~~~~~~~~~~ +#11 454.4 H5Odtype.c:1985:9: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.4 1985 | H5O__dtype_debug(f, dt->shared->parent, stream, indent + 3, MAX(0, fwidth - 3)); +#11 454.4 | ^~~~~~~~~~~~~~~~ +#11 454.7 CC H5Oefl.lo +#11 454.8 H5Oefl.c: In function 'H5O__efl_debug': +#11 454.8 H5Oefl.c:560:19: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.8 560 | mesg->slot[u].name); +#11 454.8 | ^~~~ +#11 454.8 H5Oefl.c:564:19: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.8 564 | (unsigned long)(mesg->slot[u].name_offset)); +#11 454.8 | ^ +#11 454.8 H5Oefl.c:568:20: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.8 568 | (unsigned long)(mesg->slot[u].offset)); +#11 454.8 | ^ +#11 454.8 H5Oefl.c:572:20: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 454.8 572 | (unsigned long)(mesg->slot[u].size)); +#11 454.8 | ^ +#11 454.8 CC H5Ofill.lo +#11 454.9 In file included from H5Cprivate.h:35, +#11 454.9 from H5ACprivate.h:33, +#11 454.9 from H5Oprivate.h:41, +#11 454.9 from H5Dprivate.h:25, +#11 454.9 from H5Ofill.c:25: +#11 454.9 H5Ofill.c: In function 'H5O_fill_new_decode': +#11 454.9 H5Fprivate.h:168:71: warning: this condition has identical branches [-Wduplicated-branches] +#11 454.9 168 | ((*(p) & (unsigned)0x80) ? (unsigned)(~0xffffffff) : (unsigned)0x0))); (p)++; \ +#11 454.9 | ^ +#11 454.9 H5Ofill.c:228:13: note: in expansion of macro 'INT32DECODE' +#11 454.9 228 | INT32DECODE(p, fill->size); +#11 454.9 | ^~~~~~~~~~~ +#11 455.1 CC H5Oflush.lo +#11 455.2 CC H5Ofsinfo.lo +#11 455.3 H5Ofsinfo.c: In function 'H5O_fsinfo_decode': +#11 455.3 H5Ofsinfo.c:130:35: warning: 'threshold' may be used uninitialized in this function [-Wmaybe-uninitialized] +#11 455.3 130 | fsinfo->threshold = threshold; +#11 455.3 | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~ +#11 455.3 CC H5Oginfo.lo +#11 455.4 CC H5Oint.lo +#11 455.8 CC H5Olayout.lo +#11 455.9 H5Olayout.c: In function 'H5O__layout_decode': +#11 455.9 H5Olayout.c:417:90: warning: 'tmp_hsize' may be used uninitialized in this function [-Wmaybe-uninitialized] +#11 455.9 417 | if(NULL == (mesg->storage.u.virt.list = (H5O_storage_virtual_ent_t *)H5MM_calloc((size_t)tmp_hsize * sizeof(H5O_storage_virtual_ent_t)))) +#11 455.9 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 456.0 CC H5Olinfo.lo +#11 456.1 CC H5Olink.lo +#11 456.3 CC H5Omessage.lo +#11 456.4 H5Omessage.c: In function 'H5O_msg_reset_share': +#11 456.4 H5Omessage.c:1669:28: warning: variable 'type' set but not used [-Wunused-but-set-variable] +#11 456.4 1669 | const H5O_msg_class_t *type; /* Actual H5O class type for the ID */ +#11 456.4 | ^~~~ +#11 456.5 In file included from H5Omessage.c:41: +#11 456.5 H5Omessage.c: In function 'H5O_msg_size_f': +#11 456.5 H5Opkg.h:122:11: warning: assuming signed overflow does not occur when reducing constant in comparison [-Wstrict-overflow] +#11 456.5 122 | (((V) == H5O_VERSION_1) \ +#11 456.5 | ~~~~~^~~~~~~~~~~~~~~~~ +#11 456.5 H5Opkg.h:139:15: note: in expansion of macro 'H5O_SIZEOF_MSGHDR_VERS' +#11 456.5 139 | (unsigned)H5O_SIZEOF_MSGHDR_VERS(MAX((H5F_STORE_MSG_CRT_IDX(F) ? H5O_VERSION_LATEST : H5O_VERSION_1), (uint8_t)H5O_obj_ver_bounds[H5F_LOW_BOUND(F)]), (C)) +#11 456.5 | ^~~~~~~~~~~~~~~~~~~~~~ +#11 456.5 H5Omessage.c:1412:26: note: in expansion of macro 'H5O_SIZEOF_MSGHDR_F' +#11 456.5 1412 | ret_value += (size_t)H5O_SIZEOF_MSGHDR_F(f, +#11 456.5 | ^~~~~~~~~~~~~~~~~~~ +#11 456.6 CC H5Omtime.lo +#11 456.7 CC H5Oname.lo +#11 456.8 CC H5Onull.lo +#11 456.9 CC H5Opline.lo +#11 457.0 H5Opline.c: In function 'H5O__pline_debug': +#11 457.0 H5Opline.c:669:13: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 457.0 669 | (unsigned)(pline->filter[i].id)); +#11 457.0 | ^ +#11 457.0 H5Opline.c:673:17: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 457.0 673 | pline->filter[i].name); +#11 457.0 | ^~~~~ +#11 457.0 H5Opline.c:676:17: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 457.0 676 | "Filter name:"); +#11 457.0 | ^~~~~~~~~~~~~~ +#11 457.0 H5Opline.c:679:13: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 457.0 679 | pline->filter[i].flags); +#11 457.0 | ^~~~~ +#11 457.0 H5Opline.c:682:13: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 457.0 682 | pline->filter[i].cd_nelmts); +#11 457.0 | ^~~~~ +#11 457.0 H5Opline.c:691:17: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 457.0 691 | pline->filter[i].cd_values[j]); +#11 457.0 | ^~~~~ +#11 457.0 CC H5Orefcount.lo +#11 457.1 CC H5Osdspace.lo +#11 457.3 CC H5Oshared.lo +#11 457.5 CC H5Oshmesg.lo +#11 457.6 CC H5Ostab.lo +#11 457.7 CC H5Otest.lo +#11 457.8 CC H5Ounknown.lo +#11 457.9 CC H5P.lo +#11 458.2 CC H5Pacpl.lo +#11 458.3 CC H5Pdapl.lo +#11 458.5 CC H5Pdcpl.lo +#11 459.1 CC H5Pdeprec.lo +#11 459.2 CC H5Pdxpl.lo +#11 459.5 CC H5Pencdec.lo +#11 459.6 CC H5Pfapl.lo +#11 459.7 In file included from H5Cprivate.h:35, +#11 459.7 from H5ACprivate.h:33, +#11 459.7 from H5Pfapl.c:34: +#11 459.7 H5Pfapl.c: In function 'H5P__facc_cache_image_config_dec': +#11 459.7 H5Fprivate.h:168:71: warning: this condition has identical branches [-Wduplicated-branches] +#11 459.7 168 | ((*(p) & (unsigned)0x80) ? (unsigned)(~0xffffffff) : (unsigned)0x0))); (p)++; \ +#11 459.7 | ^ +#11 459.7 H5Pfapl.c:3073:5: note: in expansion of macro 'INT32DECODE' +#11 459.7 3073 | INT32DECODE(*pp, config->version); +#11 459.7 | ^~~~~~~~~~~ +#11 459.7 H5Fprivate.h:168:71: warning: this condition has identical branches [-Wduplicated-branches] +#11 459.7 168 | ((*(p) & (unsigned)0x80) ? (unsigned)(~0xffffffff) : (unsigned)0x0))); (p)++; \ +#11 459.7 | ^ +#11 459.7 H5Pfapl.c:3079:5: note: in expansion of macro 'INT32DECODE' +#11 459.7 3079 | INT32DECODE(*pp, config->entry_ageout); +#11 459.7 | ^~~~~~~~~~~ +#11 459.7 H5Pfapl.c: In function 'H5P__facc_cache_config_dec': +#11 459.7 H5Fprivate.h:168:71: warning: this condition has identical branches [-Wduplicated-branches] +#11 459.7 168 | ((*(p) & (unsigned)0x80) ? (unsigned)(~0xffffffff) : (unsigned)0x0))); (p)++; \ +#11 459.7 | ^ +#11 459.7 H5Pfapl.c:3603:5: note: in expansion of macro 'INT32DECODE' +#11 459.7 3603 | INT32DECODE(*pp, config->version); +#11 459.7 | ^~~~~~~~~~~ +#11 459.7 H5Fprivate.h:168:71: warning: this condition has identical branches [-Wduplicated-branches] +#11 459.7 168 | ((*(p) & (unsigned)0x80) ? (unsigned)(~0xffffffff) : (unsigned)0x0))); (p)++; \ +#11 459.7 | ^ +#11 459.7 H5Pfapl.c:3677:5: note: in expansion of macro 'INT32DECODE' +#11 459.7 3677 | INT32DECODE(*pp, config->epochs_before_eviction); +#11 459.7 | ^~~~~~~~~~~ +#11 459.7 H5Fprivate.h:168:71: warning: this condition has identical branches [-Wduplicated-branches] +#11 459.7 168 | ((*(p) & (unsigned)0x80) ? (unsigned)(~0xffffffff) : (unsigned)0x0))); (p)++; \ +#11 459.7 | ^ +#11 459.7 H5Pfapl.c:3687:5: note: in expansion of macro 'INT32DECODE' +#11 459.7 3687 | INT32DECODE(*pp, config->metadata_write_strategy); +#11 459.7 | ^~~~~~~~~~~ +#11 460.3 CC H5Pfcpl.lo +#11 460.6 CC H5Pfmpl.lo +#11 460.7 CC H5Pgcpl.lo +#11 460.8 CC H5Pint.lo +#11 461.2 CC H5Plapl.lo +#11 461.4 CC H5Plcpl.lo +#11 461.5 CC H5Pocpl.lo +#11 461.6 In file included from H5Cprivate.h:35, +#11 461.6 from H5ACprivate.h:33, +#11 461.6 from H5Oprivate.h:41, +#11 461.6 from H5Opkg.h:22, +#11 461.6 from H5Pocpl.c:40: +#11 461.6 H5Pocpl.c: In function 'H5P__ocrt_pipeline_dec': +#11 461.6 H5Fprivate.h:168:71: warning: this condition has identical branches [-Wduplicated-branches] +#11 461.6 168 | ((*(p) & (unsigned)0x80) ? (unsigned)(~0xffffffff) : (unsigned)0x0))); (p)++; \ +#11 461.6 | ^ +#11 461.6 H5Pocpl.c:1517:9: note: in expansion of macro 'INT32DECODE' +#11 461.6 1517 | INT32DECODE(*pp, filter.id) +#11 461.6 | ^~~~~~~~~~~ +#11 461.9 CC H5Pocpypl.lo +#11 462.0 CC H5Pstrcpl.lo +#11 462.1 CC H5Ptest.lo +#11 462.2 CC H5PB.lo +#11 462.5 CC H5PL.lo +#11 463.1 CC H5PLint.lo +#11 463.6 CC H5PLpath.lo +#11 464.1 CC H5PLplugin_cache.lo +#11 464.5 CC H5R.lo +#11 465.0 CC H5Rint.lo +#11 465.6 CC H5Rdeprec.lo +#11 465.9 CC H5UC.lo +#11 466.2 CC H5RS.lo +#11 466.3 CC H5S.lo +#11 466.7 CC H5Sall.lo +#11 466.7 H5Sall.c: In function 'H5S__all_shape_same': +#11 466.7 H5Sall.c:1226:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 466.7 1226 | } /* end H5Sselect_all() */ +#11 466.7 | ^ +#11 466.7 H5Sall.c:941:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 466.7 941 | H5S__all_shape_same(const H5S_t *space1, const H5S_t *space2) +#11 466.7 | ^~~~~~~~~~~~~~~~~~~ +#11 466.7 H5Sall.c:941:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 466.7 H5Sall.c:941:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 466.8 CC H5Sdbg.lo +#11 466.9 H5Sdbg.c: In function 'H5S_debug': +#11 466.9 H5Sdbg.c:110:13: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 466.9 110 | H5O_debug_id(H5O_SDSPACE_ID, f, &(mesg->extent), stream, indent + 3, MAX(0, fwidth - 3)); +#11 466.9 | ^~~~~~~~~~~~ +#11 466.9 CC H5Shyper.lo +#11 467.0 H5Shyper.c:3531:1: warning: 'H5S__hyper_get_enc_size_real' defined but not used [-Wunused-function] +#11 467.0 3531 | H5S__hyper_get_enc_size_real(hsize_t max_size) +#11 467.0 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 467.0 H5Shyper.c: In function 'H5S__hyper_iter_coords': +#11 467.0 H5Shyper.c:12136:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 467.0 12136 | } /* end H5Sget_regular_hyperslab() */ +#11 467.0 | ^ +#11 467.0 H5Shyper.c:12136:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 467.0 H5Shyper.c: In function 'H5S__hyper_iter_init': +#11 467.0 H5Shyper.c:12136:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 467.0 H5Shyper.c:12136:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 467.0 H5Shyper.c: In function 'H5S__hyper_shape_same': +#11 467.0 H5Shyper.c:12136:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 467.1 H5Shyper.c: In function 'H5S__hyper_iter_get_seq_list': +#11 467.1 H5Shyper.c:1720:42: warning: potential null pointer dereference [-Wnull-dereference] +#11 467.1 1720 | abs_arr[fast_dim] = curr_span->low + span_elmts; +#11 467.1 | ~~~~~~~~~^~~~~ +#11 467.1 H5Shyper.c:1723:46: warning: potential null pointer dereference [-Wnull-dereference] +#11 467.1 1723 | if(abs_arr[fast_dim] <= curr_span->high) { +#11 467.1 | ~~~~~~~~~^~~~~~ +#11 467.2 H5Shyper.c: In function 'H5S__hyper_iter_coords': +#11 467.2 H5Shyper.c:810:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 467.2 810 | H5S__hyper_iter_coords(const H5S_sel_iter_t *iter, hsize_t *coords) +#11 467.2 | ^~~~~~~~~~~~~~~~~~~~~~ +#11 467.2 H5Shyper.c:810:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 467.3 H5Shyper.c: In function 'H5S__hyper_project_simple.part.0': +#11 467.3 H5Shyper.c:6467:47: warning: potential null pointer dereference [-Wnull-dereference] +#11 467.3 6467 | new_space->select.sel_info.hslab->span_lst->count++; +#11 467.3 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ +#11 467.3 H5Shyper.c:6467:54: warning: potential null pointer dereference [-Wnull-dereference] +#11 467.3 6467 | new_space->select.sel_info.hslab->span_lst->count++; +#11 467.3 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +#11 467.3 H5Shyper.c:6467:47: warning: potential null pointer dereference [-Wnull-dereference] +#11 467.3 6467 | new_space->select.sel_info.hslab->span_lst->count++; +#11 467.3 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~ +#11 467.3 H5Shyper.c:6467:54: warning: potential null pointer dereference [-Wnull-dereference] +#11 467.3 6467 | new_space->select.sel_info.hslab->span_lst->count++; +#11 467.3 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ +#11 467.3 H5Shyper.c:6558:21: warning: potential null pointer dereference [-Wnull-dereference] +#11 467.3 6558 | prev_span->down = base_space->select.sel_info.hslab->span_lst; +#11 467.3 | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 467.6 H5Shyper.c: In function 'H5S__hyper_iter_init': +#11 467.6 H5Shyper.c:575:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 467.6 575 | H5S__hyper_iter_init(const H5S_t *space, H5S_sel_iter_t *iter) +#11 467.6 | ^~~~~~~~~~~~~~~~~~~~ +#11 467.6 H5Shyper.c:575:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 467.7 H5Shyper.c: In function 'H5S__hyper_shape_same': +#11 467.7 H5Shyper.c:5424:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 467.7 5424 | H5S__hyper_shape_same(const H5S_t *space1, const H5S_t *space2) +#11 467.7 | ^~~~~~~~~~~~~~~~~~~~~ +#11 467.7 H5Shyper.c:5424:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 467.7 H5Shyper.c:5424:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 467.7 H5Shyper.c: In function 'H5S__get_select_hyper_blocklist': +#11 467.7 H5Shyper.c:4530:40: warning: assuming signed overflow does not occur when simplifying range test [-Wstrict-overflow] +#11 467.7 4530 | while(temp_dim >= 0 && !done) { +#11 467.7 | ^~~~~ +#11 467.7 H5Shyper.c: In function 'H5S__hyper_serialize': +#11 467.7 H5Shyper.c:3992:53: warning: assuming signed overflow does not occur when simplifying range test [-Wstrict-overflow] +#11 467.7 3992 | while(temp_dim >= 0 && complete == FALSE) { +#11 468.0 CC H5Snone.lo +#11 468.1 CC H5Spoint.lo +#11 468.2 H5Spoint.c: In function 'H5S__point_shape_same': +#11 468.2 H5Spoint.c:2277:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 468.2 2277 | } /* end H5Sselect_elements() */ +#11 468.2 | ^ +#11 468.2 H5Spoint.c:2277:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 468.2 H5Spoint.c: In function 'H5S__point_offset': +#11 468.2 H5Spoint.c:2277:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 468.3 H5Spoint.c:1550:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 468.3 1550 | H5S__point_offset(const H5S_t *space, hsize_t *offset) +#11 468.3 | ^~~~~~~~~~~~~~~~~ +#11 468.3 H5Spoint.c:1550:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 468.3 H5Spoint.c:1550:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 468.4 CC H5Sselect.lo +#11 468.5 H5Sselect.c: In function 'H5S_select_shape_same': +#11 468.5 H5Sselect.c:3010:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 468.5 3010 | } /* end H5S_sel_iter_close() */ +#11 468.5 | ^ +#11 468.6 H5Sselect.c:1786:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 468.6 1786 | H5S_select_shape_same(const H5S_t *space1, const H5S_t *space2) +#11 468.6 | ^~~~~~~~~~~~~~~~~~~~~ +#11 468.6 H5Sselect.c:1786:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 468.6 H5Sselect.c:1786:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 468.7 CC H5Stest.lo +#11 468.9 CC H5SL.lo +#11 469.0 H5SL.c: In function 'H5SL_remove': +#11 469.0 H5SL.c:2570:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 469.0 2570 | } /* end H5SL_close() */ +#11 469.0 | ^ +#11 469.0 H5SL.c:2570:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 469.0 H5SL.c:2570:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 469.0 H5SL.c:2570:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 469.0 H5SL.c:2570:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 469.0 H5SL.c:2570:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 469.0 H5SL.c:2570:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 469.0 H5SL.c:2570:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 469.0 H5SL.c:2570:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 469.7 In file included from H5SL.c:64: +#11 469.7 H5SL.c: In function 'H5SL_search': +#11 469.7 H5private.h:2437:11: warning: 'ret_value' may be used uninitialized in this function [-Wmaybe-uninitialized] +#11 469.7 2437 | return(ret_value); \ +#11 469.7 | ^ +#11 469.7 H5SL.c:1397:11: note: 'ret_value' was declared here +#11 469.7 1397 | void *ret_value; /* Return value */ +#11 469.7 | ^~~~~~~~~ +#11 469.8 In file included from H5SL.c:64: +#11 469.8 H5SL.c: In function 'H5SL_find': +#11 469.8 H5private.h:2437:11: warning: 'ret_value' may be used uninitialized in this function [-Wmaybe-uninitialized] +#11 469.8 2437 | return(ret_value); \ +#11 469.8 | ^ +#11 469.8 H5SL.c:1698:18: note: 'ret_value' was declared here +#11 469.8 1698 | H5SL_node_t *ret_value; /* Return value */ +#11 469.8 | ^~~~~~~~~ +#11 470.0 CC H5SM.lo +#11 470.4 CC H5SMbtree2.lo +#11 470.5 CC H5SMcache.lo +#11 470.6 CC H5SMmessage.lo +#11 470.7 CC H5SMtest.lo +#11 470.8 CC H5ST.lo +#11 470.9 CC H5T.lo +#11 471.0 H5T.c: In function 'H5T_nameof': +#11 471.0 H5T.c:5246:23: warning: assignment discards 'const' qualifier from pointer target type [-Wdiscarded-qualifiers] +#11 471.0 5246 | ret_value = &(dt->path); +#11 471.0 | ^ +#11 471.1 H5T.c: In function 'H5T_cmp': +#11 471.1 H5T.c:5950:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.1 5950 | } /* end H5T_patch_vlen_file() */ +#11 471.1 | ^ +#11 471.1 H5T.c:5950:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.1 H5T.c:5950:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.1 H5T.c:5950:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.1 H5T.c:5950:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.1 H5T.c:5950:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.1 H5T.c:5950:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.1 H5T.c:5950:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.1 H5T.c: In function 'H5T__path_find_real': +#11 471.1 H5T.c:5950:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.1 H5T.c: In function 'H5T__unregister': +#11 471.1 H5T.c:5950:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.1 H5T.c:5950:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 H5T.c: In function 'H5T_cmp': +#11 471.5 H5T.c:4195:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 4195 | H5T_cmp(const H5T_t *dt1, const H5T_t *dt2, hbool_t superset) +#11 471.5 | ^~~~~~~ +#11 471.5 H5T.c:4195:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 H5T.c:4195:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 H5T.c:4195:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 H5T.c:4195:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 H5T.c:4195:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 H5T.c:4195:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 H5T.c:4195:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 H5T.c:4195:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 H5T.c:4195:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 H5T.c:4195:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 H5T.c:4195:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 H5T.c:4356:15: warning: assuming signed overflow does not occur when simplifying range test [-Wstrict-overflow] +#11 471.5 4356 | if(dt2->shared->u.enumer.nmembs > 1) { +#11 471.5 | ^ +#11 471.5 H5T.c:4339:15: warning: assuming signed overflow does not occur when simplifying range test [-Wstrict-overflow] +#11 471.5 4339 | if(dt1->shared->u.enumer.nmembs > 1) { +#11 471.5 | ^ +#11 471.5 H5T.c:4195:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 4195 | H5T_cmp(const H5T_t *dt1, const H5T_t *dt2, hbool_t superset) +#11 471.5 | ^~~~~~~ +#11 471.5 H5T.c:4195:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 H5T.c:4256:89: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 4256 | for(i = (int) dt1->shared->u.compnd.nmembs - 1, swapped = TRUE; swapped && i >= 0; --i) { +#11 471.5 | ~~~~~~~~^~~~~~~~~ +#11 471.5 H5T.c:4268:89: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 4268 | for(i = (int) dt2->shared->u.compnd.nmembs - 1, swapped = TRUE; swapped && i >= 0; --i) { +#11 471.5 | ~~~~~~~~^~~~~~~~~ +#11 471.5 H5T.c: In function 'H5T__path_find_real': +#11 471.5 H5T.c:4714:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 4714 | H5T__path_find_real(const H5T_t *src, const H5T_t *dst, const char *name, +#11 471.5 | ^~~~~~~~~~~~~~~~~~~ +#11 471.5 H5T.c:4714:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.5 H5T.c:4714:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.6 H5T.c: In function 'H5Tunregister': +#11 471.6 H5T.c:2651:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.6 2651 | H5Tunregister(H5T_pers_t pers, const char *name, hid_t src_id, hid_t dst_id, +#11 471.6 | ^~~~~~~~~~~~~ +#11 471.6 H5T.c:2651:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.6 H5T.c:2651:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.6 H5T.c:2651:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.6 H5T.c:2651:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.6 H5T.c:2651:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 471.8 CC H5Tarray.lo +#11 471.9 CC H5Tbit.lo +#11 472.1 CC H5Tcommit.lo +#11 472.3 CC H5Tcompound.lo +#11 472.4 CC H5Tconv.lo +#11 472.5 H5Tconv.c: In function 'H5T_conv_struct_free': +#11 472.5 H5Tconv.c:1849:17: warning: variable 'status' set but not used [-Wunused-but-set-variable] +#11 472.5 1849 | int status; +#11 472.5 | ^~~~~~ +#11 472.7 H5Tconv.c: In function 'H5T__conv_struct': +#11 472.7 H5Tconv.c:9317:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 472.7 9317 | } +#11 472.7 | ^ +#11 472.7 H5Tconv.c: In function 'H5T__conv_struct_opt': +#11 472.7 H5Tconv.c:9317:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 472.7 H5Tconv.c:9317:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 473.3 H5Tconv.c: In function 'H5T__conv_struct': +#11 473.3 H5Tconv.c:2124:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 473.3 2124 | H5T__conv_struct(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, size_t nelmts, +#11 473.3 | ^~~~~~~~~~~~~~~~ +#11 473.3 H5Tconv.c:2124:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 473.3 H5Tconv.c:2124:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 473.3 H5Tconv.c: In function 'H5T__conv_struct_opt': +#11 473.3 H5Tconv.c:2351:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 473.3 2351 | H5T__conv_struct_opt(hid_t src_id, hid_t dst_id, H5T_cdata_t *cdata, +#11 473.3 | ^~~~~~~~~~~~~~~~~~~~ +#11 473.3 H5Tconv.c:2351:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 473.3 H5Tconv.c:2351:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 473.3 H5Tconv.c:2351:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 473.3 H5Tconv.c:2351:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 473.3 H5Tconv.c:2351:1: warning: assuming signed overflow does not occur when changing X +- C1 cmp C2 to X cmp C2 -+ C1 [-Wstrict-overflow] +#11 478.5 CC H5Tcset.lo +#11 478.6 CC H5Tdbg.lo +#11 478.7 CC H5Tdeprec.lo +#11 478.8 CC H5Tenum.lo +#11 478.9 CC H5Tfields.lo +#11 479.0 CC H5Tfixed.lo +#11 479.1 CC H5Tfloat.lo +#11 479.3 CC H5detect.o +#11 479.9 CCLD H5detect +#11 480.0 LD_LIBRARY_PATH="$LD_LIBRARY_PATH`echo -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro | \ +#11 480.0 sed -e 's/-L/:/g' -e 's/ //g'`" \ +#11 480.0 ./H5detect > H5Tinit.c || \ +#11 480.0 (test $HDF5_Make_Ignore && echo "*** Error ignored") || \ +#11 480.0 (rm -f H5Tinit.c ; exit 1) +#11 480.0 CC H5Tinit.lo +#11 480.2 CC H5Tnative.lo +#11 480.4 CC H5Toffset.lo +#11 480.5 CC H5Toh.lo +#11 480.6 CC H5Topaque.lo +#11 480.7 CC H5Torder.lo +#11 480.8 CC H5Tpad.lo +#11 480.9 CC H5Tprecis.lo +#11 481.1 CC H5Tstrpad.lo +#11 481.2 CC H5Tvisit.lo +#11 481.3 CC H5Tvlen.lo +#11 481.4 CC H5TS.lo +#11 481.5 CC H5VM.lo +#11 481.7 CC H5WB.lo +#11 481.8 CC H5Z.lo +#11 482.0 CC H5Zdeflate.lo +#11 482.1 CC H5Zfletcher32.lo +#11 482.2 CC H5Znbit.lo +#11 482.4 CC H5Zshuffle.lo +#11 482.5 CC H5Zscaleoffset.lo +#11 483.0 CC H5Zszip.lo +#11 483.1 CC H5Ztrans.lo +#11 483.6 CC H5FDros3.lo +#11 483.7 CC H5FDs3comms.lo +#11 484.1 CCLD libhdf5.la +#11 484.5 make[2]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/src' +#11 484.5 make[1]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/src' +#11 484.5 make[1]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/c++' +#11 484.5 make[2]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/c++' +#11 484.5 make[2]: Nothing to be done for 'build-lib'. +#11 484.5 make[2]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/c++' +#11 484.5 + cd src +#11 484.5 + make lib +#11 484.5 make[2]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/c++/src' +#11 484.5 make[3]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/c++/src' +#11 484.5 CXX H5Exception.lo +#11 484.5 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 484.6 In file included from ../../src/hdf5.h:26, +#11 484.6 from H5Include.h:15, +#11 484.6 from H5Exception.cpp:16: +#11 484.6 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 484.6 27 | #define H5E_DEFAULT (hid_t)0 +#11 484.6 | ^ +#11 484.6 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 484.6 72 | hid_t err_stack = H5E_DEFAULT); +#11 484.6 | ^~~~~~~~~~~ +#11 484.6 H5Exception.cpp: In static member function 'static void H5::Exception::setAutoPrint(herr_t (*&)(hid_t, void*), void*)': +#11 484.6 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 484.6 27 | #define H5E_DEFAULT (hid_t)0 +#11 484.6 | ^ +#11 484.6 H5Exception.cpp:146:37: note: in expansion of macro 'H5E_DEFAULT' +#11 484.6 146 | herr_t ret_value = H5Eset_auto2(H5E_DEFAULT, func, client_data); +#11 484.6 | ^~~~~~~~~~~ +#11 484.6 H5Exception.cpp: In static member function 'static void H5::Exception::dontPrint()': +#11 484.6 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 484.6 27 | #define H5E_DEFAULT (hid_t)0 +#11 484.6 | ^ +#11 484.6 H5Exception.cpp:160:37: note: in expansion of macro 'H5E_DEFAULT' +#11 484.6 160 | herr_t ret_value = H5Eset_auto2(H5E_DEFAULT, NULL, NULL); +#11 484.6 | ^~~~~~~~~~~ +#11 484.6 H5Exception.cpp: In static member function 'static void H5::Exception::getAutoPrint(herr_t (*&)(hid_t, void*), void**)': +#11 484.6 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 484.6 27 | #define H5E_DEFAULT (hid_t)0 +#11 484.6 | ^ +#11 484.6 H5Exception.cpp:179:37: note: in expansion of macro 'H5E_DEFAULT' +#11 484.6 179 | herr_t ret_value = H5Eget_auto2(H5E_DEFAULT, &func, client_data); +#11 484.6 | ^~~~~~~~~~~ +#11 484.6 H5Exception.cpp: In static member function 'static void H5::Exception::clearErrorStack()': +#11 484.6 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 484.6 27 | #define H5E_DEFAULT (hid_t)0 +#11 484.6 | ^ +#11 484.6 H5Exception.cpp:195:34: note: in expansion of macro 'H5E_DEFAULT' +#11 484.6 195 | herr_t ret_value = H5Eclear2(H5E_DEFAULT); +#11 484.6 | ^~~~~~~~~~~ +#11 484.6 H5Exception.cpp: In static member function 'static void H5::Exception::walkErrorStack(H5E_direction_t, H5E_walk2_t, void*)': +#11 484.6 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 484.6 27 | #define H5E_DEFAULT (hid_t)0 +#11 484.6 | ^ +#11 484.6 H5Exception.cpp:244:33: note: in expansion of macro 'H5E_DEFAULT' +#11 484.6 244 | herr_t ret_value = H5Ewalk2(H5E_DEFAULT, direction, func, client_data); +#11 484.6 | ^~~~~~~~~~~ +#11 484.7 CXX H5IdComponent.lo +#11 484.8 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 484.8 In file included from ../../src/hdf5.h:26, +#11 484.8 from H5Include.h:15, +#11 484.8 from H5IdComponent.cpp:17: +#11 484.8 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 484.8 27 | #define H5E_DEFAULT (hid_t)0 +#11 484.8 | ^ +#11 484.8 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 484.8 72 | hid_t err_stack = H5E_DEFAULT); +#11 484.8 | ^~~~~~~~~~~ +#11 484.9 CXX H5DataSpace.lo +#11 485.0 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 485.1 In file included from ../../src/hdf5.h:26, +#11 485.1 from H5Include.h:15, +#11 485.1 from H5DataSpace.cpp:21: +#11 485.1 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 485.1 27 | #define H5E_DEFAULT (hid_t)0 +#11 485.1 | ^ +#11 485.1 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 485.1 72 | hid_t err_stack = H5E_DEFAULT); +#11 485.1 | ^~~~~~~~~~~ +#11 485.1 In file included from ../../src/hdf5.h:37, +#11 485.1 from H5Include.h:15, +#11 485.1 from H5DataSpace.cpp:21: +#11 485.1 H5DataSpace.cpp: In static member function 'static H5::DataSpace* H5::DataSpace::getConstant()': +#11 485.1 ../../src/H5Spublic.h:25:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 485.1 25 | #define H5S_ALL (hid_t)0 +#11 485.1 | ^ +#11 485.1 H5DataSpace.cpp:61:30: note: in expansion of macro 'H5S_ALL' +#11 485.1 61 | ALL_ = new DataSpace(H5S_ALL); +#11 485.1 | ^~~~~~~ +#11 485.1 H5DataSpace.cpp: In constructor 'H5::DataSpace::DataSpace(H5S_class_t)': +#11 485.1 H5DataSpace.cpp:94:1: warning: 'H5::DataSpace::id' should be initialized in the member initialization list [-Weffc++] +#11 485.1 94 | DataSpace::DataSpace(H5S_class_t type) : IdComponent() +#11 485.1 | ^~~~~~~~~ +#11 485.1 H5DataSpace.cpp: In constructor 'H5::DataSpace::DataSpace(int, const hsize_t*, const hsize_t*)': +#11 485.1 H5DataSpace.cpp:112:1: warning: 'H5::DataSpace::id' should be initialized in the member initialization list [-Weffc++] +#11 485.1 112 | DataSpace::DataSpace(int rank, const hsize_t * dims, const hsize_t * maxdims) : IdComponent() +#11 485.1 | ^~~~~~~~~ +#11 485.1 In file included from ../../src/hdf5.h:37, +#11 485.1 from H5Include.h:15, +#11 485.1 from H5DataSpace.cpp:21: +#11 485.1 H5DataSpace.cpp: In member function 'void H5::DataSpace::copy(const H5::DataSpace&)': +#11 485.1 ../../src/H5Spublic.h:25:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 485.1 25 | #define H5S_ALL (hid_t)0 +#11 485.1 | ^ +#11 485.1 H5DataSpace.cpp:160:15: note: in expansion of macro 'H5S_ALL' +#11 485.1 160 | if (id != H5S_ALL) { +#11 485.1 | ^~~~~~~ +#11 485.2 CXX H5PropList.lo +#11 485.2 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 485.3 In file included from ../../src/hdf5.h:26, +#11 485.3 from H5Include.h:15, +#11 485.3 from H5PropList.cpp:23: +#11 485.3 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 485.3 27 | #define H5E_DEFAULT (hid_t)0 +#11 485.3 | ^ +#11 485.3 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 485.3 72 | hid_t err_stack = H5E_DEFAULT); +#11 485.3 | ^~~~~~~~~~~ +#11 485.3 In file included from ../../src/hdf5.h:34, +#11 485.3 from H5Include.h:15, +#11 485.3 from H5PropList.cpp:23: +#11 485.3 H5PropList.cpp: In static member function 'static H5::PropList* H5::PropList::getConstant()': +#11 485.3 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 485.3 96 | #define H5P_DEFAULT (hid_t)0 +#11 485.3 | ^ +#11 485.3 H5PropList.cpp:64:33: note: in expansion of macro 'H5P_DEFAULT' +#11 485.3 64 | DEFAULT_ = new PropList(H5P_DEFAULT); +#11 485.3 | ^~~~~~~~~~~ +#11 485.3 H5PropList.cpp: In constructor 'H5::PropList::PropList()': +#11 485.3 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 485.3 96 | #define H5P_DEFAULT (hid_t)0 +#11 485.3 | ^ +#11 485.3 H5PropList.cpp:93:42: note: in expansion of macro 'H5P_DEFAULT' +#11 485.3 93 | PropList::PropList() : IdComponent(), id(H5P_DEFAULT) {} +#11 485.3 | ^~~~~~~~~~~ +#11 485.3 H5PropList.cpp: In constructor 'H5::PropList::PropList(hid_t)': +#11 485.3 H5PropList.cpp:118:1: warning: 'H5::PropList::id' should be initialized in the member initialization list [-Weffc++] +#11 485.3 118 | PropList::PropList(const hid_t plist_id) : IdComponent() +#11 485.3 | ^~~~~~~~ +#11 485.3 In file included from ../../src/hdf5.h:34, +#11 485.3 from H5Include.h:15, +#11 485.3 from H5PropList.cpp:23: +#11 485.3 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 485.3 96 | #define H5P_DEFAULT (hid_t)0 +#11 485.3 | ^ +#11 485.3 H5PropList.cpp:121:14: note: in expansion of macro 'H5P_DEFAULT' +#11 485.3 121 | id = H5P_DEFAULT; +#11 485.3 | ^~~~~~~~~~~ +#11 485.3 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 485.3 96 | #define H5P_DEFAULT (hid_t)0 +#11 485.3 | ^ +#11 485.3 H5PropList.cpp:160:16: note: in expansion of macro 'H5P_DEFAULT' +#11 485.3 160 | id = H5P_DEFAULT; +#11 485.3 | ^~~~~~~~~~~ +#11 485.3 H5PropList.cpp: In member function 'void H5::PropList::setProperty(const char*, const char*) const': +#11 485.3 H5PropList.cpp:628:54: warning: use of old-style cast to 'const void*' [-Wold-style-cast] +#11 485.3 628 | herr_t ret_value = H5Pset(id, name, (const void*)charptr); +#11 485.3 | ^~~~~~~ +#11 485.3 | - +#11 485.3 | static_cast<- +#11 485.3 | > ( ) +#11 485.5 CXX H5Library.lo +#11 485.5 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 485.6 In file included from ../../src/hdf5.h:26, +#11 485.6 from H5Include.h:15, +#11 485.6 from H5Library.cpp:18: +#11 485.6 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 485.6 27 | #define H5E_DEFAULT (hid_t)0 +#11 485.6 | ^ +#11 485.6 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 485.6 72 | hid_t err_stack = H5E_DEFAULT); +#11 485.6 | ^~~~~~~~~~~ +#11 485.7 CXX H5FaccProp.lo +#11 485.7 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 485.8 In file included from ../../src/hdf5.h:26, +#11 485.8 from H5Include.h:15, +#11 485.8 from H5FaccProp.cpp:26: +#11 485.8 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 485.8 27 | #define H5E_DEFAULT (hid_t)0 +#11 485.8 | ^ +#11 485.8 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 485.8 72 | hid_t err_stack = H5E_DEFAULT); +#11 485.8 | ^~~~~~~~~~~ +#11 485.9 CXX H5FcreatProp.lo +#11 486.0 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 486.0 In file included from ../../src/hdf5.h:26, +#11 486.0 from H5Include.h:15, +#11 486.0 from H5FcreatProp.cpp:16: +#11 486.0 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 486.0 27 | #define H5E_DEFAULT (hid_t)0 +#11 486.0 | ^ +#11 486.0 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 486.0 72 | hid_t err_stack = H5E_DEFAULT); +#11 486.0 | ^~~~~~~~~~~ +#11 486.1 CXX H5LcreatProp.lo +#11 486.2 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 486.2 In file included from ../../src/hdf5.h:26, +#11 486.2 from H5Include.h:15, +#11 486.2 from H5LcreatProp.cpp:16: +#11 486.2 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 486.2 27 | #define H5E_DEFAULT (hid_t)0 +#11 486.2 | ^ +#11 486.2 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 486.2 72 | hid_t err_stack = H5E_DEFAULT); +#11 486.2 | ^~~~~~~~~~~ +#11 486.2 H5LcreatProp.cpp: In member function 'void H5::LinkCreatPropList::setCreateIntermediateGroup(bool) const': +#11 486.2 H5LcreatProp.cpp:116:71: warning: use of old-style cast to 'unsigned int' [-Wold-style-cast] +#11 486.2 116 | herr_t ret_value = H5Pset_create_intermediate_group(id, (unsigned)crt_intmd_group); +#11 486.2 | ^~~~~~~~~~~~~~~ +#11 486.2 | ---------- +#11 486.2 | static_cast ( ) +#11 486.2 H5LcreatProp.cpp: In member function 'bool H5::LinkCreatPropList::getCreateIntermediateGroup() const': +#11 486.2 H5LcreatProp.cpp:142:18: warning: use of old-style cast to 'bool' [-Wold-style-cast] +#11 486.2 142 | return((bool)crt_intmd_group); +#11 486.2 | ^~~~~~~~~~~~~~~ +#11 486.2 | ------ +#11 486.2 | static_cast ( ) +#11 486.3 CXX H5LaccProp.lo +#11 486.3 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 486.4 In file included from ../../src/hdf5.h:26, +#11 486.4 from H5Include.h:15, +#11 486.4 from H5LaccProp.cpp:16: +#11 486.4 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 486.4 27 | #define H5E_DEFAULT (hid_t)0 +#11 486.4 | ^ +#11 486.4 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 486.4 72 | hid_t err_stack = H5E_DEFAULT); +#11 486.4 | ^~~~~~~~~~~ +#11 486.4 CXX H5DaccProp.lo +#11 486.4 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 486.5 In file included from ../../src/hdf5.h:26, +#11 486.5 from H5Include.h:15, +#11 486.5 from H5DaccProp.cpp:16: +#11 486.5 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 486.5 27 | #define H5E_DEFAULT (hid_t)0 +#11 486.5 | ^ +#11 486.5 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 486.5 72 | hid_t err_stack = H5E_DEFAULT); +#11 486.5 | ^~~~~~~~~~~ +#11 486.5 CXX H5DxferProp.lo +#11 486.6 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 486.7 In file included from ../../src/hdf5.h:26, +#11 486.7 from H5Include.h:15, +#11 486.7 from H5DxferProp.cpp:17: +#11 486.7 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 486.7 27 | #define H5E_DEFAULT (hid_t)0 +#11 486.7 | ^ +#11 486.7 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 486.7 72 | hid_t err_stack = H5E_DEFAULT); +#11 486.7 | ^~~~~~~~~~~ +#11 486.7 H5DxferProp.cpp: In member function 'void H5::DSetMemXferPropList::setPreserve(bool) const': +#11 486.7 H5DxferProp.cpp:170:54: warning: use of old-style cast to 'hbool_t' {aka 'bool'} [-Wold-style-cast] +#11 486.7 170 | herr_t ret_value = H5Pset_preserve(id, (hbool_t) status); +#11 486.7 | ^~~~~~ +#11 486.7 | ---------------- +#11 486.7 | static_cast ( status) +#11 486.7 H5DxferProp.cpp: In member function 'std::string H5::DSetMemXferPropList::getDataTransform() const': +#11 486.7 H5DxferProp.cpp:313:63: warning: use of old-style cast to 'size_t' {aka 'long unsigned int'} [-Wold-style-cast] +#11 486.7 313 | ssize_t exp_len = H5Pget_data_transform(id, NULL, (size_t)0); +#11 486.7 | ^ +#11 486.7 | --------- +#11 486.7 | static_cast (0) +#11 486.8 CXX H5DcreatProp.lo +#11 486.8 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 486.9 In file included from ../../src/hdf5.h:26, +#11 486.9 from H5Include.h:15, +#11 486.9 from H5DcreatProp.cpp:16: +#11 486.9 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 486.9 27 | #define H5E_DEFAULT (hid_t)0 +#11 486.9 | ^ +#11 486.9 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 486.9 72 | hid_t err_stack = H5E_DEFAULT); +#11 486.9 | ^~~~~~~~~~~ +#11 487.0 CXX H5Location.lo +#11 487.0 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 487.1 In file included from ../../src/hdf5.h:26, +#11 487.1 from H5Include.h:15, +#11 487.1 from H5Location.cpp:19: +#11 487.1 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 27 | #define H5E_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 487.1 72 | hid_t err_stack = H5E_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 In file included from ../../src/hdf5.h:34, +#11 487.1 from H5Include.h:15, +#11 487.1 from H5Location.cpp:19: +#11 487.1 H5Location.cpp: In member function 'void H5::H5Location::setComment(const char*, const char*) const': +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:214:71: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 214 | herr_t ret_value = H5Oset_comment_by_name(getId(), name, comment, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 H5Location.cpp: In member function 'void H5::H5Location::setComment(const char*) const': +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:240:70: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 240 | herr_t ret_value = H5Oset_comment_by_name(getId(), ".", comment, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 H5Location.cpp: In member function 'void H5::H5Location::removeComment(const char*) const': +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:270:68: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 270 | herr_t ret_value = H5Oset_comment_by_name(getId(), name, NULL, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 H5Location.cpp: In member function 'ssize_t H5::H5Location::getComment(const char*, size_t, char*) const': +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:307:76: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 307 | comment_len = H5Oget_comment_by_name(getId(), name, comment, buf_size, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 H5Location.cpp: In member function 'std::string H5::H5Location::getComment(const char*, size_t) const': +#11 487.1 H5Location.cpp:340:79: warning: use of old-style cast to 'size_t' {aka 'long unsigned int'} [-Wold-style-cast] +#11 487.1 340 | ssize_t comment_len = H5Oget_comment_by_name(getId(), name, NULL, (size_t)0, H5P_DEFAULT); +#11 487.1 | ^ +#11 487.1 | --------- +#11 487.1 | static_cast (0) +#11 487.1 In file included from ../../src/hdf5.h:34, +#11 487.1 from H5Include.h:15, +#11 487.1 from H5Location.cpp:19: +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:340:82: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 340 | ssize_t comment_len = H5Oget_comment_by_name(getId(), name, NULL, (size_t)0, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 H5Location.cpp: In member function 'hid_t H5::H5Location::p_dereference(hid_t, const void*, H5R_type_t, const H5::PropList&, const char*)': +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:526:20: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 526 | plist_id = H5P_DEFAULT; +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 H5Location.cpp: In member function 'H5::Group H5::H5Location::createGroup(const char*, const H5::LinkCreatPropList&) const': +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:775:62: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 775 | hid_t group_id = H5Gcreate2(getId(), name, lcpl.getId(), H5P_DEFAULT, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:775:75: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 775 | hid_t group_id = H5Gcreate2(getId(), name, lcpl.getId(), H5P_DEFAULT, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 H5Location.cpp: In member function 'H5::Group H5::H5Location::createGroup(const char*, size_t) const': +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:836:48: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 836 | hid_t group_id = H5Gcreate2(getId(), name, H5P_DEFAULT, gcpl_id, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:836:70: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 836 | hid_t group_id = H5Gcreate2(getId(), name, H5P_DEFAULT, gcpl_id, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 H5Location.cpp: In member function 'H5::Group H5::H5Location::openGroup(const char*) const': +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:878:46: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 878 | hid_t group_id = H5Gopen2(getId(), name, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 In file included from ../../src/H5Opublic.h:31, +#11 487.1 from ../../src/H5Apublic.h:22, +#11 487.1 from ../../src/hdf5.h:23, +#11 487.1 from H5Include.h:15, +#11 487.1 from H5Location.cpp:19: +#11 487.1 H5Location.cpp: In member function 'void H5::H5Location::link(H5L_type_t, const char*, const char*) const': +#11 487.1 ../../src/H5Lpublic.h:41:29: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 41 | #define H5L_SAME_LOC (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:1161:60: note: in expansion of macro 'H5L_SAME_LOC' +#11 487.1 1161 | ret_value = H5Lcreate_hard(getId(), curr_name, H5L_SAME_LOC, new_name, H5P_DEFAULT, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~~ +#11 487.1 In file included from ../../src/hdf5.h:34, +#11 487.1 from H5Include.h:15, +#11 487.1 from H5Location.cpp:19: +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:1161:84: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 1161 | ret_value = H5Lcreate_hard(getId(), curr_name, H5L_SAME_LOC, new_name, H5P_DEFAULT, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:1161:97: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 1161 | ret_value = H5Lcreate_hard(getId(), curr_name, H5L_SAME_LOC, new_name, H5P_DEFAULT, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:1165:69: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 1165 | ret_value = H5Lcreate_soft(curr_name,getId(), new_name, H5P_DEFAULT, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:1165:82: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 1165 | ret_value = H5Lcreate_soft(curr_name,getId(), new_name, H5P_DEFAULT, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 In file included from ../../src/H5Opublic.h:31, +#11 487.1 from ../../src/H5Apublic.h:22, +#11 487.1 from ../../src/hdf5.h:23, +#11 487.1 from H5Include.h:15, +#11 487.1 from H5Location.cpp:19: +#11 487.1 H5Location.cpp: In member function 'void H5::H5Location::copyLink(const char*, const char*, const H5::LinkCreatPropList&, const H5::LinkAccPropList&) const': +#11 487.1 ../../src/H5Lpublic.h:41:29: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 41 | #define H5L_SAME_LOC (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:1250:44: note: in expansion of macro 'H5L_SAME_LOC' +#11 487.1 1250 | ret_value = H5Lcopy(getId(), src_name, H5L_SAME_LOC, dst_name, lcpl_id, lapl_id); +#11 487.1 | ^~~~~~~~~~~~ +#11 487.1 H5Location.cpp: In member function 'void H5::H5Location::moveLink(const char*, const char*, const H5::LinkCreatPropList&, const H5::LinkAccPropList&) const': +#11 487.1 ../../src/H5Lpublic.h:41:29: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 41 | #define H5L_SAME_LOC (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:1330:44: note: in expansion of macro 'H5L_SAME_LOC' +#11 487.1 1330 | ret_value = H5Lmove(getId(), src_name, H5L_SAME_LOC, dst_name, lcpl_id, lapl_id); +#11 487.1 | ^~~~~~~~~~~~ +#11 487.1 In file included from ../../src/hdf5.h:34, +#11 487.1 from H5Include.h:15, +#11 487.1 from H5Location.cpp:19: +#11 487.1 H5Location.cpp: In member function 'std::string H5::H5Location::getLinkval(const char*, size_t) const': +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:1641:59: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 1641 | ret_value = H5Lget_info(getId(), name, &linkinfo, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:1654:66: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 1654 | ret_value = H5Lget_val(getId(), name, value_C, val_size, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 H5Location.cpp: In member function 'std::string H5::H5Location::getObjnameByIdx(hsize_t) const': +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:1850:99: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 1850 | ssize_t name_len = H5Lget_name_by_idx(getId(), ".", H5_INDEX_NAME, H5_ITER_INC, idx, NULL, 0, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.1 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.1 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.1 | ^ +#11 487.1 H5Location.cpp:1858:102: note: in expansion of macro 'H5P_DEFAULT' +#11 487.1 1858 | name_len = H5Lget_name_by_idx(getId(), ".", H5_INDEX_NAME, H5_ITER_INC, idx, name_C, name_len+1, H5P_DEFAULT); +#11 487.1 | ^~~~~~~~~~~ +#11 487.2 H5Location.cpp: In member function 'ssize_t H5::H5Location::getObjnameByIdx(hsize_t, char*, size_t) const': +#11 487.2 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.2 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.2 | ^ +#11 487.2 H5Location.cpp:1891:102: note: in expansion of macro 'H5P_DEFAULT' +#11 487.2 1891 | ssize_t name_len = H5Lget_name_by_idx(getId(), ".", H5_INDEX_NAME, H5_ITER_INC, idx, name, size, H5P_DEFAULT); +#11 487.2 | ^~~~~~~~~~~ +#11 487.2 H5Location.cpp: In member function 'H5O_type_t H5::H5Location::childObjType(const char*) const': +#11 487.2 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.2 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.2 | ^ +#11 487.2 H5Location.cpp:1948:89: note: in expansion of macro 'H5P_DEFAULT' +#11 487.2 1948 | herr_t ret_value = H5Oget_info_by_name2(getId(), objname, &objinfo, H5O_INFO_BASIC, H5P_DEFAULT); +#11 487.2 | ^~~~~~~~~~~ +#11 487.2 H5Location.cpp: In member function 'H5O_type_t H5::H5Location::childObjType(hsize_t, H5_index_t, H5_iter_order_t, const char*) const': +#11 487.2 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.2 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.2 | ^ +#11 487.2 H5Location.cpp:2023:107: note: in expansion of macro 'H5P_DEFAULT' +#11 487.2 2023 | ret_value = H5Oget_info_by_idx2(getId(), objname, index_type, order, index, &objinfo, H5O_INFO_BASIC, H5P_DEFAULT); +#11 487.2 | ^~~~~~~~~~~ +#11 487.2 H5Location.cpp: In member function 'unsigned int H5::H5Location::childObjVersion(const char*) const': +#11 487.2 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.2 96 | #define H5P_DEFAULT (hid_t)0 +#11 487.2 | ^ +#11 487.2 H5Location.cpp:2065:87: note: in expansion of macro 'H5P_DEFAULT' +#11 487.2 2065 | herr_t ret_value = H5Oget_info_by_name2(getId(), objname, &objinfo, H5O_INFO_HDR, H5P_DEFAULT); +#11 487.2 | ^~~~~~~~~~~ +#11 487.6 CXX H5AbstractDs.lo +#11 487.7 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 487.7 In file included from ../../src/hdf5.h:26, +#11 487.7 from H5Include.h:15, +#11 487.7 from H5AbstractDs.cpp:16: +#11 487.7 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 487.7 27 | #define H5E_DEFAULT (hid_t)0 +#11 487.7 | ^ +#11 487.7 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 487.7 72 | hid_t err_stack = H5E_DEFAULT); +#11 487.7 | ^~~~~~~~~~~ +#11 487.8 CXX H5Attribute.lo +#11 487.9 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 488.0 In file included from ../../src/hdf5.h:26, +#11 488.0 from H5Include.h:15, +#11 488.0 from H5Attribute.cpp:22: +#11 488.0 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 488.0 27 | #define H5E_DEFAULT (hid_t)0 +#11 488.0 | ^ +#11 488.0 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 488.0 72 | hid_t err_stack = H5E_DEFAULT); +#11 488.0 | ^~~~~~~~~~~ +#11 488.1 CXX H5Object.lo +#11 488.2 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 488.2 In file included from ../../src/hdf5.h:26, +#11 488.2 from H5Include.h:15, +#11 488.2 from H5Object.cpp:17: +#11 488.2 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 488.2 27 | #define H5E_DEFAULT (hid_t)0 +#11 488.2 | ^ +#11 488.2 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 488.2 72 | hid_t err_stack = H5E_DEFAULT); +#11 488.2 | ^~~~~~~~~~~ +#11 488.2 H5Object.cpp:45:19: warning: no previous declaration for 'herr_t H5::userAttrOpWrpr(hid_t, const char*, const H5A_info_t*, void*)' [-Wmissing-declarations] +#11 488.2 45 | extern "C" herr_t userAttrOpWrpr(hid_t loc_id, const char *attr_name, +#11 488.2 | ^~~~~~~~~~~~~~ +#11 488.2 H5Object.cpp: In function 'herr_t H5::userAttrOpWrpr(hid_t, const char*, const H5A_info_t*, void*)': +#11 488.2 H5Object.cpp:45:40: warning: unused parameter 'loc_id' [-Wunused-parameter] +#11 488.2 45 | extern "C" herr_t userAttrOpWrpr(hid_t loc_id, const char *attr_name, +#11 488.2 | ~~~~~~^~~~~~ +#11 488.2 H5Object.cpp:46:23: warning: unused parameter 'ainfo' [-Wunused-parameter] +#11 488.2 46 | const H5A_info_t *ainfo, void *op_data) +#11 488.2 | ~~~~~~~~~~~~~~~~~~^~~~~ +#11 488.2 H5Object.cpp: At global scope: +#11 488.2 H5Object.cpp:56:19: warning: no previous declaration for 'herr_t H5::userVisitOpWrpr(hid_t, const char*, const H5O_info_t*, void*)' [-Wmissing-declarations] +#11 488.2 56 | extern "C" herr_t userVisitOpWrpr(hid_t obj_id, const char *attr_name, +#11 488.2 | ^~~~~~~~~~~~~~~ +#11 488.2 H5Object.cpp: In function 'herr_t H5::userVisitOpWrpr(hid_t, const char*, const H5O_info_t*, void*)': +#11 488.2 H5Object.cpp:56:41: warning: unused parameter 'obj_id' [-Wunused-parameter] +#11 488.2 56 | extern "C" herr_t userVisitOpWrpr(hid_t obj_id, const char *attr_name, +#11 488.2 | ~~~~~~^~~~~~ +#11 488.2 In file included from ../../src/hdf5.h:34, +#11 488.2 from H5Include.h:15, +#11 488.2 from H5Object.cpp:17: +#11 488.2 H5Object.cpp: In member function 'H5::Attribute H5::H5Object::createAttribute(const char*, const H5::DataType&, const H5::DataSpace&, const H5::PropList&) const': +#11 488.2 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 488.2 96 | #define H5P_DEFAULT (hid_t)0 +#11 488.2 | ^ +#11 488.2 H5Object.cpp:113:76: note: in expansion of macro 'H5P_DEFAULT' +#11 488.2 113 | hid_t attr_id = H5Acreate2(getId(), name, type_id, space_id, plist_id, H5P_DEFAULT); +#11 488.2 | ^~~~~~~~~~~ +#11 488.2 H5Object.cpp: In member function 'H5::Attribute H5::H5Object::openAttribute(const char*) const': +#11 488.2 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 488.2 96 | #define H5P_DEFAULT (hid_t)0 +#11 488.2 | ^ +#11 488.2 H5Object.cpp:148:44: note: in expansion of macro 'H5P_DEFAULT' +#11 488.2 148 | hid_t attr_id = H5Aopen(getId(), name, H5P_DEFAULT); +#11 488.2 | ^~~~~~~~~~~ +#11 488.2 H5Object.cpp: In member function 'H5::Attribute H5::H5Object::openAttribute(unsigned int) const': +#11 488.2 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 488.2 96 | #define H5P_DEFAULT (hid_t)0 +#11 488.2 | ^ +#11 488.2 H5Object.cpp:184:55: note: in expansion of macro 'H5P_DEFAULT' +#11 488.2 184 | H5_ITER_INC, static_cast(idx), H5P_DEFAULT, H5P_DEFAULT); +#11 488.2 | ^~~~~~~~~~~ +#11 488.2 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 488.2 96 | #define H5P_DEFAULT (hid_t)0 +#11 488.2 | ^ +#11 488.2 H5Object.cpp:184:68: note: in expansion of macro 'H5P_DEFAULT' +#11 488.2 184 | H5_ITER_INC, static_cast(idx), H5P_DEFAULT, H5P_DEFAULT); +#11 488.2 | ^~~~~~~~~~~ +#11 488.4 CXX H5OcreatProp.lo +#11 488.4 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 488.5 In file included from ../../src/hdf5.h:26, +#11 488.5 from H5Include.h:15, +#11 488.5 from H5OcreatProp.cpp:16: +#11 488.5 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 488.5 27 | #define H5E_DEFAULT (hid_t)0 +#11 488.5 | ^ +#11 488.5 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 488.5 72 | hid_t err_stack = H5E_DEFAULT); +#11 488.5 | ^~~~~~~~~~~ +#11 488.5 CXX H5DataType.lo +#11 488.6 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 488.7 In file included from ../../src/hdf5.h:26, +#11 488.7 from H5Include.h:15, +#11 488.7 from H5DataType.cpp:21: +#11 488.7 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 488.7 27 | #define H5E_DEFAULT (hid_t)0 +#11 488.7 | ^ +#11 488.7 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 488.7 72 | hid_t err_stack = H5E_DEFAULT); +#11 488.7 | ^~~~~~~~~~~ +#11 488.7 H5DataType.cpp: In constructor 'H5::DataType::DataType(H5T_class_t, size_t)': +#11 488.7 H5DataType.cpp:81:1: warning: 'H5::DataType::id' should be initialized in the member initialization list [-Weffc++] +#11 488.7 81 | DataType::DataType(const H5T_class_t type_class, size_t size) : H5Object(), encoded_buf(NULL), buf_size(0) +#11 488.7 | ^~~~~~~~ +#11 488.7 H5DataType.cpp: In constructor 'H5::DataType::DataType(const H5::H5Location&, const void*, H5R_type_t, const H5::PropList&)': +#11 488.7 H5DataType.cpp:102:1: warning: 'H5::DataType::id' should be initialized in the member initialization list [-Weffc++] +#11 488.7 102 | DataType::DataType(const H5Location& loc, const void* ref, H5R_type_t ref_type, const PropList& plist) : H5Object(), encoded_buf(NULL), buf_size(0) +#11 488.7 | ^~~~~~~~ +#11 488.7 H5DataType.cpp: In constructor 'H5::DataType::DataType(const H5::PredType&)': +#11 488.7 H5DataType.cpp:150:1: warning: 'H5::DataType::id' should be initialized in the member initialization list [-Weffc++] +#11 488.7 150 | DataType::DataType(const PredType& pred_type) : H5Object(), encoded_buf(NULL), buf_size(0) +#11 488.7 | ^~~~~~~~ +#11 488.7 H5DataType.cpp: In constructor 'H5::DataType::DataType(const H5::H5Location&, const char*)': +#11 488.7 H5DataType.cpp:172:1: warning: 'H5::DataType::id' should be initialized in the member initialization list [-Weffc++] +#11 488.7 172 | DataType::DataType(const H5Location& loc, const char *dtype_name) : H5Object(), encoded_buf(NULL), buf_size(0) +#11 488.7 | ^~~~~~~~ +#11 488.7 H5DataType.cpp: In constructor 'H5::DataType::DataType(const H5::H5Location&, const string&)': +#11 488.7 H5DataType.cpp:191:1: warning: 'H5::DataType::id' should be initialized in the member initialization list [-Weffc++] +#11 488.7 191 | DataType::DataType(const H5Location& loc, const H5std_string& dtype_name) : H5Object(), encoded_buf(NULL), buf_size(0) +#11 488.7 | ^~~~~~~~ +#11 488.7 In file included from H5DataType.cpp:39: +#11 488.7 H5DataType.cpp: In member function 'void H5::DataType::encode()': +#11 488.7 H5DataType.cpp:321:57: warning: use of old-style cast to 'size_t' {aka 'long unsigned int'} [-Wold-style-cast] +#11 488.7 321 | encoded_buf = (unsigned char *)HDcalloc((size_t)1, buf_size); +#11 488.7 | ^ +#11 488.7 ../../src/H5private.h:734:37: note: in definition of macro 'HDcalloc' +#11 488.7 734 | #define HDcalloc(N,Z) calloc(N,Z) +#11 488.7 | ^ +#11 488.7 ../../src/H5private.h:734:40: warning: use of old-style cast to 'unsigned char*' [-Wold-style-cast] +#11 488.7 734 | #define HDcalloc(N,Z) calloc(N,Z) +#11 488.7 | ^ +#11 488.7 H5DataType.cpp:321:40: note: in expansion of macro 'HDcalloc' +#11 488.7 321 | encoded_buf = (unsigned char *)HDcalloc((size_t)1, buf_size); +#11 488.7 | ^~~~~~~~ +#11 488.7 In file included from ../../src/hdf5.h:34, +#11 488.7 from H5Include.h:15, +#11 488.7 from H5DataType.cpp:21: +#11 488.7 H5DataType.cpp: In member function 'void H5::DataType::p_commit(hid_t, const char*)': +#11 488.7 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 488.7 96 | #define H5P_DEFAULT (hid_t)0 +#11 488.7 | ^ +#11 488.7 H5DataType.cpp:433:53: note: in expansion of macro 'H5P_DEFAULT' +#11 488.7 433 | herr_t ret_value = H5Tcommit2(loc_id, name, id, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); +#11 488.7 | ^~~~~~~~~~~ +#11 488.7 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 488.7 96 | #define H5P_DEFAULT (hid_t)0 +#11 488.7 | ^ +#11 488.7 H5DataType.cpp:433:66: note: in expansion of macro 'H5P_DEFAULT' +#11 488.7 433 | herr_t ret_value = H5Tcommit2(loc_id, name, id, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); +#11 488.7 | ^~~~~~~~~~~ +#11 488.7 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 488.7 96 | #define H5P_DEFAULT (hid_t)0 +#11 488.7 | ^ +#11 488.7 H5DataType.cpp:433:79: note: in expansion of macro 'H5P_DEFAULT' +#11 488.7 433 | herr_t ret_value = H5Tcommit2(loc_id, name, id, H5P_DEFAULT, H5P_DEFAULT, H5P_DEFAULT); +#11 488.7 | ^~~~~~~~~~~ +#11 488.7 H5DataType.cpp: In member function 'hid_t H5::DataType::p_opentype(const H5::H5Location&, const char*) const': +#11 488.7 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 488.7 96 | #define H5P_DEFAULT (hid_t)0 +#11 488.7 | ^ +#11 488.7 H5DataType.cpp:918:57: note: in expansion of macro 'H5P_DEFAULT' +#11 488.7 918 | hid_t ret_value = H5Topen2(loc.getId(), dtype_name, H5P_DEFAULT); +#11 488.7 | ^~~~~~~~~~~ +#11 488.8 CXX H5AtomType.lo +#11 488.9 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 488.9 In file included from ../../src/hdf5.h:26, +#11 488.9 from H5Include.h:15, +#11 488.9 from H5AtomType.cpp:16: +#11 488.9 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 488.9 27 | #define H5E_DEFAULT (hid_t)0 +#11 488.9 | ^ +#11 488.9 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 488.9 72 | hid_t err_stack = H5E_DEFAULT); +#11 488.9 | ^~~~~~~~~~~ +#11 489.0 CXX H5PredType.lo +#11 489.0 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 489.1 In file included from ../../src/hdf5.h:26, +#11 489.1 from H5Include.h:15, +#11 489.1 from H5PredType.cpp:16: +#11 489.1 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 489.1 27 | #define H5E_DEFAULT (hid_t)0 +#11 489.1 | ^ +#11 489.1 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 489.1 72 | hid_t err_stack = H5E_DEFAULT); +#11 489.1 | ^~~~~~~~~~~ +#11 489.1 H5PredType.cpp: In member function 'void H5::PredType::commit(H5::H5Location&, const char*)': +#11 489.1 H5PredType.cpp:86:35: warning: unused parameter 'loc' [-Wunused-parameter] +#11 489.1 86 | void PredType::commit(H5Location& loc, const char* name) +#11 489.1 | ~~~~~~~~~~~~^~~ +#11 489.1 H5PredType.cpp:86:52: warning: unused parameter 'name' [-Wunused-parameter] +#11 489.1 86 | void PredType::commit(H5Location& loc, const char* name) +#11 489.1 | ~~~~~~~~~~~~^~~~ +#11 489.3 CXX H5EnumType.lo +#11 489.4 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 489.5 In file included from ../../src/hdf5.h:26, +#11 489.5 from H5Include.h:15, +#11 489.5 from H5EnumType.cpp:17: +#11 489.5 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 489.5 27 | #define H5E_DEFAULT (hid_t)0 +#11 489.5 | ^ +#11 489.5 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 489.5 72 | hid_t err_stack = H5E_DEFAULT); +#11 489.5 | ^~~~~~~~~~~ +#11 489.5 CXX H5IntType.lo +#11 489.6 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 489.6 In file included from ../../src/hdf5.h:26, +#11 489.6 from H5Include.h:15, +#11 489.6 from H5IntType.cpp:16: +#11 489.6 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 489.6 27 | #define H5E_DEFAULT (hid_t)0 +#11 489.6 | ^ +#11 489.6 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 489.6 72 | hid_t err_stack = H5E_DEFAULT); +#11 489.6 | ^~~~~~~~~~~ +#11 489.7 CXX H5FloatType.lo +#11 489.7 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 489.8 In file included from ../../src/hdf5.h:26, +#11 489.8 from H5Include.h:15, +#11 489.8 from H5FloatType.cpp:16: +#11 489.8 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 489.8 27 | #define H5E_DEFAULT (hid_t)0 +#11 489.8 | ^ +#11 489.8 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 489.8 72 | hid_t err_stack = H5E_DEFAULT); +#11 489.8 | ^~~~~~~~~~~ +#11 489.9 CXX H5StrType.lo +#11 489.9 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 490.0 In file included from ../../src/hdf5.h:26, +#11 490.0 from H5Include.h:15, +#11 490.0 from H5StrType.cpp:16: +#11 490.0 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 490.0 27 | #define H5E_DEFAULT (hid_t)0 +#11 490.0 | ^ +#11 490.0 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 490.0 72 | hid_t err_stack = H5E_DEFAULT); +#11 490.0 | ^~~~~~~~~~~ +#11 490.0 H5StrType.cpp: In constructor 'H5::StrType::StrType(int, const size_t&)': +#11 490.0 H5StrType.cpp:105:28: warning: unused parameter 'dummy' [-Wunused-parameter] +#11 490.0 105 | StrType::StrType(const int dummy, const size_t& size) : AtomType() +#11 490.0 | ~~~~~~~~~~^~~~~ +#11 490.0 CXX H5ArrayType.lo +#11 490.1 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 490.1 In file included from ../../src/hdf5.h:26, +#11 490.1 from H5Include.h:15, +#11 490.1 from H5ArrayType.cpp:16: +#11 490.1 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 490.1 27 | #define H5E_DEFAULT (hid_t)0 +#11 490.1 | ^ +#11 490.1 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 490.1 72 | hid_t err_stack = H5E_DEFAULT); +#11 490.1 | ^~~~~~~~~~~ +#11 490.2 CXX H5VarLenType.lo +#11 490.2 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 490.3 In file included from ../../src/hdf5.h:26, +#11 490.3 from H5Include.h:15, +#11 490.3 from H5VarLenType.cpp:16: +#11 490.3 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 490.3 27 | #define H5E_DEFAULT (hid_t)0 +#11 490.3 | ^ +#11 490.3 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 490.3 72 | hid_t err_stack = H5E_DEFAULT); +#11 490.3 | ^~~~~~~~~~~ +#11 490.3 CXX H5CompType.lo +#11 490.3 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 490.4 In file included from ../../src/hdf5.h:26, +#11 490.4 from H5Include.h:15, +#11 490.4 from H5CompType.cpp:16: +#11 490.4 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 490.4 27 | #define H5E_DEFAULT (hid_t)0 +#11 490.4 | ^ +#11 490.4 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 490.4 72 | hid_t err_stack = H5E_DEFAULT); +#11 490.4 | ^~~~~~~~~~~ +#11 490.5 CXX H5DataSet.lo +#11 490.6 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 490.7 In file included from ../../src/hdf5.h:26, +#11 490.7 from H5Include.h:15, +#11 490.7 from H5DataSet.cpp:22: +#11 490.7 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 490.7 27 | #define H5E_DEFAULT (hid_t)0 +#11 490.7 | ^ +#11 490.7 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 490.7 72 | hid_t err_stack = H5E_DEFAULT); +#11 490.7 | ^~~~~~~~~~~ +#11 490.7 In file included from ../../src/H5private.h:27, +#11 490.7 from H5DataSet.cpp:21: +#11 490.7 H5DataSet.cpp: In member function 'haddr_t H5::DataSet::getOffset() const': +#11 490.7 ../../src/H5public.h:208:56: warning: use of old-style cast to 'long int' [-Wold-style-cast] +#11 490.7 208 | # define HADDR_UNDEF ((haddr_t)(long)(-1)) +#11 490.7 | ^ +#11 490.7 H5DataSet.cpp:288:20: note: in expansion of macro 'HADDR_UNDEF' +#11 490.7 288 | if (ds_addr == HADDR_UNDEF) +#11 490.7 | ^~~~~~~~~~~ +#11 490.7 ../../src/H5public.h:208:56: warning: use of old-style cast to 'haddr_t' {aka 'long unsigned int'} [-Wold-style-cast] +#11 490.7 208 | # define HADDR_UNDEF ((haddr_t)(long)(-1)) +#11 490.7 | ^ +#11 490.7 H5DataSet.cpp:288:20: note: in expansion of macro 'HADDR_UNDEF' +#11 490.7 288 | if (ds_addr == HADDR_UNDEF) +#11 490.7 | ^~~~~~~~~~~ +#11 490.8 CXX H5CommonFG.lo +#11 490.9 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 491.0 In file included from ../../src/hdf5.h:26, +#11 491.0 from H5Include.h:15, +#11 491.0 from H5CommonFG.cpp:17: +#11 491.0 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 491.0 27 | #define H5E_DEFAULT (hid_t)0 +#11 491.0 | ^ +#11 491.0 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 491.0 72 | hid_t err_stack = H5E_DEFAULT); +#11 491.0 | ^~~~~~~~~~~ +#11 491.0 In file included from ../../src/hdf5.h:34, +#11 491.0 from H5Include.h:15, +#11 491.0 from H5CommonFG.cpp:17: +#11 491.0 H5CommonFG.cpp: In member function 'H5::DataType H5::CommonFG::openDataType(const char*) const': +#11 491.0 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 491.0 96 | #define H5P_DEFAULT (hid_t)0 +#11 491.0 | ^ +#11 491.0 H5CommonFG.cpp:62:48: note: in expansion of macro 'H5P_DEFAULT' +#11 491.0 62 | hid_t type_id = H5Topen2(getLocId(), name, H5P_DEFAULT); +#11 491.0 | ^~~~~~~~~~~ +#11 491.0 H5CommonFG.cpp: In member function 'H5::ArrayType H5::CommonFG::openArrayType(const char*) const': +#11 491.0 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 491.0 96 | #define H5P_DEFAULT (hid_t)0 +#11 491.0 | ^ +#11 491.0 H5CommonFG.cpp:98:48: note: in expansion of macro 'H5P_DEFAULT' +#11 491.0 98 | hid_t type_id = H5Topen2(getLocId(), name, H5P_DEFAULT); +#11 491.0 | ^~~~~~~~~~~ +#11 491.0 H5CommonFG.cpp: In member function 'H5::CompType H5::CommonFG::openCompType(const char*) const': +#11 491.0 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 491.0 96 | #define H5P_DEFAULT (hid_t)0 +#11 491.0 | ^ +#11 491.0 H5CommonFG.cpp:134:48: note: in expansion of macro 'H5P_DEFAULT' +#11 491.0 134 | hid_t type_id = H5Topen2(getLocId(), name, H5P_DEFAULT); +#11 491.0 | ^~~~~~~~~~~ +#11 491.0 H5CommonFG.cpp: In member function 'H5::EnumType H5::CommonFG::openEnumType(const char*) const': +#11 491.0 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 491.0 96 | #define H5P_DEFAULT (hid_t)0 +#11 491.0 | ^ +#11 491.0 H5CommonFG.cpp:170:48: note: in expansion of macro 'H5P_DEFAULT' +#11 491.0 170 | hid_t type_id = H5Topen2(getLocId(), name, H5P_DEFAULT); +#11 491.0 | ^~~~~~~~~~~ +#11 491.0 H5CommonFG.cpp: In member function 'H5::IntType H5::CommonFG::openIntType(const char*) const': +#11 491.0 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 491.0 96 | #define H5P_DEFAULT (hid_t)0 +#11 491.0 | ^ +#11 491.0 H5CommonFG.cpp:206:48: note: in expansion of macro 'H5P_DEFAULT' +#11 491.0 206 | hid_t type_id = H5Topen2(getLocId(), name, H5P_DEFAULT); +#11 491.0 | ^~~~~~~~~~~ +#11 491.0 H5CommonFG.cpp: In member function 'H5::FloatType H5::CommonFG::openFloatType(const char*) const': +#11 491.0 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 491.0 96 | #define H5P_DEFAULT (hid_t)0 +#11 491.0 | ^ +#11 491.0 H5CommonFG.cpp:242:48: note: in expansion of macro 'H5P_DEFAULT' +#11 491.0 242 | hid_t type_id = H5Topen2(getLocId(), name, H5P_DEFAULT); +#11 491.0 | ^~~~~~~~~~~ +#11 491.0 H5CommonFG.cpp: In member function 'H5::StrType H5::CommonFG::openStrType(const char*) const': +#11 491.0 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 491.0 96 | #define H5P_DEFAULT (hid_t)0 +#11 491.0 | ^ +#11 491.0 H5CommonFG.cpp:278:48: note: in expansion of macro 'H5P_DEFAULT' +#11 491.0 278 | hid_t type_id = H5Topen2(getLocId(), name, H5P_DEFAULT); +#11 491.0 | ^~~~~~~~~~~ +#11 491.0 H5CommonFG.cpp: In member function 'H5::VarLenType H5::CommonFG::openVarLenType(const char*) const': +#11 491.0 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 491.0 96 | #define H5P_DEFAULT (hid_t)0 +#11 491.0 | ^ +#11 491.0 H5CommonFG.cpp:314:48: note: in expansion of macro 'H5P_DEFAULT' +#11 491.0 314 | hid_t type_id = H5Topen2(getLocId(), name, H5P_DEFAULT); +#11 491.0 | ^~~~~~~~~~~ +#11 491.0 CXX H5Group.lo +#11 491.1 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 491.2 In file included from ../../src/hdf5.h:26, +#11 491.2 from H5Include.h:15, +#11 491.2 from H5Group.cpp:21: +#11 491.2 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 491.2 27 | #define H5E_DEFAULT (hid_t)0 +#11 491.2 | ^ +#11 491.2 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 491.2 72 | hid_t err_stack = H5E_DEFAULT); +#11 491.2 | ^~~~~~~~~~~ +#11 491.2 CXX H5File.lo +#11 491.3 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 491.4 In file included from ../../src/hdf5.h:26, +#11 491.4 from H5Include.h:15, +#11 491.4 from H5File.cpp:21: +#11 491.4 ../../src/H5Epublic.h:27:40: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 491.4 27 | #define H5E_DEFAULT (hid_t)0 +#11 491.4 | ^ +#11 491.4 H5Exception.h:72:55: note: in expansion of macro 'H5E_DEFAULT' +#11 491.4 72 | hid_t err_stack = H5E_DEFAULT); +#11 491.4 | ^~~~~~~~~~~ +#11 491.4 H5File.cpp: In constructor 'H5::H5File::H5File(hid_t)': +#11 491.4 H5File.cpp:164:1: warning: 'H5::H5File::id' should be initialized in the member initialization list [-Weffc++] +#11 491.4 164 | H5File::H5File(hid_t existing_id) : Group() +#11 491.4 | ^~~~~~ +#11 491.4 H5File.cpp: In copy constructor 'H5::H5File::H5File(const H5::H5File&)': +#11 491.4 H5File.cpp:179:1: warning: 'H5::H5File::id' should be initialized in the member initialization list [-Weffc++] +#11 491.4 179 | H5File::H5File(const H5File& original) : Group() +#11 491.4 | ^~~~~~ +#11 491.4 In file included from ../../src/hdf5.h:34, +#11 491.4 from H5Include.h:15, +#11 491.4 from H5File.cpp:21: +#11 491.4 H5File.cpp: In member function 'void H5::H5File::getVFDHandle(void**) const': +#11 491.4 ../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 491.4 96 | #define H5P_DEFAULT (hid_t)0 +#11 491.4 | ^ +#11 491.4 H5File.cpp:513:46: note: in expansion of macro 'H5P_DEFAULT' +#11 491.4 513 | herr_t ret_value = H5Fget_vfd_handle(id, H5P_DEFAULT, file_handle); +#11 491.4 | ^~~~~~~~~~~ +#11 491.5 CXXLD libhdf5_cpp.la +#11 491.6 make[3]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/c++/src' +#11 491.6 make[2]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/c++/src' +#11 491.6 make[1]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/c++' +#11 491.6 make[1]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/hl' +#11 491.6 make[2]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/hl' +#11 491.6 make[2]: Nothing to be done for 'build-lib'. +#11 491.6 make[2]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/hl' +#11 491.6 + cd src +#11 491.6 + make lib +#11 491.6 make[2]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/hl/src' +#11 491.6 make[3]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/hl/src' +#11 491.6 CC H5DO.lo +#11 491.7 CC H5DS.lo +#11 491.9 CC H5IM.lo +#11 492.1 CC H5LT.lo +#11 492.4 CC H5LTanalyze.lo +#11 492.5 CC H5LTparse.lo +#11 492.7 CC H5PT.lo +#11 492.8 CC H5TB.lo +#11 493.2 CC H5LD.lo +#11 493.3 CCLD libhdf5_hl.la +#11 493.4 make[3]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/hl/src' +#11 493.4 make[2]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/hl/src' +#11 493.4 + cd c++ +#11 493.4 + make lib +#11 493.4 make[2]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/hl/c++' +#11 493.4 make[3]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/hl/c++' +#11 493.4 make[3]: Nothing to be done for 'build-lib'. +#11 493.4 make[3]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/hl/c++' +#11 493.4 + cd src +#11 493.4 + make lib +#11 493.4 make[3]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/hl/c++/src' +#11 493.4 make[4]: Entering directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/hl/c++/src' +#11 493.4 CXX H5PacketTable.lo +#11 493.5 cc1plus: warning: command-line option '-Wno-unsuffixed-float-constants' is valid for C/ObjC but not for C++ +#11 493.5 In file included from H5PacketTable.cpp:25: +#11 493.5 H5PacketTable.h: In constructor 'PacketTable::PacketTable()': +#11 493.5 H5PacketTable.h:37:5: warning: 'PacketTable::table_id' should be initialized in the member initialization list [-Weffc++] +#11 493.5 37 | PacketTable() {table_id = H5I_BADID;} +#11 493.5 | ^~~~~~~~~~~ +#11 493.5 In file included from ../../../src/hdf5.h:34, +#11 493.5 from ../../../hl/src/H5HLprivate2.h:18, +#11 493.5 from H5PacketTable.cpp:23: +#11 493.5 H5PacketTable.h: At global scope: +#11 493.5 ../../../src/H5Ppublic.h:96:32: warning: use of old-style cast to 'hid_t' {aka 'long int'} [-Wold-style-cast] +#11 493.5 96 | #define H5P_DEFAULT (hid_t)0 +#11 493.5 | ^ +#11 493.5 H5PacketTable.h:140:106: note: in expansion of macro 'H5P_DEFAULT' +#11 493.5 140 | FL_PacketTable(hid_t fileID, const char* name, hid_t dtypeID, hsize_t chunkSize = 0, hid_t plistID = H5P_DEFAULT); +#11 493.5 | ^~~~~~~~~~~ +#11 493.5 H5PacketTable.cpp: In constructor 'PacketTable::PacketTable(hid_t, const char*)': +#11 493.5 H5PacketTable.cpp:35:5: warning: 'PacketTable::table_id' should be initialized in the member initialization list [-Weffc++] +#11 493.5 35 | PacketTable::PacketTable(hid_t fileID, const char* name) +#11 493.5 | ^~~~~~~~~~~ +#11 493.5 H5PacketTable.cpp: In constructor 'PacketTable::PacketTable(hid_t, char*)': +#11 493.5 H5PacketTable.cpp:41:5: warning: 'PacketTable::table_id' should be initialized in the member initialization list [-Weffc++] +#11 493.5 41 | PacketTable::PacketTable(hid_t fileID, char* name) +#11 493.5 | ^~~~~~~~~~~ +#11 493.5 H5PacketTable.cpp: In member function 'int FL_PacketTable::GetPackets(hsize_t, hsize_t, void*)': +#11 493.5 H5PacketTable.cpp:255:86: warning: use of old-style cast to 'size_t' {aka 'long unsigned int'} [-Wold-style-cast] +#11 493.5 255 | return H5PTread_packets(table_id, startIndex, (size_t)(endIndex-startIndex+1), data); +#11 493.5 | ^ +#11 493.5 | -------- +#11 493.5 | static_cast ( ) +#11 493.5 CXXLD libhdf5_hl_cpp.la +#11 493.6 make[4]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/hl/c++/src' +#11 493.6 make[3]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/hl/c++/src' +#11 493.6 make[2]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/hl/c++' +#11 493.6 make[1]: Leaving directory '/tmp/RtmpUKOyML/R.INSTALL56906bf8b3e6/Rhdf5lib/src/hdf5/hl' +#11 493.6 test passed +#11 493.6 configure: HDF5_INCLUDE=hdf5/src +#11 493.6 configure: HDF5_CXX_INCLUDE=hdf5/c++/src +#11 493.6 configure: HDF5_HL_INCLUDE=hdf5/hl/src +#11 493.6 configure: HDF5_HL_CXX_INCLUDE=hdf5/hl/c++/src +#11 493.6 configure: HDF5_LIB=hdf5/src/.libs/libhdf5.a +#11 493.6 configure: HDF5_CXX_LIB=hdf5/c++/src/.libs/libhdf5_cpp.a +#11 493.6 configure: HDF5_HL_LIB=hdf5/hl/src/.libs/libhdf5_hl.a +#11 493.6 configure: HDF5_HL_CXX_LIB=hdf5/hl/c++/src/.libs/libhdf5_hl_cpp.a +#11 493.6 configure: SZIP_LIB=hdf5/szip/src/.libs/libsz.a +#11 493.6 configure: creating ./config.status +#11 493.7 config.status: creating src/Makevars +#11 493.7 ** libs +#11 493.7 mkdir -p "/usr/local/lib/R/site-library/00LOCK-Rhdf5lib/00new/Rhdf5lib/include" +#11 493.7 cp "hdf5/src/"*.h "/usr/local/lib/R/site-library/00LOCK-Rhdf5lib/00new/Rhdf5lib/include" +#11 493.7 cp "hdf5/c++/src/"*.h "/usr/local/lib/R/site-library/00LOCK-Rhdf5lib/00new/Rhdf5lib/include" +#11 493.7 cp "hdf5/hl/src/"*.h "/usr/local/lib/R/site-library/00LOCK-Rhdf5lib/00new/Rhdf5lib/include" +#11 493.7 cp "hdf5/hl/c++/src/"*.h "/usr/local/lib/R/site-library/00LOCK-Rhdf5lib/00new/Rhdf5lib/include" +#11 493.7 cp "hdf5/src/"libhdf5.settings "/usr/local/lib/R/site-library/00LOCK-Rhdf5lib/00new/Rhdf5lib/include" +#11 493.7 mkdir -p "/usr/local/lib/R/site-library/00LOCK-Rhdf5lib/00new/Rhdf5lib/lib/" +#11 493.7 cp "hdf5/src/.libs/libhdf5.a" "/usr/local/lib/R/site-library/00LOCK-Rhdf5lib/00new/Rhdf5lib/lib/" +#11 493.7 cp "hdf5/c++/src/.libs/libhdf5_cpp.a" "/usr/local/lib/R/site-library/00LOCK-Rhdf5lib/00new/Rhdf5lib/lib/" +#11 493.7 cp "hdf5/hl/src/.libs/libhdf5_hl.a" "/usr/local/lib/R/site-library/00LOCK-Rhdf5lib/00new/Rhdf5lib/lib/" +#11 493.7 cp "hdf5/hl/c++/src/.libs/libhdf5_hl_cpp.a" "/usr/local/lib/R/site-library/00LOCK-Rhdf5lib/00new/Rhdf5lib/lib/" +#11 493.7 cp "hdf5/szip/src/.libs/libsz.a" "/usr/local/lib/R/site-library/00LOCK-Rhdf5lib/00new/Rhdf5lib/lib/" +#11 493.7 gcc -I"/usr/share/R/include" -DNDEBUG -Ihdf5/src -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Rhdf5lib.c -o Rhdf5lib.o +#11 493.7 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o Rhdf5lib.so Rhdf5lib.o /usr/local/lib/R/site-library/00LOCK-Rhdf5lib/00new/Rhdf5lib/lib/libhdf5.a /usr/local/lib/R/site-library/00LOCK-Rhdf5lib/00new/Rhdf5lib/lib/libsz.a -lz -L/usr/lib/R/lib -lR +#11 493.8 installing to /usr/local/lib/R/site-library/00LOCK-Rhdf5lib/00new/Rhdf5lib/libs +#11 493.8 ** R +#11 493.8 ** inst +#11 493.9 ** byte-compile and prepare package for lazy loading +#11 493.9 ** help +#11 493.9 *** installing help indices +#11 494.0 ** building package indices +#11 494.0 ** installing vignettes +#11 494.0 ** testing if installed package can be loaded from temporary location +#11 494.1 ** checking absolute paths in shared objects and dynamic libraries +#11 494.1 ** testing if installed package can be loaded from final location +#11 494.2 ** testing if installed package keeps a record of temporary installation path +#11 494.2 * DONE (Rhdf5lib) +#11 494.3 * installing *source* package ‘plyr’ ... +#11 494.3 ** package ‘plyr’ successfully unpacked and MD5 sums checked +#11 494.3 ** using staged installation +#11 494.3 ** libs +#11 494.3 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c RcppExports.cpp -o RcppExports.o +#11 495.3 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c loop_apply.c -o loop_apply.o +#11 495.3 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c split-numeric.cpp -o split-numeric.o +#11 496.1 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o plyr.so RcppExports.o loop_apply.o split-numeric.o -L/usr/lib/R/lib -lR +#11 496.1 installing to /usr/local/lib/R/site-library/00LOCK-plyr/00new/plyr/libs +#11 496.1 ** R +#11 496.1 ** data +#11 496.1 *** moving datasets to lazyload DB +#11 496.2 ** inst +#11 496.2 ** byte-compile and prepare package for lazy loading +#11 496.6 ** help +#11 496.7 *** installing help indices +#11 496.7 ** building package indices +#11 496.8 ** testing if installed package can be loaded from temporary location +#11 496.9 ** checking absolute paths in shared objects and dynamic libraries +#11 496.9 ** testing if installed package can be loaded from final location +#11 497.0 ** testing if installed package keeps a record of temporary installation path +#11 497.0 * DONE (plyr) +#11 497.1 * installing *source* package ‘BiocVersion’ ... +#11 497.1 ** using staged installation +#11 497.1 ** help +#11 497.1 *** installing help indices +#11 497.1 ** building package indices +#11 497.2 ** testing if installed package can be loaded from temporary location +#11 497.3 ** testing if installed package can be loaded from final location +#11 497.3 ** testing if installed package keeps a record of temporary installation path +#11 497.3 * DONE (BiocVersion) +#11 497.5 * installing *source* package ‘rhdf5filters’ ... +#11 497.5 ** using staged installation +#11 497.6 configuring the BLOSC filter... +#11 497.6 x86_CPU=false +#11 497.6 checking for gcc... gcc +#11 497.6 checking whether the C compiler works... yes +#11 497.7 checking for C compiler default output file name... a.out +#11 497.7 checking for suffix of executables... +#11 497.7 checking whether we are cross compiling... no +#11 497.8 checking for suffix of object files... o +#11 497.8 checking whether we are using the GNU C compiler... yes +#11 497.8 checking whether gcc accepts -g... yes +#11 497.8 checking for gcc option to accept ISO C89... none needed +#11 497.8 checking whether C compiler accepts -msse2... no +#11 497.8 checking whether C compiler accepts -mavx2... no +#11 497.9 configure: creating ./config.status +#11 497.9 config.status: creating src/blosc/lib/blosc-1.20.1/Makefile +#11 497.9 config.status: creating src/blosc/Makefile +#11 497.9 configure: BZIP2_LIB=bzip2/libH5Zbz2.so +#11 497.9 configure: BLOSC_LIB=blosc/libH5Zblosc.so +#11 497.9 configure: LZF_LIB=lzf/libH5Zlzf.so +#11 497.9 configure: creating ./config.status +#11 497.9 config.status: creating src/blosc/lib/blosc-1.20.1/Makefile +#11 497.9 config.status: creating src/blosc/Makefile +#11 497.9 config.status: creating src/Makevars +#11 497.9 ** libs +#11 497.9 make -C blosc +#11 497.9 make[1]: Entering directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/blosc' +#11 497.9 make -C lib/snappy-1.1.1 +#11 497.9 make[2]: Entering directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/blosc/lib/snappy-1.1.1' +#11 497.9 g++ -std=gnu++14 -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I"/usr/local/lib/R/site-library/Rhdf5lib/include" -c snappy.cc +#11 498.2 g++ -std=gnu++14 -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I"/usr/local/lib/R/site-library/Rhdf5lib/include" -c snappy-c.cc +#11 498.3 g++ -std=gnu++14 -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I"/usr/local/lib/R/site-library/Rhdf5lib/include" -c snappy-sinksource.cc +#11 498.3 g++ -std=gnu++14 -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I"/usr/local/lib/R/site-library/Rhdf5lib/include" -c snappy-stubs-internal.cc +#11 498.4 make[2]: Leaving directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/blosc/lib/snappy-1.1.1' +#11 498.4 make -C lib/lz4-1.9.2 +#11 498.4 make[2]: Entering directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/blosc/lib/lz4-1.9.2' +#11 498.4 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -c lz4.c +#11 499.5 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -c lz4hc.c +#11 500.6 make[2]: Leaving directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/blosc/lib/lz4-1.9.2' +#11 500.6 make -C lib/zstd-1.4.5 +#11 500.6 make[2]: Entering directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/blosc/lib/zstd-1.4.5' +#11 500.6 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/debug.c -o common/debug.o +#11 500.6 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/entropy_common.c -o common/entropy_common.o +#11 500.6 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/error_private.c -o common/error_private.o +#11 500.6 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/fse_decompress.c -o common/fse_decompress.o +#11 500.7 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -I. -c common/pool.c -o common/pool.o -o common/pool.o +#11 500.8 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/threading.c -o common/threading.o +#11 500.8 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/xxhash.c -o common/xxhash.o +#11 500.9 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c common/zstd_common.c -o common/zstd_common.o +#11 500.9 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/fse_compress.c -o compress/fse_compress.o +#11 501.0 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/hist.c -o compress/hist.o +#11 501.1 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/huf_compress.c -o compress/huf_compress.o +#11 501.2 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_compress.c -o compress/zstd_compress.o +#11 501.7 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_compress_literals.c -o compress/zstd_compress_literals.o +#11 501.8 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_compress_sequences.c -o compress/zstd_compress_sequences.o +#11 501.9 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_compress_superblock.c -o compress/zstd_compress_superblock.o +#11 502.1 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_double_fast.c -o compress/zstd_double_fast.o +#11 502.9 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_fast.c -o compress/zstd_fast.o +#11 503.4 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_lazy.c -o compress/zstd_lazy.o +#11 504.8 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_ldm.c -o compress/zstd_ldm.o +#11 505.0 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstd_opt.c -o compress/zstd_opt.o +#11 508.5 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c compress/zstdmt_compress.c -o compress/zstdmt_compress.o +#11 508.8 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c decompress/huf_decompress.c -o decompress/huf_decompress.o +#11 509.1 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c decompress/zstd_ddict.c -o decompress/zstd_ddict.o +#11 509.2 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c decompress/zstd_decompress.c -o decompress/zstd_decompress.o +#11 509.4 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I. -I./common -DXXH_NAMESPACE=ZSTD_ -c decompress/zstd_decompress_block.c -o decompress/zstd_decompress_block.o +#11 509.7 make[2]: Leaving directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/blosc/lib/zstd-1.4.5' +#11 509.7 make -C lib/blosc-1.20.1 all +#11 509.7 make[2]: Entering directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/blosc/lib/blosc-1.20.1' +#11 509.7 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I"/usr/local/lib/R/site-library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c bitshuffle-generic.c +#11 509.7 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I"/usr/local/lib/R/site-library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c shuffle-generic.c +#11 509.7 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I"/usr/local/lib/R/site-library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c shuffle.c +#11 509.8 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I"/usr/local/lib/R/site-library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c blosclz.c +#11 509.8 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I"/usr/local/lib/R/site-library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c blosc.c +#11 510.0 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -I"/usr/local/lib/R/site-library/Rhdf5lib/include" -I../lz4-1.9.2 -I../snappy-1.1.1 -I../zstd-1.4.5 -c fastcopy.c +#11 510.0 make[2]: Leaving directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/blosc/lib/blosc-1.20.1' +#11 510.0 rm -f libblosc.a +#11 510.0 ar cq libblosc.a lib/blosc-1.20.1/blosc.o lib/blosc-1.20.1/bitshuffle-generic.o lib/blosc-1.20.1/blosclz.o lib/blosc-1.20.1/shuffle.o lib/blosc-1.20.1/fastcopy.o lib/blosc-1.20.1/shuffle-generic.o lib/snappy-1.1.1/snappy.o lib/snappy-1.1.1/snappy-c.o lib/snappy-1.1.1/snappy-sinksource.o lib/snappy-1.1.1/snappy-stubs-internal.o lib/lz4-1.9.2/lz4.o lib/lz4-1.9.2/lz4hc.o lib/zstd-1.4.5/common/debug.o lib/zstd-1.4.5/common/entropy_common.o lib/zstd-1.4.5/common/error_private.o lib/zstd-1.4.5/common/fse_decompress.o lib/zstd-1.4.5/common/pool.o lib/zstd-1.4.5/common/threading.o lib/zstd-1.4.5/common/xxhash.o lib/zstd-1.4.5/common/zstd_common.o lib/zstd-1.4.5/compress/fse_compress.o lib/zstd-1.4.5/compress/hist.o lib/zstd-1.4.5/compress/huf_compress.o lib/zstd-1.4.5/compress/zstd_compress.o lib/zstd-1.4.5/compress/zstd_compress_literals.o lib/zstd-1.4.5/compress/zstd_compress_sequences.o lib/zstd-1.4.5/compress/zstd_compress_superblock.o lib/zstd-1.4.5/compress/zstd_double_fast.o lib/zstd-1.4.5/compress/zstd_fast.o lib/zstd-1.4.5/compress/zstd_lazy.o lib/zstd-1.4.5/compress/zstd_ldm.o lib/zstd-1.4.5/compress/zstd_opt.o lib/zstd-1.4.5/compress/zstdmt_compress.o lib/zstd-1.4.5/decompress/huf_decompress.o lib/zstd-1.4.5/decompress/zstd_ddict.o lib/zstd-1.4.5/decompress/zstd_decompress.o lib/zstd-1.4.5/decompress/zstd_decompress_block.o +#11 510.1 ranlib libblosc.a +#11 510.1 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -c -o H5Zblosc.o H5Zblosc.c \ +#11 510.1 -I"/usr/local/lib/R/site-library/Rhdf5lib/include" -I./lib/blosc-1.20.1 +#11 510.1 g++ -std=gnu++14 -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -shared -o libH5Zblosc.so H5Zblosc.o \ +#11 510.1 libblosc.a -lz +#11 510.1 make[1]: Leaving directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/blosc' +#11 510.1 make -C bzip2 +#11 510.1 make[1]: Entering directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/bzip2' +#11 510.1 make -C bzip2-1.0.8 +#11 510.1 make[2]: Entering directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/bzip2/bzip2-1.0.8' +#11 510.1 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -D_FILE_OFFSET_BITS=64 -c blocksort.c +#11 510.3 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -D_FILE_OFFSET_BITS=64 -c huffman.c +#11 510.4 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -D_FILE_OFFSET_BITS=64 -c crctable.c +#11 510.4 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -D_FILE_OFFSET_BITS=64 -c randtable.c +#11 510.4 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -D_FILE_OFFSET_BITS=64 -c compress.c +#11 510.9 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -D_FILE_OFFSET_BITS=64 -c decompress.c +#11 511.2 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -D_FILE_OFFSET_BITS=64 -c bzlib.c +#11 511.4 rm -f libbz2.a +#11 511.4 ar cq libbz2.a blocksort.o huffman.o crctable.o randtable.o compress.o decompress.o bzlib.o +#11 511.4 ranlib libbz2.a +#11 511.4 make[2]: Leaving directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/bzip2/bzip2-1.0.8' +#11 511.4 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -shared H5Zbzip2.c -I"/usr/local/lib/R/site-library/Rhdf5lib/include" \ +#11 511.4 -I./bzip2-1.0.8/ ./bzip2-1.0.8/libbz2.a -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o libH5Zbz2.so +#11 511.5 make[1]: Leaving directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/bzip2' +#11 511.5 make -C lzf +#11 511.5 make[1]: Entering directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/lzf' +#11 511.5 make -C lzf +#11 511.5 make[2]: Entering directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/lzf/lzf' +#11 511.5 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -c lzf_c.c +#11 511.5 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -c lzf_d.c +#11 511.5 rm -f liblzf.a +#11 511.5 ar cq liblzf.a lzf_c.o lzf_d.o +#11 511.5 make[2]: Leaving directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/lzf/lzf' +#11 511.5 gcc -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -shared H5Zlzf.c -I"/usr/local/lib/R/site-library/Rhdf5lib/include" \ +#11 511.5 -I./lzf/ ./lzf/liblzf.a -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o libH5Zlzf.so +#11 511.6 make[1]: Leaving directory '/tmp/RtmppLf78m/R.INSTALLa3b777f0455b/rhdf5filters/src/lzf' +#11 511.6 mkdir -p "/usr/local/lib/R/site-library/00LOCK-rhdf5filters/00new/rhdf5filters/lib/" +#11 511.6 cp bzip2/libH5Zbz2.so "/usr/local/lib/R/site-library/00LOCK-rhdf5filters/00new/rhdf5filters/lib/" +#11 511.6 cp blosc/libH5Zblosc.so "/usr/local/lib/R/site-library/00LOCK-rhdf5filters/00new/rhdf5filters/lib/" +#11 511.6 cp lzf/libH5Zlzf.so "/usr/local/lib/R/site-library/00LOCK-rhdf5filters/00new/rhdf5filters/lib/" +#11 511.6 gcc -I"/usr/share/R/include" -DNDEBUG -I"/usr/local/lib/R/site-library/Rhdf5lib/include" -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rhdf5filters.c -o rhdf5filters.o +#11 511.6 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o rhdf5filters.so rhdf5filters.o -L/usr/lib/R/lib -lR +#11 511.6 installing to /usr/local/lib/R/site-library/00LOCK-rhdf5filters/00new/rhdf5filters/libs +#11 511.6 ** R +#11 511.6 ** inst +#11 511.6 ** byte-compile and prepare package for lazy loading +#11 511.7 ** help +#11 511.7 *** installing help indices +#11 511.7 ** building package indices +#11 511.8 ** installing vignettes +#11 511.8 ** testing if installed package can be loaded from temporary location +#11 511.8 ** checking absolute paths in shared objects and dynamic libraries +#11 511.9 ** testing if installed package can be loaded from final location +#11 511.9 ** testing if installed package keeps a record of temporary installation path +#11 511.9 * DONE (rhdf5filters) +#11 512.1 * installing *source* package ‘rhdf5’ ... +#11 512.1 ** using staged installation +#11 512.2 configure: creating ./config.status +#11 512.2 config.status: creating src/external_filters.h +#11 512.2 ** libs +#11 512.2 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c H5.c -o H5.o +#11 512.2 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c H5A.c -o H5A.o +#11 512.3 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c H5D.c -o H5D.o +#11 512.6 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c H5E.c -o H5E.o +#11 512.6 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c H5F.c -o H5F.o +#11 512.7 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c H5G.c -o H5G.o +#11 512.7 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c H5I.c -o H5I.o +#11 512.7 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c H5L.c -o H5L.o +#11 512.8 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c H5O.c -o H5O.o +#11 512.8 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c H5P.c -o H5P.o +#11 512.9 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c H5S.c -o H5S.o +#11 513.0 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c H5S_extras.c -o H5S_extras.o +#11 513.0 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c H5T.c -o H5T.o +#11 513.0 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c H5Z.c -o H5Z.o +#11 513.1 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c H5constants.c -o H5constants.o +#11 513.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c HandleList.cpp -o HandleList.o +#11 513.3 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c HandleListWrap.c -o HandleListWrap.o +#11 513.3 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bit64conversion.c -o bit64conversion.o +#11 513.4 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c external_filters.c -o external_filters.o +#11 513.4 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c h5dump.c -o h5dump.o +#11 513.5 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c h5ls.c -o h5ls.o +#11 513.5 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c h5testLock.c -o h5testLock.o +#11 513.6 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c h5writeDataFrame.c -o h5writeDataFrame.o +#11 513.6 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c printdatatype.c -o printdatatype.o +#11 513.7 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils.c -o utils.o +#11 513.7 gcc -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rhdf5lib/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c wrap.c -o wrap.o +#11 513.9 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o rhdf5.so H5.o H5A.o H5D.o H5E.o H5F.o H5G.o H5I.o H5L.o H5O.o H5P.o H5S.o H5S_extras.o H5T.o H5Z.o H5constants.o HandleList.o HandleListWrap.o bit64conversion.o external_filters.o h5dump.o h5ls.o h5testLock.o h5writeDataFrame.o printdatatype.o utils.o wrap.o /usr/local/lib/R/site-library/Rhdf5lib/lib/libhdf5.a /usr/local/lib/R/site-library/Rhdf5lib/lib/libsz.a -lcrypto -lcurl -lz -L/usr/lib/R/lib -lR +#11 514.0 installing to /usr/local/lib/R/site-library/00LOCK-rhdf5/00new/rhdf5/libs +#11 514.0 ** R +#11 514.0 ** inst +#11 514.0 ** byte-compile and prepare package for lazy loading +#11 514.6 ** help +#11 514.7 *** installing help indices +#11 514.8 *** copying figures +#11 514.8 ** building package indices +#11 514.9 ** installing vignettes +#11 514.9 ** testing if installed package can be loaded from temporary location +#11 515.0 ** checking absolute paths in shared objects and dynamic libraries +#11 515.0 ** testing if installed package can be loaded from final location +#11 515.1 ** testing if installed package keeps a record of temporary installation path +#11 515.1 * DONE (rhdf5) +#11 515.2 * installing *source* package ‘biomformat’ ... +#11 515.2 ** using staged installation +#11 515.2 ** R +#11 515.2 ** inst +#11 515.2 ** byte-compile and prepare package for lazy loading +#11 515.9 Creating a generic function for ‘nrow’ from package ‘base’ in package ‘biomformat’ +#11 515.9 Creating a generic function for ‘ncol’ from package ‘base’ in package ‘biomformat’ +#11 515.9 Creating a generic function for ‘rownames’ from package ‘base’ in package ‘biomformat’ +#11 515.9 Creating a generic function for ‘colnames’ from package ‘base’ in package ‘biomformat’ +#11 515.9 ** help +#11 516.0 *** installing help indices +#11 516.0 ** building package indices +#11 516.0 ** installing vignettes +#11 516.0 ** testing if installed package can be loaded from temporary location +#11 516.5 ** testing if installed package can be loaded from final location +#11 517.0 ** testing if installed package keeps a record of temporary installation path +#11 517.0 * DONE (biomformat) +#11 517.0 +#11 517.0 The downloaded source packages are in +#11 517.0 ‘/tmp/RtmpJCxqRe/downloaded_packages’ +#11 517.4 Old packages: 'boot', 'class', 'cluster', 'codetools', 'foreign', 'KernSmooth', +#11 517.4 'lattice', 'mgcv', 'nlme', 'nnet', 'rpart', 'spatial', 'survival' +#11 517.4 > +#11 517.4 > +#11 517.5 +#11 517.5 R version 4.1.2 (2021-11-01) -- "Bird Hippie" +#11 517.5 Copyright (C) 2021 The R Foundation for Statistical Computing +#11 517.5 Platform: aarch64-unknown-linux-gnu (64-bit) +#11 517.5 +#11 517.5 R is free software and comes with ABSOLUTELY NO WARRANTY. +#11 517.5 You are welcome to redistribute it under certain conditions. +#11 517.5 Type 'license()' or 'licence()' for distribution details. +#11 517.5 +#11 517.5 Natural language support but running in an English locale +#11 517.5 +#11 517.5 R is a collaborative project with many contributors. +#11 517.5 Type 'contributors()' for more information and +#11 517.5 'citation()' on how to cite R or R packages in publications. +#11 517.5 +#11 517.5 Type 'demo()' for some demos, 'help()' for on-line help, or +#11 517.5 'help.start()' for an HTML browser interface to help. +#11 517.5 Type 'q()' to quit R. +#11 517.5 +#11 517.5 > remotes::install_github('metabaRfactory/metabaR') +#11 518.4 Downloading GitHub repo metabaRfactory/metabaR@HEAD +#11 523.5 Skipping 1 packages not available: biomformat +#11 523.5 segmented (NA -> 2.1-4 ) [CRAN] +#11 523.5 igraph (NA -> 2.2.1 ) [CRAN] +#11 523.5 seqinr (NA -> 4.2-36) [CRAN] +#11 523.5 cowplot (NA -> 1.2.0 ) [CRAN] +#11 523.5 reshape2 (NA -> 1.4.4 ) [CRAN] +#11 523.5 Installing 5 packages: segmented, igraph, seqinr, cowplot, reshape2 +#11 523.5 Installing packages into ‘/usr/local/lib/R/site-library’ +#11 523.5 (as ‘lib’ is unspecified) +#11 523.9 trying URL 'https://cloud.r-project.org/src/contrib/segmented_2.1-4.tar.gz' +#11 524.0 Content type 'application/x-gzip' length 311459 bytes (304 KB) +#11 524.0 ================================================== +#11 524.1 downloaded 304 KB +#11 524.1 +#11 524.1 trying URL 'https://cloud.r-project.org/src/contrib/igraph_2.2.1.tar.gz' +#11 524.3 Content type 'application/x-gzip' length 5124241 bytes (4.9 MB) +#11 524.3 ================================================== +#11 524.5 downloaded 4.9 MB +#11 524.5 +#11 524.5 trying URL 'https://cloud.r-project.org/src/contrib/seqinr_4.2-36.tar.gz' +#11 524.8 Content type 'application/x-gzip' length 3539927 bytes (3.4 MB) +#11 524.8 ================================================== +#11 524.9 downloaded 3.4 MB +#11 524.9 +#11 524.9 trying URL 'https://cloud.r-project.org/src/contrib/cowplot_1.2.0.tar.gz' +#11 525.0 Content type 'application/x-gzip' length 1638386 bytes (1.6 MB) +#11 525.1 ================================================== +#11 525.2 downloaded 1.6 MB +#11 525.2 +#11 525.2 trying URL 'https://cloud.r-project.org/src/contrib/reshape2_1.4.4.tar.gz' +#11 525.5 Content type 'application/x-gzip' length 37307 bytes (36 KB) +#11 525.5 ================================================== +#11 525.5 downloaded 36 KB +#11 525.5 +#11 525.6 * installing *source* package ‘segmented’ ... +#11 525.6 ** package ‘segmented’ successfully unpacked and MD5 sums checked +#11 525.6 ** using staged installation +#11 525.6 ** R +#11 525.6 ** data +#11 525.6 ** inst +#11 525.6 ** byte-compile and prepare package for lazy loading +#11 530.0 ** help +#11 530.1 *** installing help indices +#11 530.2 ** building package indices +#11 530.3 ** testing if installed package can be loaded from temporary location +#11 530.4 ** testing if installed package can be loaded from final location +#11 530.7 ** testing if installed package keeps a record of temporary installation path +#11 530.7 * DONE (segmented) +#11 531.5 * installing *source* package ‘igraph’ ... +#11 531.6 ** package ‘igraph’ successfully unpacked and MD5 sums checked +#11 531.6 ** using staged installation +#11 531.6 libxml2 include directories: -I/opt/conda/include/libxml2 -I/opt/conda/include +#11 531.6 libxml2 library link flags: -L/opt/conda/lib -lxml2 -L/opt/conda/lib -lz -L/opt/conda/lib -llzma -L/opt/conda/lib -L/opt/conda/lib -licui18n -licuuc -licudata -lm -ldl +#11 531.6 Using vendored GLPK +#11 531.6 ** libs +#11 531.6 touch -r $(ls -t *.cpp | head -n 1) "deps.mk" +#11 531.6 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dgetv0.f -o vendor/arpack/dgetv0.o +#11 531.6 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dlaqrb.f -o vendor/arpack/dlaqrb.o +#11 531.7 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dmout.f -o vendor/arpack/dmout.o +#11 531.7 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dnaitr.f -o vendor/arpack/dnaitr.o +#11 531.8 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dnapps.f -o vendor/arpack/dnapps.o +#11 531.8 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dnaup2.f -o vendor/arpack/dnaup2.o +#11 531.9 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dnaupd.f -o vendor/arpack/dnaupd.o +#11 531.9 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dnconv.f -o vendor/arpack/dnconv.o +#11 532.0 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dneigh.f -o vendor/arpack/dneigh.o +#11 532.0 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dneupd.f -o vendor/arpack/dneupd.o +#11 532.1 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dngets.f -o vendor/arpack/dngets.o +#11 532.1 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dsaitr.f -o vendor/arpack/dsaitr.o +#11 532.2 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dsapps.f -o vendor/arpack/dsapps.o +#11 532.2 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dsaup2.f -o vendor/arpack/dsaup2.o +#11 532.3 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dsaupd.f -o vendor/arpack/dsaupd.o +#11 532.3 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dsconv.f -o vendor/arpack/dsconv.o +#11 532.3 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dseigt.f -o vendor/arpack/dseigt.o +#11 532.3 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dsesrt.f -o vendor/arpack/dsesrt.o +#11 532.4 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dseupd.f -o vendor/arpack/dseupd.o +#11 532.5 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dsgets.f -o vendor/arpack/dsgets.o +#11 532.5 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dsortc.f -o vendor/arpack/dsortc.o +#11 532.5 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dsortr.f -o vendor/arpack/dsortr.o +#11 532.5 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dstatn.f -o vendor/arpack/dstatn.o +#11 532.5 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dstats.f -o vendor/arpack/dstats.o +#11 532.5 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dstqrb.f -o vendor/arpack/dstqrb.o +#11 532.6 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/dvout.f -o vendor/arpack/dvout.o +#11 532.6 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/ivout.f -o vendor/arpack/ivout.o +#11 532.6 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/second.f -o vendor/arpack/second.o +#11 532.6 gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -c vendor/arpack/wrap.f -o vendor/arpack/wrap.o +#11 532.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/betweenness.c -o vendor/cigraph/src/centrality/betweenness.o +#11 532.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/centrality_other.c -o vendor/cigraph/src/centrality/centrality_other.o +#11 532.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/centralization.c -o vendor/cigraph/src/centrality/centralization.o +#11 533.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/closeness.c -o vendor/cigraph/src/centrality/closeness.o +#11 533.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/coreness.c -o vendor/cigraph/src/centrality/coreness.o +#11 533.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/eigenvector.c -o vendor/cigraph/src/centrality/eigenvector.o +#11 533.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/hub_authority.c -o vendor/cigraph/src/centrality/hub_authority.o +#11 533.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/pagerank.c -o vendor/cigraph/src/centrality/pagerank.o +#11 533.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/prpack.cpp -o vendor/cigraph/src/centrality/prpack.o +#11 533.5 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/prpack/prpack_base_graph.cpp -o vendor/cigraph/src/centrality/prpack/prpack_base_graph.o +#11 533.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/prpack/prpack_igraph_graph.cpp -o vendor/cigraph/src/centrality/prpack/prpack_igraph_graph.o +#11 533.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/prpack/prpack_preprocessed_ge_graph.cpp -o vendor/cigraph/src/centrality/prpack/prpack_preprocessed_ge_graph.o +#11 533.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/prpack/prpack_preprocessed_gs_graph.cpp -o vendor/cigraph/src/centrality/prpack/prpack_preprocessed_gs_graph.o +#11 533.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/prpack/prpack_preprocessed_scc_graph.cpp -o vendor/cigraph/src/centrality/prpack/prpack_preprocessed_scc_graph.o +#11 533.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/prpack/prpack_preprocessed_schur_graph.cpp -o vendor/cigraph/src/centrality/prpack/prpack_preprocessed_schur_graph.o +#11 534.0 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/prpack/prpack_result.cpp -o vendor/cigraph/src/centrality/prpack/prpack_result.o +#11 534.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/prpack/prpack_solver.cpp -o vendor/cigraph/src/centrality/prpack/prpack_solver.o +#11 534.3 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/prpack/prpack_utils.cpp -o vendor/cigraph/src/centrality/prpack/prpack_utils.o +#11 534.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/centrality/truss.cpp -o vendor/cigraph/src/centrality/truss.o +#11 534.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/cliques/cliquer/cliquer.c -o vendor/cigraph/src/cliques/cliquer/cliquer.o +#11 534.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/cliques/cliquer/cliquer_graph.c -o vendor/cigraph/src/cliques/cliquer/cliquer_graph.o +#11 534.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/cliques/cliquer/reorder.c -o vendor/cigraph/src/cliques/cliquer/reorder.o +#11 535.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/cliques/cliquer_wrapper.c -o vendor/cigraph/src/cliques/cliquer_wrapper.o +#11 535.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/cliques/cliques.c -o vendor/cigraph/src/cliques/cliques.o +#11 535.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/cliques/glet.c -o vendor/cigraph/src/cliques/glet.o +#11 535.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/cliques/maximal_cliques.c -o vendor/cigraph/src/cliques/maximal_cliques.o +#11 535.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/community_misc.c -o vendor/cigraph/src/community/community_misc.o +#11 535.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/edge_betweenness.c -o vendor/cigraph/src/community/edge_betweenness.o +#11 536.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/fast_modularity.c -o vendor/cigraph/src/community/fast_modularity.o +#11 536.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/fluid.c -o vendor/cigraph/src/community/fluid.o +#11 536.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/infomap/infomap.cc -o vendor/cigraph/src/community/infomap/infomap.o +#11 536.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/infomap/infomap_FlowGraph.cc -o vendor/cigraph/src/community/infomap/infomap_FlowGraph.o +#11 536.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/infomap/infomap_Greedy.cc -o vendor/cigraph/src/community/infomap/infomap_Greedy.o +#11 537.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/label_propagation.c -o vendor/cigraph/src/community/label_propagation.o +#11 537.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/leading_eigenvector.c -o vendor/cigraph/src/community/leading_eigenvector.o +#11 537.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/leiden.c -o vendor/cigraph/src/community/leiden.o +#11 537.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/louvain.c -o vendor/cigraph/src/community/louvain.o +#11 537.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/modularity.c -o vendor/cigraph/src/community/modularity.o +#11 537.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/optimal_modularity.c -o vendor/cigraph/src/community/optimal_modularity.o +#11 538.0 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/spinglass/NetDataTypes.cpp -o vendor/cigraph/src/community/spinglass/NetDataTypes.o +#11 538.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/spinglass/NetRoutines.cpp -o vendor/cigraph/src/community/spinglass/NetRoutines.o +#11 538.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/spinglass/clustertool.cpp -o vendor/cigraph/src/community/spinglass/clustertool.o +#11 538.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/spinglass/pottsmodel_2.cpp -o vendor/cigraph/src/community/spinglass/pottsmodel_2.o +#11 538.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/voronoi.c -o vendor/cigraph/src/community/voronoi.o +#11 538.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/walktrap/walktrap.cpp -o vendor/cigraph/src/community/walktrap/walktrap.o +#11 539.0 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/walktrap/walktrap_communities.cpp -o vendor/cigraph/src/community/walktrap/walktrap_communities.o +#11 539.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/walktrap/walktrap_graph.cpp -o vendor/cigraph/src/community/walktrap/walktrap_graph.o +#11 539.3 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/community/walktrap/walktrap_heap.cpp -o vendor/cigraph/src/community/walktrap/walktrap_heap.o +#11 539.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/connectivity/cohesive_blocks.c -o vendor/cigraph/src/connectivity/cohesive_blocks.o +#11 539.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/connectivity/components.c -o vendor/cigraph/src/connectivity/components.o +#11 539.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/connectivity/percolation.c -o vendor/cigraph/src/connectivity/percolation.o +#11 539.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/connectivity/reachability.c -o vendor/cigraph/src/connectivity/reachability.o +#11 539.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/connectivity/separators.c -o vendor/cigraph/src/connectivity/separators.o +#11 540.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/constructors/adjacency.c -o vendor/cigraph/src/constructors/adjacency.o +#11 540.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/constructors/atlas.c -o vendor/cigraph/src/constructors/atlas.o +#11 540.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/constructors/basic_constructors.c -o vendor/cigraph/src/constructors/basic_constructors.o +#11 540.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/constructors/circulant.c -o vendor/cigraph/src/constructors/circulant.o +#11 540.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/constructors/de_bruijn.c -o vendor/cigraph/src/constructors/de_bruijn.o +#11 540.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/constructors/famous.c -o vendor/cigraph/src/constructors/famous.o +#11 540.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/constructors/full.c -o vendor/cigraph/src/constructors/full.o +#11 540.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/constructors/generalized_petersen.c -o vendor/cigraph/src/constructors/generalized_petersen.o +#11 540.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/constructors/kautz.c -o vendor/cigraph/src/constructors/kautz.o +#11 540.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/constructors/lattices.c -o vendor/cigraph/src/constructors/lattices.o +#11 540.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/constructors/lcf.c -o vendor/cigraph/src/constructors/lcf.o +#11 540.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/constructors/linegraph.c -o vendor/cigraph/src/constructors/linegraph.o +#11 540.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/constructors/mycielskian.c -o vendor/cigraph/src/constructors/mycielskian.o +#11 540.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/constructors/prufer.c -o vendor/cigraph/src/constructors/prufer.o +#11 540.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/constructors/regular.c -o vendor/cigraph/src/constructors/regular.o +#11 541.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/constructors/trees.c -o vendor/cigraph/src/constructors/trees.o +#11 541.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/array.c -o vendor/cigraph/src/core/array.o +#11 541.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/bitset.c -o vendor/cigraph/src/core/bitset.o +#11 541.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/bitset_list.c -o vendor/cigraph/src/core/bitset_list.o +#11 541.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/buckets.c -o vendor/cigraph/src/core/buckets.o +#11 541.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/cutheap.c -o vendor/cigraph/src/core/cutheap.o +#11 541.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/dqueue.c -o vendor/cigraph/src/core/dqueue.o +#11 541.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/error.c -o vendor/cigraph/src/core/error.o +#11 541.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/estack.c -o vendor/cigraph/src/core/estack.o +#11 541.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/fixed_vectorlist.c -o vendor/cigraph/src/core/fixed_vectorlist.o +#11 541.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/genheap.c -o vendor/cigraph/src/core/genheap.o +#11 541.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/grid.c -o vendor/cigraph/src/core/grid.o +#11 541.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/heap.c -o vendor/cigraph/src/core/heap.o +#11 542.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/indheap.c -o vendor/cigraph/src/core/indheap.o +#11 542.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/interruption.c -o vendor/cigraph/src/core/interruption.o +#11 542.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/marked_queue.c -o vendor/cigraph/src/core/marked_queue.o +#11 542.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/matrix.c -o vendor/cigraph/src/core/matrix.o +#11 542.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/matrix_list.c -o vendor/cigraph/src/core/matrix_list.o +#11 542.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/memory.c -o vendor/cigraph/src/core/memory.o +#11 542.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/printing.c -o vendor/cigraph/src/core/printing.o +#11 543.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/progress.c -o vendor/cigraph/src/core/progress.o +#11 543.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/psumtree.c -o vendor/cigraph/src/core/psumtree.o +#11 543.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/set.c -o vendor/cigraph/src/core/set.o +#11 543.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/sparsemat.c -o vendor/cigraph/src/core/sparsemat.o +#11 543.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/stack.c -o vendor/cigraph/src/core/stack.o +#11 543.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/statusbar.c -o vendor/cigraph/src/core/statusbar.o +#11 543.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/strvector.c -o vendor/cigraph/src/core/strvector.o +#11 543.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/trie.c -o vendor/cigraph/src/core/trie.o +#11 543.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/vector.c -o vendor/cigraph/src/core/vector.o +#11 544.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/vector_list.c -o vendor/cigraph/src/core/vector_list.o +#11 545.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/core/vector_ptr.c -o vendor/cigraph/src/core/vector_ptr.o +#11 545.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/cycles/simple_cycles.c -o vendor/cigraph/src/cycles/simple_cycles.o +#11 545.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/flow/flow.c -o vendor/cigraph/src/flow/flow.o +#11 545.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/flow/flow_conversion.c -o vendor/cigraph/src/flow/flow_conversion.o +#11 545.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/flow/st-cuts.c -o vendor/cigraph/src/flow/st-cuts.o +#11 545.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/barabasi.c -o vendor/cigraph/src/games/barabasi.o +#11 546.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/callaway_traits.c -o vendor/cigraph/src/games/callaway_traits.o +#11 546.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/chung_lu.c -o vendor/cigraph/src/games/chung_lu.o +#11 546.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/citations.c -o vendor/cigraph/src/games/citations.o +#11 546.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/correlated.c -o vendor/cigraph/src/games/correlated.o +#11 546.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/degree_sequence.c -o vendor/cigraph/src/games/degree_sequence.o +#11 546.6 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/degree_sequence_vl/gengraph_degree_sequence.cpp -o vendor/cigraph/src/games/degree_sequence_vl/gengraph_degree_sequence.o +#11 546.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/degree_sequence_vl/gengraph_graph_molloy_hash.cpp -o vendor/cigraph/src/games/degree_sequence_vl/gengraph_graph_molloy_hash.o +#11 547.0 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/degree_sequence_vl/gengraph_graph_molloy_optimized.cpp -o vendor/cigraph/src/games/degree_sequence_vl/gengraph_graph_molloy_optimized.o +#11 547.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/degree_sequence_vl/gengraph_mr-connected.cpp -o vendor/cigraph/src/games/degree_sequence_vl/gengraph_mr-connected.o +#11 547.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/degree_sequence_vl/gengraph_random.cpp -o vendor/cigraph/src/games/degree_sequence_vl/gengraph_random.o +#11 547.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/dotproduct.c -o vendor/cigraph/src/games/dotproduct.o +#11 547.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/erdos_renyi.c -o vendor/cigraph/src/games/erdos_renyi.o +#11 547.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/establishment.c -o vendor/cigraph/src/games/establishment.o +#11 547.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/forestfire.c -o vendor/cigraph/src/games/forestfire.o +#11 547.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/grg.c -o vendor/cigraph/src/games/grg.o +#11 547.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/growing_random.c -o vendor/cigraph/src/games/growing_random.o +#11 547.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/islands.c -o vendor/cigraph/src/games/islands.o +#11 547.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/k_regular.c -o vendor/cigraph/src/games/k_regular.o +#11 547.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/preference.c -o vendor/cigraph/src/games/preference.o +#11 548.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/recent_degree.c -o vendor/cigraph/src/games/recent_degree.o +#11 548.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/sbm.c -o vendor/cigraph/src/games/sbm.o +#11 548.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/static_fitness.c -o vendor/cigraph/src/games/static_fitness.o +#11 548.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/tree.c -o vendor/cigraph/src/games/tree.o +#11 548.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/games/watts_strogatz.c -o vendor/cigraph/src/games/watts_strogatz.o +#11 548.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/graph/adjlist.c -o vendor/cigraph/src/graph/adjlist.o +#11 548.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/graph/attributes.c -o vendor/cigraph/src/graph/attributes.o +#11 548.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/graph/basic_query.c -o vendor/cigraph/src/graph/basic_query.o +#11 548.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/graph/caching.c -o vendor/cigraph/src/graph/caching.o +#11 548.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/graph/cattributes.c -o vendor/cigraph/src/graph/cattributes.o +#11 549.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/graph/graph_list.c -o vendor/cigraph/src/graph/graph_list.o +#11 549.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/graph/iterators.c -o vendor/cigraph/src/graph/iterators.o +#11 549.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/graph/type_common.c -o vendor/cigraph/src/graph/type_common.o +#11 549.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/graph/type_indexededgelist.c -o vendor/cigraph/src/graph/type_indexededgelist.o +#11 549.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/graph/visitors.c -o vendor/cigraph/src/graph/visitors.o +#11 550.0 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/hrg/hrg.cc -o vendor/cigraph/src/hrg/hrg.o +#11 550.3 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/hrg/hrg_types.cc -o vendor/cigraph/src/hrg/hrg_types.o +#11 550.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/internal/glpk_support.c -o vendor/cigraph/src/internal/glpk_support.o +#11 550.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/internal/hacks.c -o vendor/cigraph/src/internal/hacks.o +#11 550.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/internal/lsap.c -o vendor/cigraph/src/internal/lsap.o +#11 551.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/internal/qsort.c -o vendor/cigraph/src/internal/qsort.o +#11 551.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/internal/qsort_r.c -o vendor/cigraph/src/internal/qsort_r.o +#11 551.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/internal/utils.c -o vendor/cigraph/src/internal/utils.o +#11 551.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/internal/zeroin.c -o vendor/cigraph/src/internal/zeroin.o +#11 551.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/io/dimacs.c -o vendor/cigraph/src/io/dimacs.o +#11 551.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/io/dl.c -o vendor/cigraph/src/io/dl.o +#11 551.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/io/dot.c -o vendor/cigraph/src/io/dot.o +#11 551.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/io/edgelist.c -o vendor/cigraph/src/io/edgelist.o +#11 551.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/io/gml-tree.c -o vendor/cigraph/src/io/gml-tree.o +#11 551.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/io/gml.c -o vendor/cigraph/src/io/gml.o +#11 551.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/io/graphdb.c -o vendor/cigraph/src/io/graphdb.o +#11 551.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/io/graphml.c -o vendor/cigraph/src/io/graphml.o +#11 552.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/io/leda.c -o vendor/cigraph/src/io/leda.o +#11 552.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/io/lgl.c -o vendor/cigraph/src/io/lgl.o +#11 552.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/io/ncol.c -o vendor/cigraph/src/io/ncol.o +#11 552.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/io/pajek.c -o vendor/cigraph/src/io/pajek.o +#11 552.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/io/parse_utils.c -o vendor/cigraph/src/io/parse_utils.o +#11 552.5 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/isomorphism/bliss.cc -o vendor/cigraph/src/isomorphism/bliss.o +#11 552.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/isomorphism/bliss/defs.cc -o vendor/cigraph/src/isomorphism/bliss/defs.o +#11 552.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/isomorphism/bliss/graph.cc -o vendor/cigraph/src/isomorphism/bliss/graph.o +#11 554.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/isomorphism/bliss/heap.cc -o vendor/cigraph/src/isomorphism/bliss/heap.o +#11 554.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/isomorphism/bliss/orbit.cc -o vendor/cigraph/src/isomorphism/bliss/orbit.o +#11 554.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/isomorphism/bliss/partition.cc -o vendor/cigraph/src/isomorphism/bliss/partition.o +#11 554.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/isomorphism/bliss/uintseqhash.cc -o vendor/cigraph/src/isomorphism/bliss/uintseqhash.o +#11 554.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/isomorphism/bliss/utils.cc -o vendor/cigraph/src/isomorphism/bliss/utils.o +#11 554.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/isomorphism/isoclasses.c -o vendor/cigraph/src/isomorphism/isoclasses.o +#11 554.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/isomorphism/isomorphism_misc.c -o vendor/cigraph/src/isomorphism/isomorphism_misc.o +#11 554.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/isomorphism/lad.c -o vendor/cigraph/src/isomorphism/lad.o +#11 555.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/isomorphism/queries.c -o vendor/cigraph/src/isomorphism/queries.o +#11 555.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/isomorphism/vf2.c -o vendor/cigraph/src/isomorphism/vf2.o +#11 555.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/align.c -o vendor/cigraph/src/layout/align.o +#11 555.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/circular.c -o vendor/cigraph/src/layout/circular.o +#11 555.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/davidson_harel.c -o vendor/cigraph/src/layout/davidson_harel.o +#11 555.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/drl/DensityGrid.cpp -o vendor/cigraph/src/layout/drl/DensityGrid.o +#11 556.0 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/drl/DensityGrid_3d.cpp -o vendor/cigraph/src/layout/drl/DensityGrid_3d.o +#11 556.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/drl/drl_graph.cpp -o vendor/cigraph/src/layout/drl/drl_graph.o +#11 556.5 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/drl/drl_graph_3d.cpp -o vendor/cigraph/src/layout/drl/drl_graph_3d.o +#11 556.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/drl/drl_layout.cpp -o vendor/cigraph/src/layout/drl/drl_layout.o +#11 557.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/drl/drl_layout_3d.cpp -o vendor/cigraph/src/layout/drl/drl_layout_3d.o +#11 557.3 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/drl/drl_parse.cpp -o vendor/cigraph/src/layout/drl/drl_parse.o +#11 557.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/fruchterman_reingold.c -o vendor/cigraph/src/layout/fruchterman_reingold.o +#11 557.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/gem.c -o vendor/cigraph/src/layout/gem.o +#11 557.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/graphopt.c -o vendor/cigraph/src/layout/graphopt.o +#11 557.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/kamada_kawai.c -o vendor/cigraph/src/layout/kamada_kawai.o +#11 557.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/large_graph.c -o vendor/cigraph/src/layout/large_graph.o +#11 557.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/layout_bipartite.c -o vendor/cigraph/src/layout/layout_bipartite.o +#11 557.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/layout_grid.c -o vendor/cigraph/src/layout/layout_grid.o +#11 557.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/layout_random.c -o vendor/cigraph/src/layout/layout_random.o +#11 557.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/mds.c -o vendor/cigraph/src/layout/mds.o +#11 558.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/merge_dla.c -o vendor/cigraph/src/layout/merge_dla.o +#11 558.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/merge_grid.c -o vendor/cigraph/src/layout/merge_grid.o +#11 558.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/reingold_tilford.c -o vendor/cigraph/src/layout/reingold_tilford.o +#11 558.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/sugiyama.c -o vendor/cigraph/src/layout/sugiyama.o +#11 558.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/layout/umap.c -o vendor/cigraph/src/layout/umap.o +#11 558.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/linalg/arpack.c -o vendor/cigraph/src/linalg/arpack.o +#11 558.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/linalg/blas.c -o vendor/cigraph/src/linalg/blas.o +#11 559.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/linalg/eigen.c -o vendor/cigraph/src/linalg/eigen.o +#11 559.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/linalg/lapack.c -o vendor/cigraph/src/linalg/lapack.o +#11 559.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/math/complex.c -o vendor/cigraph/src/math/complex.o +#11 559.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/math/safe_intop.c -o vendor/cigraph/src/math/safe_intop.o +#11 559.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/math/utils.c -o vendor/cigraph/src/math/utils.o +#11 559.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/bipartite.c -o vendor/cigraph/src/misc/bipartite.o +#11 559.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/chordality.c -o vendor/cigraph/src/misc/chordality.o +#11 560.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/cocitation.c -o vendor/cigraph/src/misc/cocitation.o +#11 560.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/coloring.c -o vendor/cigraph/src/misc/coloring.o +#11 560.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/conversion.c -o vendor/cigraph/src/misc/conversion.o +#11 560.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/cycle_bases.c -o vendor/cigraph/src/misc/cycle_bases.o +#11 560.5 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/degree_sequence.cpp -o vendor/cigraph/src/misc/degree_sequence.o +#11 561.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/embedding.c -o vendor/cigraph/src/misc/embedding.o +#11 561.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/feedback_arc_set.c -o vendor/cigraph/src/misc/feedback_arc_set.o +#11 561.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/graphicality.c -o vendor/cigraph/src/misc/graphicality.o +#11 561.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/matching.c -o vendor/cigraph/src/misc/matching.o +#11 562.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/microscopic_update.c -o vendor/cigraph/src/misc/microscopic_update.o +#11 562.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/mixing.c -o vendor/cigraph/src/misc/mixing.o +#11 562.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/motifs.c -o vendor/cigraph/src/misc/motifs.o +#11 562.4 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/order_cycle.cpp -o vendor/cigraph/src/misc/order_cycle.o +#11 562.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/other.c -o vendor/cigraph/src/misc/other.o +#11 562.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/power_law_fit.c -o vendor/cigraph/src/misc/power_law_fit.o +#11 562.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/scan.c -o vendor/cigraph/src/misc/scan.o +#11 562.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/sir.c -o vendor/cigraph/src/misc/sir.o +#11 562.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/misc/spanning_trees.c -o vendor/cigraph/src/misc/spanning_trees.o +#11 563.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/add_edge.c -o vendor/cigraph/src/operators/add_edge.o +#11 563.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/complementer.c -o vendor/cigraph/src/operators/complementer.o +#11 563.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/compose.c -o vendor/cigraph/src/operators/compose.o +#11 563.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/connect_neighborhood.c -o vendor/cigraph/src/operators/connect_neighborhood.o +#11 563.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/contract.c -o vendor/cigraph/src/operators/contract.o +#11 563.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/difference.c -o vendor/cigraph/src/operators/difference.o +#11 563.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/disjoint_union.c -o vendor/cigraph/src/operators/disjoint_union.o +#11 563.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/intersection.c -o vendor/cigraph/src/operators/intersection.o +#11 563.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/join.c -o vendor/cigraph/src/operators/join.o +#11 563.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/misc_internal.c -o vendor/cigraph/src/operators/misc_internal.o +#11 563.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/permute.c -o vendor/cigraph/src/operators/permute.o +#11 563.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/products.c -o vendor/cigraph/src/operators/products.o +#11 563.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/reverse.c -o vendor/cigraph/src/operators/reverse.o +#11 563.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/rewire.c -o vendor/cigraph/src/operators/rewire.o +#11 563.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/rewire_edges.c -o vendor/cigraph/src/operators/rewire_edges.o +#11 563.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/simplify.c -o vendor/cigraph/src/operators/simplify.o +#11 563.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/subgraph.c -o vendor/cigraph/src/operators/subgraph.o +#11 563.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/operators/union.c -o vendor/cigraph/src/operators/union.o +#11 564.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/paths/all_shortest_paths.c -o vendor/cigraph/src/paths/all_shortest_paths.o +#11 564.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/paths/astar.c -o vendor/cigraph/src/paths/astar.o +#11 564.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/paths/bellman_ford.c -o vendor/cigraph/src/paths/bellman_ford.o +#11 564.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/paths/dijkstra.c -o vendor/cigraph/src/paths/dijkstra.o +#11 564.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/paths/distances.c -o vendor/cigraph/src/paths/distances.o +#11 564.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/paths/eulerian.c -o vendor/cigraph/src/paths/eulerian.o +#11 564.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/paths/floyd_warshall.c -o vendor/cigraph/src/paths/floyd_warshall.o +#11 564.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/paths/histogram.c -o vendor/cigraph/src/paths/histogram.o +#11 564.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/paths/johnson.c -o vendor/cigraph/src/paths/johnson.o +#11 564.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/paths/random_walk.c -o vendor/cigraph/src/paths/random_walk.o +#11 564.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/paths/shortest_paths.c -o vendor/cigraph/src/paths/shortest_paths.o +#11 565.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/paths/simple_paths.c -o vendor/cigraph/src/paths/simple_paths.o +#11 565.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/paths/sparsifier.c -o vendor/cigraph/src/paths/sparsifier.o +#11 565.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/paths/unweighted.c -o vendor/cigraph/src/paths/unweighted.o +#11 565.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/paths/voronoi.c -o vendor/cigraph/src/paths/voronoi.o +#11 565.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/paths/widest_paths.c -o vendor/cigraph/src/paths/widest_paths.o +#11 565.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/properties/basic_properties.c -o vendor/cigraph/src/properties/basic_properties.o +#11 565.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/properties/complete.c -o vendor/cigraph/src/properties/complete.o +#11 565.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/properties/constraint.c -o vendor/cigraph/src/properties/constraint.o +#11 565.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/properties/convergence_degree.c -o vendor/cigraph/src/properties/convergence_degree.o +#11 565.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/properties/dag.c -o vendor/cigraph/src/properties/dag.o +#11 565.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/properties/degrees.c -o vendor/cigraph/src/properties/degrees.o +#11 566.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/properties/ecc.c -o vendor/cigraph/src/properties/ecc.o +#11 566.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/properties/girth.c -o vendor/cigraph/src/properties/girth.o +#11 566.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/properties/loops.c -o vendor/cigraph/src/properties/loops.o +#11 566.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/properties/multiplicity.c -o vendor/cigraph/src/properties/multiplicity.o +#11 566.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/properties/neighborhood.c -o vendor/cigraph/src/properties/neighborhood.o +#11 566.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/properties/perfect.c -o vendor/cigraph/src/properties/perfect.o +#11 566.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/properties/rich_club.c -o vendor/cigraph/src/properties/rich_club.o +#11 566.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/properties/spectral.c -o vendor/cigraph/src/properties/spectral.o +#11 566.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/properties/trees.c -o vendor/cigraph/src/properties/trees.o +#11 566.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/properties/triangles.c -o vendor/cigraph/src/properties/triangles.o +#11 566.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/random/random.c -o vendor/cigraph/src/random/random.o +#11 567.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/random/rng_glibc2.c -o vendor/cigraph/src/random/rng_glibc2.o +#11 567.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/random/rng_mt19937.c -o vendor/cigraph/src/random/rng_mt19937.o +#11 567.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/random/rng_pcg32.c -o vendor/cigraph/src/random/rng_pcg32.o +#11 567.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/random/rng_pcg64.c -o vendor/cigraph/src/random/rng_pcg64.o +#11 567.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/src/version.c -o vendor/cigraph/src/version.o +#11 567.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_add.c -o vendor/cigraph/vendor/cs/cs_add.o +#11 567.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_amd.c -o vendor/cigraph/vendor/cs/cs_amd.o +#11 567.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_chol.c -o vendor/cigraph/vendor/cs/cs_chol.o +#11 567.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_cholsol.c -o vendor/cigraph/vendor/cs/cs_cholsol.o +#11 567.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_compress.c -o vendor/cigraph/vendor/cs/cs_compress.o +#11 567.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_counts.c -o vendor/cigraph/vendor/cs/cs_counts.o +#11 567.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_cumsum.c -o vendor/cigraph/vendor/cs/cs_cumsum.o +#11 567.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_dfs.c -o vendor/cigraph/vendor/cs/cs_dfs.o +#11 567.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_dmperm.c -o vendor/cigraph/vendor/cs/cs_dmperm.o +#11 567.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_droptol.c -o vendor/cigraph/vendor/cs/cs_droptol.o +#11 567.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_dropzeros.c -o vendor/cigraph/vendor/cs/cs_dropzeros.o +#11 567.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_dupl.c -o vendor/cigraph/vendor/cs/cs_dupl.o +#11 567.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_entry.c -o vendor/cigraph/vendor/cs/cs_entry.o +#11 567.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_ereach.c -o vendor/cigraph/vendor/cs/cs_ereach.o +#11 567.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_etree.c -o vendor/cigraph/vendor/cs/cs_etree.o +#11 567.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_fkeep.c -o vendor/cigraph/vendor/cs/cs_fkeep.o +#11 567.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_gaxpy.c -o vendor/cigraph/vendor/cs/cs_gaxpy.o +#11 567.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_happly.c -o vendor/cigraph/vendor/cs/cs_happly.o +#11 567.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_house.c -o vendor/cigraph/vendor/cs/cs_house.o +#11 567.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_ipvec.c -o vendor/cigraph/vendor/cs/cs_ipvec.o +#11 567.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_leaf.c -o vendor/cigraph/vendor/cs/cs_leaf.o +#11 567.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_load.c -o vendor/cigraph/vendor/cs/cs_load.o +#11 568.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_lsolve.c -o vendor/cigraph/vendor/cs/cs_lsolve.o +#11 568.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_ltsolve.c -o vendor/cigraph/vendor/cs/cs_ltsolve.o +#11 568.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_lu.c -o vendor/cigraph/vendor/cs/cs_lu.o +#11 568.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_lusol.c -o vendor/cigraph/vendor/cs/cs_lusol.o +#11 568.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_malloc.c -o vendor/cigraph/vendor/cs/cs_malloc.o +#11 568.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_maxtrans.c -o vendor/cigraph/vendor/cs/cs_maxtrans.o +#11 568.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_multiply.c -o vendor/cigraph/vendor/cs/cs_multiply.o +#11 568.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_norm.c -o vendor/cigraph/vendor/cs/cs_norm.o +#11 568.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_permute.c -o vendor/cigraph/vendor/cs/cs_permute.o +#11 568.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_pinv.c -o vendor/cigraph/vendor/cs/cs_pinv.o +#11 568.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_post.c -o vendor/cigraph/vendor/cs/cs_post.o +#11 568.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_print.c -o vendor/cigraph/vendor/cs/cs_print.o +#11 568.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_pvec.c -o vendor/cigraph/vendor/cs/cs_pvec.o +#11 568.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_qr.c -o vendor/cigraph/vendor/cs/cs_qr.o +#11 568.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_qrsol.c -o vendor/cigraph/vendor/cs/cs_qrsol.o +#11 568.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_randperm.c -o vendor/cigraph/vendor/cs/cs_randperm.o +#11 568.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_reach.c -o vendor/cigraph/vendor/cs/cs_reach.o +#11 568.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_scatter.c -o vendor/cigraph/vendor/cs/cs_scatter.o +#11 568.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_scc.c -o vendor/cigraph/vendor/cs/cs_scc.o +#11 568.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_schol.c -o vendor/cigraph/vendor/cs/cs_schol.o +#11 568.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_spsolve.c -o vendor/cigraph/vendor/cs/cs_spsolve.o +#11 568.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_sqr.c -o vendor/cigraph/vendor/cs/cs_sqr.o +#11 568.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_symperm.c -o vendor/cigraph/vendor/cs/cs_symperm.o +#11 568.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_tdfs.c -o vendor/cigraph/vendor/cs/cs_tdfs.o +#11 568.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_transpose.c -o vendor/cigraph/vendor/cs/cs_transpose.o +#11 568.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_updown.c -o vendor/cigraph/vendor/cs/cs_updown.o +#11 568.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_usolve.c -o vendor/cigraph/vendor/cs/cs_usolve.o +#11 568.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_util.c -o vendor/cigraph/vendor/cs/cs_util.o +#11 568.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/cs/cs_utsolve.c -o vendor/cigraph/vendor/cs/cs_utsolve.o +#11 568.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/pcg/pcg-advance-128.c -o vendor/cigraph/vendor/pcg/pcg-advance-128.o +#11 568.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/pcg/pcg-advance-64.c -o vendor/cigraph/vendor/pcg/pcg-advance-64.o +#11 569.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/pcg/pcg-output-128.c -o vendor/cigraph/vendor/pcg/pcg-output-128.o +#11 569.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/pcg/pcg-output-32.c -o vendor/cigraph/vendor/pcg/pcg-output-32.o +#11 569.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/pcg/pcg-output-64.c -o vendor/cigraph/vendor/pcg/pcg-output-64.o +#11 569.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/pcg/pcg-rngs-128.c -o vendor/cigraph/vendor/pcg/pcg-rngs-128.o +#11 569.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/pcg/pcg-rngs-64.c -o vendor/cigraph/vendor/pcg/pcg-rngs-64.o +#11 569.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/plfit/gss.c -o vendor/cigraph/vendor/plfit/gss.o +#11 569.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/plfit/hzeta.c -o vendor/cigraph/vendor/plfit/hzeta.o +#11 569.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/plfit/kolmogorov.c -o vendor/cigraph/vendor/plfit/kolmogorov.o +#11 569.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/plfit/lbfgs.c -o vendor/cigraph/vendor/plfit/lbfgs.o +#11 569.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/plfit/mt.c -o vendor/cigraph/vendor/plfit/mt.o +#11 569.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/plfit/options.c -o vendor/cigraph/vendor/plfit/options.o +#11 569.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/plfit/plfit.c -o vendor/cigraph/vendor/plfit/plfit.o +#11 569.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/plfit/plfit_error.c -o vendor/cigraph/vendor/plfit/plfit_error.o +#11 569.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/plfit/rbinom.c -o vendor/cigraph/vendor/plfit/rbinom.o +#11 569.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/plfit/sampling.c -o vendor/cigraph/vendor/plfit/sampling.o +#11 569.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/io/dl-lexer.c -o vendor/io/dl-lexer.o +#11 569.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/io/dl-parser.c -o vendor/io/dl-parser.o +#11 570.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/io/gml-lexer.c -o vendor/io/gml-lexer.o +#11 570.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/io/gml-parser.c -o vendor/io/gml-parser.o +#11 570.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/io/lgl-lexer.c -o vendor/io/lgl-lexer.o +#11 571.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/io/lgl-parser.c -o vendor/io/lgl-parser.o +#11 571.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/io/ncol-lexer.c -o vendor/io/ncol-lexer.o +#11 571.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/io/ncol-parser.c -o vendor/io/ncol-parser.o +#11 571.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/io/pajek-lexer.c -o vendor/io/pajek-lexer.o +#11 572.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/io/pajek-parser.c -o vendor/io/pajek-parser.o +#11 572.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/simpleraytracer/Color.cpp -o vendor/simpleraytracer/Color.o +#11 573.0 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/simpleraytracer/Light.cpp -o vendor/simpleraytracer/Light.o +#11 573.3 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/simpleraytracer/Point.cpp -o vendor/simpleraytracer/Point.o +#11 573.7 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/simpleraytracer/Ray.cpp -o vendor/simpleraytracer/Ray.o +#11 573.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/simpleraytracer/RayTracer.cpp -o vendor/simpleraytracer/RayTracer.o +#11 574.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/simpleraytracer/RayVector.cpp -o vendor/simpleraytracer/RayVector.o +#11 574.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/simpleraytracer/Shape.cpp -o vendor/simpleraytracer/Shape.o +#11 574.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/simpleraytracer/Sphere.cpp -o vendor/simpleraytracer/Sphere.o +#11 574.3 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/simpleraytracer/Triangle.cpp -o vendor/simpleraytracer/Triangle.o +#11 574.5 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/simpleraytracer/unit_limiter.cpp -o vendor/simpleraytracer/unit_limiter.o +#11 574.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/uuid/clear.c -o vendor/uuid/clear.o +#11 574.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/uuid/compare.c -o vendor/uuid/compare.o +#11 574.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/uuid/copy.c -o vendor/uuid/copy.o +#11 574.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/uuid/gen_uuid.c -o vendor/uuid/gen_uuid.o +#11 574.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/uuid/isnull.c -o vendor/uuid/isnull.o +#11 574.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/uuid/pack.c -o vendor/uuid/pack.o +#11 574.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/uuid/parse.c -o vendor/uuid/parse.o +#11 574.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/uuid/unpack.c -o vendor/uuid/unpack.o +#11 574.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/uuid/unparse.c -o vendor/uuid/unparse.o +#11 574.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rinterface.c -o rinterface.o +#11 576.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rinterface_extra.c -o rinterface_extra.o +#11 577.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rrandom.c -o rrandom.o +#11 577.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c uuid.c -o uuid.o +#11 577.9 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cpp11.cpp -o cpp11.o +#11 578.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cpprinterface.cpp -o cpprinterface.o +#11 578.6 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.cpp -o init.o +#11 578.8 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c simpleraytracer.cpp -o simpleraytracer.o +#11 579.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/mini-gmp/mini-gmp.c -o vendor/cigraph/vendor/mini-gmp/mini-gmp.o +#11 579.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/amd/amd_1.c -o vendor/cigraph/vendor/glpk/amd/amd_1.o +#11 579.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/amd/amd_2.c -o vendor/cigraph/vendor/glpk/amd/amd_2.o +#11 579.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/amd/amd_aat.c -o vendor/cigraph/vendor/glpk/amd/amd_aat.o +#11 579.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/amd/amd_control.c -o vendor/cigraph/vendor/glpk/amd/amd_control.o +#11 579.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/amd/amd_defaults.c -o vendor/cigraph/vendor/glpk/amd/amd_defaults.o +#11 579.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/amd/amd_dump.c -o vendor/cigraph/vendor/glpk/amd/amd_dump.o +#11 580.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/amd/amd_info.c -o vendor/cigraph/vendor/glpk/amd/amd_info.o +#11 580.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/amd/amd_order.c -o vendor/cigraph/vendor/glpk/amd/amd_order.o +#11 580.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/amd/amd_post_tree.c -o vendor/cigraph/vendor/glpk/amd/amd_post_tree.o +#11 580.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/amd/amd_postorder.c -o vendor/cigraph/vendor/glpk/amd/amd_postorder.o +#11 580.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/amd/amd_preprocess.c -o vendor/cigraph/vendor/glpk/amd/amd_preprocess.o +#11 580.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/amd/amd_valid.c -o vendor/cigraph/vendor/glpk/amd/amd_valid.o +#11 580.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/advbas.c -o vendor/cigraph/vendor/glpk/api/advbas.o +#11 580.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/asnhall.c -o vendor/cigraph/vendor/glpk/api/asnhall.o +#11 580.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/asnlp.c -o vendor/cigraph/vendor/glpk/api/asnlp.o +#11 580.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/asnokalg.c -o vendor/cigraph/vendor/glpk/api/asnokalg.o +#11 580.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/ckasn.c -o vendor/cigraph/vendor/glpk/api/ckasn.o +#11 580.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/ckcnf.c -o vendor/cigraph/vendor/glpk/api/ckcnf.o +#11 580.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/cplex.c -o vendor/cigraph/vendor/glpk/api/cplex.o +#11 580.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/cpp.c -o vendor/cigraph/vendor/glpk/api/cpp.o +#11 580.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/cpxbas.c -o vendor/cigraph/vendor/glpk/api/cpxbas.o +#11 580.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/graph.c -o vendor/cigraph/vendor/glpk/api/graph.o +#11 580.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/gridgen.c -o vendor/cigraph/vendor/glpk/api/gridgen.o +#11 580.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/intfeas1.c -o vendor/cigraph/vendor/glpk/api/intfeas1.o +#11 580.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/maxffalg.c -o vendor/cigraph/vendor/glpk/api/maxffalg.o +#11 580.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/maxflp.c -o vendor/cigraph/vendor/glpk/api/maxflp.o +#11 581.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/mcflp.c -o vendor/cigraph/vendor/glpk/api/mcflp.o +#11 581.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/mcfokalg.c -o vendor/cigraph/vendor/glpk/api/mcfokalg.o +#11 581.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/mcfrelax.c -o vendor/cigraph/vendor/glpk/api/mcfrelax.o +#11 581.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/minisat1.c -o vendor/cigraph/vendor/glpk/api/minisat1.o +#11 581.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/mpl.c -o vendor/cigraph/vendor/glpk/api/mpl.o +#11 581.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/mps.c -o vendor/cigraph/vendor/glpk/api/mps.o +#11 581.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/netgen.c -o vendor/cigraph/vendor/glpk/api/netgen.o +#11 581.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/npp.c -o vendor/cigraph/vendor/glpk/api/npp.o +#11 581.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/pript.c -o vendor/cigraph/vendor/glpk/api/pript.o +#11 581.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/prmip.c -o vendor/cigraph/vendor/glpk/api/prmip.o +#11 581.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/prob1.c -o vendor/cigraph/vendor/glpk/api/prob1.o +#11 581.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/prob2.c -o vendor/cigraph/vendor/glpk/api/prob2.o +#11 581.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/prob3.c -o vendor/cigraph/vendor/glpk/api/prob3.o +#11 581.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/prob4.c -o vendor/cigraph/vendor/glpk/api/prob4.o +#11 581.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/prob5.c -o vendor/cigraph/vendor/glpk/api/prob5.o +#11 582.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/prrngs.c -o vendor/cigraph/vendor/glpk/api/prrngs.o +#11 582.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/prsol.c -o vendor/cigraph/vendor/glpk/api/prsol.o +#11 582.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/rdasn.c -o vendor/cigraph/vendor/glpk/api/rdasn.o +#11 582.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/rdcc.c -o vendor/cigraph/vendor/glpk/api/rdcc.o +#11 582.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/rdcnf.c -o vendor/cigraph/vendor/glpk/api/rdcnf.o +#11 582.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/rdipt.c -o vendor/cigraph/vendor/glpk/api/rdipt.o +#11 582.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/rdmaxf.c -o vendor/cigraph/vendor/glpk/api/rdmaxf.o +#11 582.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/rdmcf.c -o vendor/cigraph/vendor/glpk/api/rdmcf.o +#11 582.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/rdmip.c -o vendor/cigraph/vendor/glpk/api/rdmip.o +#11 582.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/rdprob.c -o vendor/cigraph/vendor/glpk/api/rdprob.o +#11 582.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/rdsol.c -o vendor/cigraph/vendor/glpk/api/rdsol.o +#11 582.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/rmfgen.c -o vendor/cigraph/vendor/glpk/api/rmfgen.o +#11 582.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/strong.c -o vendor/cigraph/vendor/glpk/api/strong.o +#11 582.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/topsort.c -o vendor/cigraph/vendor/glpk/api/topsort.o +#11 582.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/wcliqex.c -o vendor/cigraph/vendor/glpk/api/wcliqex.o +#11 582.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/weak.c -o vendor/cigraph/vendor/glpk/api/weak.o +#11 582.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/wrasn.c -o vendor/cigraph/vendor/glpk/api/wrasn.o +#11 582.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/wrcc.c -o vendor/cigraph/vendor/glpk/api/wrcc.o +#11 582.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/wrcnf.c -o vendor/cigraph/vendor/glpk/api/wrcnf.o +#11 582.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/wript.c -o vendor/cigraph/vendor/glpk/api/wript.o +#11 582.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/wrmaxf.c -o vendor/cigraph/vendor/glpk/api/wrmaxf.o +#11 582.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/wrmcf.c -o vendor/cigraph/vendor/glpk/api/wrmcf.o +#11 582.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/wrmip.c -o vendor/cigraph/vendor/glpk/api/wrmip.o +#11 583.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/wrprob.c -o vendor/cigraph/vendor/glpk/api/wrprob.o +#11 583.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/api/wrsol.c -o vendor/cigraph/vendor/glpk/api/wrsol.o +#11 583.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/bflib/btf.c -o vendor/cigraph/vendor/glpk/bflib/btf.o +#11 583.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/bflib/btfint.c -o vendor/cigraph/vendor/glpk/bflib/btfint.o +#11 583.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/bflib/fhv.c -o vendor/cigraph/vendor/glpk/bflib/fhv.o +#11 583.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/bflib/fhvint.c -o vendor/cigraph/vendor/glpk/bflib/fhvint.o +#11 583.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/bflib/ifu.c -o vendor/cigraph/vendor/glpk/bflib/ifu.o +#11 583.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/bflib/luf.c -o vendor/cigraph/vendor/glpk/bflib/luf.o +#11 583.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/bflib/lufint.c -o vendor/cigraph/vendor/glpk/bflib/lufint.o +#11 583.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/bflib/scf.c -o vendor/cigraph/vendor/glpk/bflib/scf.o +#11 583.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/bflib/scfint.c -o vendor/cigraph/vendor/glpk/bflib/scfint.o +#11 583.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/bflib/sgf.c -o vendor/cigraph/vendor/glpk/bflib/sgf.o +#11 584.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/bflib/sva.c -o vendor/cigraph/vendor/glpk/bflib/sva.o +#11 584.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/colamd/colamd.c -o vendor/cigraph/vendor/glpk/colamd/colamd.o +#11 584.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/bfd.c -o vendor/cigraph/vendor/glpk/draft/bfd.o +#11 584.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/bfx.c -o vendor/cigraph/vendor/glpk/draft/bfx.o +#11 584.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpapi06.c -o vendor/cigraph/vendor/glpk/draft/glpapi06.o +#11 584.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpapi07.c -o vendor/cigraph/vendor/glpk/draft/glpapi07.o +#11 584.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpapi08.c -o vendor/cigraph/vendor/glpk/draft/glpapi08.o +#11 584.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpapi09.c -o vendor/cigraph/vendor/glpk/draft/glpapi09.o +#11 584.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpapi10.c -o vendor/cigraph/vendor/glpk/draft/glpapi10.o +#11 584.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpapi12.c -o vendor/cigraph/vendor/glpk/draft/glpapi12.o +#11 584.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpapi13.c -o vendor/cigraph/vendor/glpk/draft/glpapi13.o +#11 585.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpios01.c -o vendor/cigraph/vendor/glpk/draft/glpios01.o +#11 585.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpios02.c -o vendor/cigraph/vendor/glpk/draft/glpios02.o +#11 585.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpios03.c -o vendor/cigraph/vendor/glpk/draft/glpios03.o +#11 585.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpios07.c -o vendor/cigraph/vendor/glpk/draft/glpios07.o +#11 585.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpios09.c -o vendor/cigraph/vendor/glpk/draft/glpios09.o +#11 585.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpios11.c -o vendor/cigraph/vendor/glpk/draft/glpios11.o +#11 585.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpios12.c -o vendor/cigraph/vendor/glpk/draft/glpios12.o +#11 585.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpipm.c -o vendor/cigraph/vendor/glpk/draft/glpipm.o +#11 586.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpmat.c -o vendor/cigraph/vendor/glpk/draft/glpmat.o +#11 586.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpscl.c -o vendor/cigraph/vendor/glpk/draft/glpscl.o +#11 586.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpssx01.c -o vendor/cigraph/vendor/glpk/draft/glpssx01.o +#11 586.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/glpssx02.c -o vendor/cigraph/vendor/glpk/draft/glpssx02.o +#11 586.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/draft/lux.c -o vendor/cigraph/vendor/glpk/draft/lux.o +#11 586.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/env/alloc.c -o vendor/cigraph/vendor/glpk/env/alloc.o +#11 586.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/env/dlsup.c -o vendor/cigraph/vendor/glpk/env/dlsup.o +#11 586.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/env/env.c -o vendor/cigraph/vendor/glpk/env/env.o +#11 586.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/env/error.c -o vendor/cigraph/vendor/glpk/env/error.o +#11 586.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/env/stdc.c -o vendor/cigraph/vendor/glpk/env/stdc.o +#11 586.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/env/stdout.c -o vendor/cigraph/vendor/glpk/env/stdout.o +#11 586.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/env/stream.c -o vendor/cigraph/vendor/glpk/env/stream.o +#11 586.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/env/time.c -o vendor/cigraph/vendor/glpk/env/time.o +#11 586.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/env/tls.c -o vendor/cigraph/vendor/glpk/env/tls.o +#11 586.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/intopt/cfg.c -o vendor/cigraph/vendor/glpk/intopt/cfg.o +#11 587.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/intopt/cfg1.c -o vendor/cigraph/vendor/glpk/intopt/cfg1.o +#11 587.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/intopt/cfg2.c -o vendor/cigraph/vendor/glpk/intopt/cfg2.o +#11 587.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/intopt/clqcut.c -o vendor/cigraph/vendor/glpk/intopt/clqcut.o +#11 587.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/intopt/covgen.c -o vendor/cigraph/vendor/glpk/intopt/covgen.o +#11 587.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/intopt/fpump.c -o vendor/cigraph/vendor/glpk/intopt/fpump.o +#11 587.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/intopt/gmicut.c -o vendor/cigraph/vendor/glpk/intopt/gmicut.o +#11 587.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/intopt/gmigen.c -o vendor/cigraph/vendor/glpk/intopt/gmigen.o +#11 587.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/intopt/mirgen.c -o vendor/cigraph/vendor/glpk/intopt/mirgen.o +#11 587.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/intopt/spv.c -o vendor/cigraph/vendor/glpk/intopt/spv.o +#11 587.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/minisat/minisat.c -o vendor/cigraph/vendor/glpk/minisat/minisat.o +#11 587.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/avl.c -o vendor/cigraph/vendor/glpk/misc/avl.o +#11 588.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/bignum.c -o vendor/cigraph/vendor/glpk/misc/bignum.o +#11 588.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/dimacs.c -o vendor/cigraph/vendor/glpk/misc/dimacs.o +#11 588.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/dmp.c -o vendor/cigraph/vendor/glpk/misc/dmp.o +#11 588.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/ffalg.c -o vendor/cigraph/vendor/glpk/misc/ffalg.o +#11 588.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/fp2rat.c -o vendor/cigraph/vendor/glpk/misc/fp2rat.o +#11 588.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/fvs.c -o vendor/cigraph/vendor/glpk/misc/fvs.o +#11 588.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/gcd.c -o vendor/cigraph/vendor/glpk/misc/gcd.o +#11 588.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/hbm.c -o vendor/cigraph/vendor/glpk/misc/hbm.o +#11 588.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/jd.c -o vendor/cigraph/vendor/glpk/misc/jd.o +#11 588.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/keller.c -o vendor/cigraph/vendor/glpk/misc/keller.o +#11 588.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/ks.c -o vendor/cigraph/vendor/glpk/misc/ks.o +#11 588.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/mc13d.c -o vendor/cigraph/vendor/glpk/misc/mc13d.o +#11 588.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/mc21a.c -o vendor/cigraph/vendor/glpk/misc/mc21a.o +#11 588.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/mt1.c -o vendor/cigraph/vendor/glpk/misc/mt1.o +#11 588.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/mygmp.c -o vendor/cigraph/vendor/glpk/misc/mygmp.o +#11 588.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/okalg.c -o vendor/cigraph/vendor/glpk/misc/okalg.o +#11 588.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/qmd.c -o vendor/cigraph/vendor/glpk/misc/qmd.o +#11 588.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/relax4.c -o vendor/cigraph/vendor/glpk/misc/relax4.o +#11 589.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/rgr.c -o vendor/cigraph/vendor/glpk/misc/rgr.o +#11 589.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/rng.c -o vendor/cigraph/vendor/glpk/misc/rng.o +#11 589.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/rng1.c -o vendor/cigraph/vendor/glpk/misc/rng1.o +#11 589.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/round2n.c -o vendor/cigraph/vendor/glpk/misc/round2n.o +#11 589.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/spm.c -o vendor/cigraph/vendor/glpk/misc/spm.o +#11 589.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/str2int.c -o vendor/cigraph/vendor/glpk/misc/str2int.o +#11 589.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/str2num.c -o vendor/cigraph/vendor/glpk/misc/str2num.o +#11 589.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/strspx.c -o vendor/cigraph/vendor/glpk/misc/strspx.o +#11 589.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/strtrim.c -o vendor/cigraph/vendor/glpk/misc/strtrim.o +#11 589.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/triang.c -o vendor/cigraph/vendor/glpk/misc/triang.o +#11 589.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/wclique.c -o vendor/cigraph/vendor/glpk/misc/wclique.o +#11 589.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/misc/wclique1.c -o vendor/cigraph/vendor/glpk/misc/wclique1.o +#11 589.4 In file included from /usr/include/string.h:535, +#11 589.4 from vendor/cigraph/vendor/glpk/env/stdc.h:35, +#11 589.4 from vendor/cigraph/vendor/glpk/env/env.h:25, +#11 589.4 from vendor/cigraph/vendor/glpk/misc/wclique1.c:22: +#11 589.4 In function ‘memset’, +#11 589.4 inlined from ‘_glp_wclique1’ at vendor/cigraph/vendor/glpk/misc/wclique1.c:111:7: +#11 589.4 /usr/include/aarch64-linux-gnu/bits/string_fortified.h:59:10: warning: ‘__builtin_memset’ specified bound between 18446744071562067968 and 18446744073709551615 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] +#11 589.4 59 | return __builtin___memset_chk (__dest, __ch, __len, +#11 589.4 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 589.4 60 | __glibc_objsize0 (__dest)); +#11 589.4 | ~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 589.4 In function ‘memset’, +#11 589.4 inlined from ‘_glp_wclique1’ at vendor/cigraph/vendor/glpk/misc/wclique1.c:113:7: +#11 589.4 /usr/include/aarch64-linux-gnu/bits/string_fortified.h:59:10: warning: ‘__builtin_memset’ specified bound between 18446744071562067968 and 18446744073709551615 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] +#11 589.4 59 | return __builtin___memset_chk (__dest, __ch, __len, +#11 589.4 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 589.4 60 | __glibc_objsize0 (__dest)); +#11 589.4 | ~~~~~~~~~~~~~~~~~~~~~~~~~~ +#11 589.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/mpl/mpl1.c -o vendor/cigraph/vendor/glpk/mpl/mpl1.o +#11 590.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/mpl/mpl2.c -o vendor/cigraph/vendor/glpk/mpl/mpl2.o +#11 590.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/mpl/mpl3.c -o vendor/cigraph/vendor/glpk/mpl/mpl3.o +#11 591.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/mpl/mpl4.c -o vendor/cigraph/vendor/glpk/mpl/mpl4.o +#11 591.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/mpl/mpl5.c -o vendor/cigraph/vendor/glpk/mpl/mpl5.o +#11 591.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/mpl/mpl6.c -o vendor/cigraph/vendor/glpk/mpl/mpl6.o +#11 591.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/mpl/mplsql.c -o vendor/cigraph/vendor/glpk/mpl/mplsql.o +#11 591.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/npp/npp1.c -o vendor/cigraph/vendor/glpk/npp/npp1.o +#11 591.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/npp/npp2.c -o vendor/cigraph/vendor/glpk/npp/npp2.o +#11 591.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/npp/npp3.c -o vendor/cigraph/vendor/glpk/npp/npp3.o +#11 591.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/npp/npp4.c -o vendor/cigraph/vendor/glpk/npp/npp4.o +#11 591.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/npp/npp5.c -o vendor/cigraph/vendor/glpk/npp/npp5.o +#11 592.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/npp/npp6.c -o vendor/cigraph/vendor/glpk/npp/npp6.o +#11 592.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/proxy/main.c -o vendor/cigraph/vendor/glpk/proxy/main.o +#11 592.2 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/proxy/proxy.c -o vendor/cigraph/vendor/glpk/proxy/proxy.o +#11 592.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/proxy/proxy1.c -o vendor/cigraph/vendor/glpk/proxy/proxy1.o +#11 592.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/simplex/spxat.c -o vendor/cigraph/vendor/glpk/simplex/spxat.o +#11 592.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/simplex/spxchuzc.c -o vendor/cigraph/vendor/glpk/simplex/spxchuzc.o +#11 592.4 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/simplex/spxchuzr.c -o vendor/cigraph/vendor/glpk/simplex/spxchuzr.o +#11 592.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/simplex/spxlp.c -o vendor/cigraph/vendor/glpk/simplex/spxlp.o +#11 592.6 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/simplex/spxnt.c -o vendor/cigraph/vendor/glpk/simplex/spxnt.o +#11 592.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/simplex/spxprim.c -o vendor/cigraph/vendor/glpk/simplex/spxprim.o +#11 592.9 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/simplex/spxprob.c -o vendor/cigraph/vendor/glpk/simplex/spxprob.o +#11 593.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/simplex/spychuzc.c -o vendor/cigraph/vendor/glpk/simplex/spychuzc.o +#11 593.0 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/simplex/spychuzr.c -o vendor/cigraph/vendor/glpk/simplex/spychuzr.o +#11 593.1 gcc -I"/usr/share/R/include" -DNDEBUG -DUSING_R -I. -Ivendor -Ivendor/cigraph/src -Ivendor/cigraph/include -Ivendor/cigraph/vendor -Ivendor/io/parsers -I/opt/conda/include/libxml2 -I/opt/conda/include -DHAVE_LIBXML -Ivendor/cigraph/vendor/glpk -Ivendor/cigraph/vendor/glpk/env -Ivendor/cigraph/vendor/glpk/minisat -Ivendor/cigraph/vendor/glpk/misc -Ivendor/cigraph/vendor/glpk/draft -Ivendor/cigraph/vendor/glpk/npp -Ivendor/cigraph/vendor/glpk/api -Ivendor/cigraph/vendor/glpk/mpl -Ivendor/cigraph/vendor/glpk/bflib -Ivendor/cigraph/vendor/glpk/amd -Ivendor/cigraph/vendor/glpk/simplex -Ivendor/cigraph/vendor/glpk/colamd -DNDEBUG -DNTIMER -DNPRINT -DIGRAPH_THREAD_LOCAL= -DPRPACK_IGRAPH_SUPPORT -DHAVE_GFORTRAN=1 -D_GNU_SOURCE=1 -I'/usr/local/lib/R/site-library/cpp11/include' -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c vendor/cigraph/vendor/glpk/simplex/spydual.c -o vendor/cigraph/vendor/glpk/simplex/spydual.o +#11 594.2 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o igraph.so vendor/arpack/dgetv0.o vendor/arpack/dlaqrb.o vendor/arpack/dmout.o vendor/arpack/dnaitr.o vendor/arpack/dnapps.o vendor/arpack/dnaup2.o vendor/arpack/dnaupd.o vendor/arpack/dnconv.o vendor/arpack/dneigh.o vendor/arpack/dneupd.o vendor/arpack/dngets.o vendor/arpack/dsaitr.o vendor/arpack/dsapps.o vendor/arpack/dsaup2.o vendor/arpack/dsaupd.o vendor/arpack/dsconv.o vendor/arpack/dseigt.o vendor/arpack/dsesrt.o vendor/arpack/dseupd.o vendor/arpack/dsgets.o vendor/arpack/dsortc.o vendor/arpack/dsortr.o vendor/arpack/dstatn.o vendor/arpack/dstats.o vendor/arpack/dstqrb.o vendor/arpack/dvout.o vendor/arpack/ivout.o vendor/arpack/second.o vendor/arpack/wrap.o vendor/cigraph/src/centrality/betweenness.o vendor/cigraph/src/centrality/centrality_other.o vendor/cigraph/src/centrality/centralization.o vendor/cigraph/src/centrality/closeness.o vendor/cigraph/src/centrality/coreness.o vendor/cigraph/src/centrality/eigenvector.o vendor/cigraph/src/centrality/hub_authority.o vendor/cigraph/src/centrality/pagerank.o vendor/cigraph/src/centrality/prpack.o vendor/cigraph/src/centrality/prpack/prpack_base_graph.o vendor/cigraph/src/centrality/prpack/prpack_igraph_graph.o vendor/cigraph/src/centrality/prpack/prpack_preprocessed_ge_graph.o vendor/cigraph/src/centrality/prpack/prpack_preprocessed_gs_graph.o vendor/cigraph/src/centrality/prpack/prpack_preprocessed_scc_graph.o vendor/cigraph/src/centrality/prpack/prpack_preprocessed_schur_graph.o vendor/cigraph/src/centrality/prpack/prpack_result.o vendor/cigraph/src/centrality/prpack/prpack_solver.o vendor/cigraph/src/centrality/prpack/prpack_utils.o vendor/cigraph/src/centrality/truss.o vendor/cigraph/src/cliques/cliquer/cliquer.o vendor/cigraph/src/cliques/cliquer/cliquer_graph.o vendor/cigraph/src/cliques/cliquer/reorder.o vendor/cigraph/src/cliques/cliquer_wrapper.o vendor/cigraph/src/cliques/cliques.o vendor/cigraph/src/cliques/glet.o vendor/cigraph/src/cliques/maximal_cliques.o vendor/cigraph/src/community/community_misc.o vendor/cigraph/src/community/edge_betweenness.o vendor/cigraph/src/community/fast_modularity.o vendor/cigraph/src/community/fluid.o vendor/cigraph/src/community/infomap/infomap.o vendor/cigraph/src/community/infomap/infomap_FlowGraph.o vendor/cigraph/src/community/infomap/infomap_Greedy.o vendor/cigraph/src/community/label_propagation.o vendor/cigraph/src/community/leading_eigenvector.o vendor/cigraph/src/community/leiden.o vendor/cigraph/src/community/louvain.o vendor/cigraph/src/community/modularity.o vendor/cigraph/src/community/optimal_modularity.o vendor/cigraph/src/community/spinglass/NetDataTypes.o vendor/cigraph/src/community/spinglass/NetRoutines.o vendor/cigraph/src/community/spinglass/clustertool.o vendor/cigraph/src/community/spinglass/pottsmodel_2.o vendor/cigraph/src/community/voronoi.o vendor/cigraph/src/community/walktrap/walktrap.o vendor/cigraph/src/community/walktrap/walktrap_communities.o vendor/cigraph/src/community/walktrap/walktrap_graph.o vendor/cigraph/src/community/walktrap/walktrap_heap.o vendor/cigraph/src/connectivity/cohesive_blocks.o vendor/cigraph/src/connectivity/components.o vendor/cigraph/src/connectivity/percolation.o vendor/cigraph/src/connectivity/reachability.o vendor/cigraph/src/connectivity/separators.o vendor/cigraph/src/constructors/adjacency.o vendor/cigraph/src/constructors/atlas.o vendor/cigraph/src/constructors/basic_constructors.o vendor/cigraph/src/constructors/circulant.o vendor/cigraph/src/constructors/de_bruijn.o vendor/cigraph/src/constructors/famous.o vendor/cigraph/src/constructors/full.o vendor/cigraph/src/constructors/generalized_petersen.o vendor/cigraph/src/constructors/kautz.o vendor/cigraph/src/constructors/lattices.o vendor/cigraph/src/constructors/lcf.o vendor/cigraph/src/constructors/linegraph.o vendor/cigraph/src/constructors/mycielskian.o vendor/cigraph/src/constructors/prufer.o vendor/cigraph/src/constructors/regular.o vendor/cigraph/src/constructors/trees.o vendor/cigraph/src/core/array.o vendor/cigraph/src/core/bitset.o vendor/cigraph/src/core/bitset_list.o vendor/cigraph/src/core/buckets.o vendor/cigraph/src/core/cutheap.o vendor/cigraph/src/core/dqueue.o vendor/cigraph/src/core/error.o vendor/cigraph/src/core/estack.o vendor/cigraph/src/core/fixed_vectorlist.o vendor/cigraph/src/core/genheap.o vendor/cigraph/src/core/grid.o vendor/cigraph/src/core/heap.o vendor/cigraph/src/core/indheap.o vendor/cigraph/src/core/interruption.o vendor/cigraph/src/core/marked_queue.o vendor/cigraph/src/core/matrix.o vendor/cigraph/src/core/matrix_list.o vendor/cigraph/src/core/memory.o vendor/cigraph/src/core/printing.o vendor/cigraph/src/core/progress.o vendor/cigraph/src/core/psumtree.o vendor/cigraph/src/core/set.o vendor/cigraph/src/core/sparsemat.o vendor/cigraph/src/core/stack.o vendor/cigraph/src/core/statusbar.o vendor/cigraph/src/core/strvector.o vendor/cigraph/src/core/trie.o vendor/cigraph/src/core/vector.o vendor/cigraph/src/core/vector_list.o vendor/cigraph/src/core/vector_ptr.o vendor/cigraph/src/cycles/simple_cycles.o vendor/cigraph/src/flow/flow.o vendor/cigraph/src/flow/flow_conversion.o vendor/cigraph/src/flow/st-cuts.o vendor/cigraph/src/games/barabasi.o vendor/cigraph/src/games/callaway_traits.o vendor/cigraph/src/games/chung_lu.o vendor/cigraph/src/games/citations.o vendor/cigraph/src/games/correlated.o vendor/cigraph/src/games/degree_sequence.o vendor/cigraph/src/games/degree_sequence_vl/gengraph_degree_sequence.o vendor/cigraph/src/games/degree_sequence_vl/gengraph_graph_molloy_hash.o vendor/cigraph/src/games/degree_sequence_vl/gengraph_graph_molloy_optimized.o vendor/cigraph/src/games/degree_sequence_vl/gengraph_mr-connected.o vendor/cigraph/src/games/degree_sequence_vl/gengraph_random.o vendor/cigraph/src/games/dotproduct.o vendor/cigraph/src/games/erdos_renyi.o vendor/cigraph/src/games/establishment.o vendor/cigraph/src/games/forestfire.o vendor/cigraph/src/games/grg.o vendor/cigraph/src/games/growing_random.o vendor/cigraph/src/games/islands.o vendor/cigraph/src/games/k_regular.o vendor/cigraph/src/games/preference.o vendor/cigraph/src/games/recent_degree.o vendor/cigraph/src/games/sbm.o vendor/cigraph/src/games/static_fitness.o vendor/cigraph/src/games/tree.o vendor/cigraph/src/games/watts_strogatz.o vendor/cigraph/src/graph/adjlist.o vendor/cigraph/src/graph/attributes.o vendor/cigraph/src/graph/basic_query.o vendor/cigraph/src/graph/caching.o vendor/cigraph/src/graph/cattributes.o vendor/cigraph/src/graph/graph_list.o vendor/cigraph/src/graph/iterators.o vendor/cigraph/src/graph/type_common.o vendor/cigraph/src/graph/type_indexededgelist.o vendor/cigraph/src/graph/visitors.o vendor/cigraph/src/hrg/hrg.o vendor/cigraph/src/hrg/hrg_types.o vendor/cigraph/src/internal/glpk_support.o vendor/cigraph/src/internal/hacks.o vendor/cigraph/src/internal/lsap.o vendor/cigraph/src/internal/qsort.o vendor/cigraph/src/internal/qsort_r.o vendor/cigraph/src/internal/utils.o vendor/cigraph/src/internal/zeroin.o vendor/cigraph/src/io/dimacs.o vendor/cigraph/src/io/dl.o vendor/cigraph/src/io/dot.o vendor/cigraph/src/io/edgelist.o vendor/cigraph/src/io/gml-tree.o vendor/cigraph/src/io/gml.o vendor/cigraph/src/io/graphdb.o vendor/cigraph/src/io/graphml.o vendor/cigraph/src/io/leda.o vendor/cigraph/src/io/lgl.o vendor/cigraph/src/io/ncol.o vendor/cigraph/src/io/pajek.o vendor/cigraph/src/io/parse_utils.o vendor/cigraph/src/isomorphism/bliss.o vendor/cigraph/src/isomorphism/bliss/defs.o vendor/cigraph/src/isomorphism/bliss/graph.o vendor/cigraph/src/isomorphism/bliss/heap.o vendor/cigraph/src/isomorphism/bliss/orbit.o vendor/cigraph/src/isomorphism/bliss/partition.o vendor/cigraph/src/isomorphism/bliss/uintseqhash.o vendor/cigraph/src/isomorphism/bliss/utils.o vendor/cigraph/src/isomorphism/isoclasses.o vendor/cigraph/src/isomorphism/isomorphism_misc.o vendor/cigraph/src/isomorphism/lad.o vendor/cigraph/src/isomorphism/queries.o vendor/cigraph/src/isomorphism/vf2.o vendor/cigraph/src/layout/align.o vendor/cigraph/src/layout/circular.o vendor/cigraph/src/layout/davidson_harel.o vendor/cigraph/src/layout/drl/DensityGrid.o vendor/cigraph/src/layout/drl/DensityGrid_3d.o vendor/cigraph/src/layout/drl/drl_graph.o vendor/cigraph/src/layout/drl/drl_graph_3d.o vendor/cigraph/src/layout/drl/drl_layout.o vendor/cigraph/src/layout/drl/drl_layout_3d.o vendor/cigraph/src/layout/drl/drl_parse.o vendor/cigraph/src/layout/fruchterman_reingold.o vendor/cigraph/src/layout/gem.o vendor/cigraph/src/layout/graphopt.o vendor/cigraph/src/layout/kamada_kawai.o vendor/cigraph/src/layout/large_graph.o vendor/cigraph/src/layout/layout_bipartite.o vendor/cigraph/src/layout/layout_grid.o vendor/cigraph/src/layout/layout_random.o vendor/cigraph/src/layout/mds.o vendor/cigraph/src/layout/merge_dla.o vendor/cigraph/src/layout/merge_grid.o vendor/cigraph/src/layout/reingold_tilford.o vendor/cigraph/src/layout/sugiyama.o vendor/cigraph/src/layout/umap.o vendor/cigraph/src/linalg/arpack.o vendor/cigraph/src/linalg/blas.o vendor/cigraph/src/linalg/eigen.o vendor/cigraph/src/linalg/lapack.o vendor/cigraph/src/math/complex.o vendor/cigraph/src/math/safe_intop.o vendor/cigraph/src/math/utils.o vendor/cigraph/src/misc/bipartite.o vendor/cigraph/src/misc/chordality.o vendor/cigraph/src/misc/cocitation.o vendor/cigraph/src/misc/coloring.o vendor/cigraph/src/misc/conversion.o vendor/cigraph/src/misc/cycle_bases.o vendor/cigraph/src/misc/degree_sequence.o vendor/cigraph/src/misc/embedding.o vendor/cigraph/src/misc/feedback_arc_set.o vendor/cigraph/src/misc/graphicality.o vendor/cigraph/src/misc/matching.o vendor/cigraph/src/misc/microscopic_update.o vendor/cigraph/src/misc/mixing.o vendor/cigraph/src/misc/motifs.o vendor/cigraph/src/misc/order_cycle.o vendor/cigraph/src/misc/other.o vendor/cigraph/src/misc/power_law_fit.o vendor/cigraph/src/misc/scan.o vendor/cigraph/src/misc/sir.o vendor/cigraph/src/misc/spanning_trees.o vendor/cigraph/src/operators/add_edge.o vendor/cigraph/src/operators/complementer.o vendor/cigraph/src/operators/compose.o vendor/cigraph/src/operators/connect_neighborhood.o vendor/cigraph/src/operators/contract.o vendor/cigraph/src/operators/difference.o vendor/cigraph/src/operators/disjoint_union.o vendor/cigraph/src/operators/intersection.o vendor/cigraph/src/operators/join.o vendor/cigraph/src/operators/misc_internal.o vendor/cigraph/src/operators/permute.o vendor/cigraph/src/operators/products.o vendor/cigraph/src/operators/reverse.o vendor/cigraph/src/operators/rewire.o vendor/cigraph/src/operators/rewire_edges.o vendor/cigraph/src/operators/simplify.o vendor/cigraph/src/operators/subgraph.o vendor/cigraph/src/operators/union.o vendor/cigraph/src/paths/all_shortest_paths.o vendor/cigraph/src/paths/astar.o vendor/cigraph/src/paths/bellman_ford.o vendor/cigraph/src/paths/dijkstra.o vendor/cigraph/src/paths/distances.o vendor/cigraph/src/paths/eulerian.o vendor/cigraph/src/paths/floyd_warshall.o vendor/cigraph/src/paths/histogram.o vendor/cigraph/src/paths/johnson.o vendor/cigraph/src/paths/random_walk.o vendor/cigraph/src/paths/shortest_paths.o vendor/cigraph/src/paths/simple_paths.o vendor/cigraph/src/paths/sparsifier.o vendor/cigraph/src/paths/unweighted.o vendor/cigraph/src/paths/voronoi.o vendor/cigraph/src/paths/widest_paths.o vendor/cigraph/src/properties/basic_properties.o vendor/cigraph/src/properties/complete.o vendor/cigraph/src/properties/constraint.o vendor/cigraph/src/properties/convergence_degree.o vendor/cigraph/src/properties/dag.o vendor/cigraph/src/properties/degrees.o vendor/cigraph/src/properties/ecc.o vendor/cigraph/src/properties/girth.o vendor/cigraph/src/properties/loops.o vendor/cigraph/src/properties/multiplicity.o vendor/cigraph/src/properties/neighborhood.o vendor/cigraph/src/properties/perfect.o vendor/cigraph/src/properties/rich_club.o vendor/cigraph/src/properties/spectral.o vendor/cigraph/src/properties/trees.o vendor/cigraph/src/properties/triangles.o vendor/cigraph/src/random/random.o vendor/cigraph/src/random/rng_glibc2.o vendor/cigraph/src/random/rng_mt19937.o vendor/cigraph/src/random/rng_pcg32.o vendor/cigraph/src/random/rng_pcg64.o vendor/cigraph/src/version.o vendor/cigraph/vendor/cs/cs_add.o vendor/cigraph/vendor/cs/cs_amd.o vendor/cigraph/vendor/cs/cs_chol.o vendor/cigraph/vendor/cs/cs_cholsol.o vendor/cigraph/vendor/cs/cs_compress.o vendor/cigraph/vendor/cs/cs_counts.o vendor/cigraph/vendor/cs/cs_cumsum.o vendor/cigraph/vendor/cs/cs_dfs.o vendor/cigraph/vendor/cs/cs_dmperm.o vendor/cigraph/vendor/cs/cs_droptol.o vendor/cigraph/vendor/cs/cs_dropzeros.o vendor/cigraph/vendor/cs/cs_dupl.o vendor/cigraph/vendor/cs/cs_entry.o vendor/cigraph/vendor/cs/cs_ereach.o vendor/cigraph/vendor/cs/cs_etree.o vendor/cigraph/vendor/cs/cs_fkeep.o vendor/cigraph/vendor/cs/cs_gaxpy.o vendor/cigraph/vendor/cs/cs_happly.o vendor/cigraph/vendor/cs/cs_house.o vendor/cigraph/vendor/cs/cs_ipvec.o vendor/cigraph/vendor/cs/cs_leaf.o vendor/cigraph/vendor/cs/cs_load.o vendor/cigraph/vendor/cs/cs_lsolve.o vendor/cigraph/vendor/cs/cs_ltsolve.o vendor/cigraph/vendor/cs/cs_lu.o vendor/cigraph/vendor/cs/cs_lusol.o vendor/cigraph/vendor/cs/cs_malloc.o vendor/cigraph/vendor/cs/cs_maxtrans.o vendor/cigraph/vendor/cs/cs_multiply.o vendor/cigraph/vendor/cs/cs_norm.o vendor/cigraph/vendor/cs/cs_permute.o vendor/cigraph/vendor/cs/cs_pinv.o vendor/cigraph/vendor/cs/cs_post.o vendor/cigraph/vendor/cs/cs_print.o vendor/cigraph/vendor/cs/cs_pvec.o vendor/cigraph/vendor/cs/cs_qr.o vendor/cigraph/vendor/cs/cs_qrsol.o vendor/cigraph/vendor/cs/cs_randperm.o vendor/cigraph/vendor/cs/cs_reach.o vendor/cigraph/vendor/cs/cs_scatter.o vendor/cigraph/vendor/cs/cs_scc.o vendor/cigraph/vendor/cs/cs_schol.o vendor/cigraph/vendor/cs/cs_spsolve.o vendor/cigraph/vendor/cs/cs_sqr.o vendor/cigraph/vendor/cs/cs_symperm.o vendor/cigraph/vendor/cs/cs_tdfs.o vendor/cigraph/vendor/cs/cs_transpose.o vendor/cigraph/vendor/cs/cs_updown.o vendor/cigraph/vendor/cs/cs_usolve.o vendor/cigraph/vendor/cs/cs_util.o vendor/cigraph/vendor/cs/cs_utsolve.o vendor/cigraph/vendor/pcg/pcg-advance-128.o vendor/cigraph/vendor/pcg/pcg-advance-64.o vendor/cigraph/vendor/pcg/pcg-output-128.o vendor/cigraph/vendor/pcg/pcg-output-32.o vendor/cigraph/vendor/pcg/pcg-output-64.o vendor/cigraph/vendor/pcg/pcg-rngs-128.o vendor/cigraph/vendor/pcg/pcg-rngs-64.o vendor/cigraph/vendor/plfit/gss.o vendor/cigraph/vendor/plfit/hzeta.o vendor/cigraph/vendor/plfit/kolmogorov.o vendor/cigraph/vendor/plfit/lbfgs.o vendor/cigraph/vendor/plfit/mt.o vendor/cigraph/vendor/plfit/options.o vendor/cigraph/vendor/plfit/plfit.o vendor/cigraph/vendor/plfit/plfit_error.o vendor/cigraph/vendor/plfit/rbinom.o vendor/cigraph/vendor/plfit/sampling.o vendor/io/dl-lexer.o vendor/io/dl-parser.o vendor/io/gml-lexer.o vendor/io/gml-parser.o vendor/io/lgl-lexer.o vendor/io/lgl-parser.o vendor/io/ncol-lexer.o vendor/io/ncol-parser.o vendor/io/pajek-lexer.o vendor/io/pajek-parser.o vendor/simpleraytracer/Color.o vendor/simpleraytracer/Light.o vendor/simpleraytracer/Point.o vendor/simpleraytracer/Ray.o vendor/simpleraytracer/RayTracer.o vendor/simpleraytracer/RayVector.o vendor/simpleraytracer/Shape.o vendor/simpleraytracer/Sphere.o vendor/simpleraytracer/Triangle.o vendor/simpleraytracer/unit_limiter.o vendor/uuid/clear.o vendor/uuid/compare.o vendor/uuid/copy.o vendor/uuid/gen_uuid.o vendor/uuid/isnull.o vendor/uuid/pack.o vendor/uuid/parse.o vendor/uuid/unpack.o vendor/uuid/unparse.o rinterface.o rinterface_extra.o rrandom.o uuid.o cpp11.o cpprinterface.o init.o simpleraytracer.o vendor/cigraph/vendor/mini-gmp/mini-gmp.o vendor/cigraph/vendor/glpk/amd/amd_1.o vendor/cigraph/vendor/glpk/amd/amd_2.o vendor/cigraph/vendor/glpk/amd/amd_aat.o vendor/cigraph/vendor/glpk/amd/amd_control.o vendor/cigraph/vendor/glpk/amd/amd_defaults.o vendor/cigraph/vendor/glpk/amd/amd_dump.o vendor/cigraph/vendor/glpk/amd/amd_info.o vendor/cigraph/vendor/glpk/amd/amd_order.o vendor/cigraph/vendor/glpk/amd/amd_post_tree.o vendor/cigraph/vendor/glpk/amd/amd_postorder.o vendor/cigraph/vendor/glpk/amd/amd_preprocess.o vendor/cigraph/vendor/glpk/amd/amd_valid.o vendor/cigraph/vendor/glpk/api/advbas.o vendor/cigraph/vendor/glpk/api/asnhall.o vendor/cigraph/vendor/glpk/api/asnlp.o vendor/cigraph/vendor/glpk/api/asnokalg.o vendor/cigraph/vendor/glpk/api/ckasn.o vendor/cigraph/vendor/glpk/api/ckcnf.o vendor/cigraph/vendor/glpk/api/cplex.o vendor/cigraph/vendor/glpk/api/cpp.o vendor/cigraph/vendor/glpk/api/cpxbas.o vendor/cigraph/vendor/glpk/api/graph.o vendor/cigraph/vendor/glpk/api/gridgen.o vendor/cigraph/vendor/glpk/api/intfeas1.o vendor/cigraph/vendor/glpk/api/maxffalg.o vendor/cigraph/vendor/glpk/api/maxflp.o vendor/cigraph/vendor/glpk/api/mcflp.o vendor/cigraph/vendor/glpk/api/mcfokalg.o vendor/cigraph/vendor/glpk/api/mcfrelax.o vendor/cigraph/vendor/glpk/api/minisat1.o vendor/cigraph/vendor/glpk/api/mpl.o vendor/cigraph/vendor/glpk/api/mps.o vendor/cigraph/vendor/glpk/api/netgen.o vendor/cigraph/vendor/glpk/api/npp.o vendor/cigraph/vendor/glpk/api/pript.o vendor/cigraph/vendor/glpk/api/prmip.o vendor/cigraph/vendor/glpk/api/prob1.o vendor/cigraph/vendor/glpk/api/prob2.o vendor/cigraph/vendor/glpk/api/prob3.o vendor/cigraph/vendor/glpk/api/prob4.o vendor/cigraph/vendor/glpk/api/prob5.o vendor/cigraph/vendor/glpk/api/prrngs.o vendor/cigraph/vendor/glpk/api/prsol.o vendor/cigraph/vendor/glpk/api/rdasn.o vendor/cigraph/vendor/glpk/api/rdcc.o vendor/cigraph/vendor/glpk/api/rdcnf.o vendor/cigraph/vendor/glpk/api/rdipt.o vendor/cigraph/vendor/glpk/api/rdmaxf.o vendor/cigraph/vendor/glpk/api/rdmcf.o vendor/cigraph/vendor/glpk/api/rdmip.o vendor/cigraph/vendor/glpk/api/rdprob.o vendor/cigraph/vendor/glpk/api/rdsol.o vendor/cigraph/vendor/glpk/api/rmfgen.o vendor/cigraph/vendor/glpk/api/strong.o vendor/cigraph/vendor/glpk/api/topsort.o vendor/cigraph/vendor/glpk/api/wcliqex.o vendor/cigraph/vendor/glpk/api/weak.o vendor/cigraph/vendor/glpk/api/wrasn.o vendor/cigraph/vendor/glpk/api/wrcc.o vendor/cigraph/vendor/glpk/api/wrcnf.o vendor/cigraph/vendor/glpk/api/wript.o vendor/cigraph/vendor/glpk/api/wrmaxf.o vendor/cigraph/vendor/glpk/api/wrmcf.o vendor/cigraph/vendor/glpk/api/wrmip.o vendor/cigraph/vendor/glpk/api/wrprob.o vendor/cigraph/vendor/glpk/api/wrsol.o vendor/cigraph/vendor/glpk/bflib/btf.o vendor/cigraph/vendor/glpk/bflib/btfint.o vendor/cigraph/vendor/glpk/bflib/fhv.o vendor/cigraph/vendor/glpk/bflib/fhvint.o vendor/cigraph/vendor/glpk/bflib/ifu.o vendor/cigraph/vendor/glpk/bflib/luf.o vendor/cigraph/vendor/glpk/bflib/lufint.o vendor/cigraph/vendor/glpk/bflib/scf.o vendor/cigraph/vendor/glpk/bflib/scfint.o vendor/cigraph/vendor/glpk/bflib/sgf.o vendor/cigraph/vendor/glpk/bflib/sva.o vendor/cigraph/vendor/glpk/colamd/colamd.o vendor/cigraph/vendor/glpk/draft/bfd.o vendor/cigraph/vendor/glpk/draft/bfx.o vendor/cigraph/vendor/glpk/draft/glpapi06.o vendor/cigraph/vendor/glpk/draft/glpapi07.o vendor/cigraph/vendor/glpk/draft/glpapi08.o vendor/cigraph/vendor/glpk/draft/glpapi09.o vendor/cigraph/vendor/glpk/draft/glpapi10.o vendor/cigraph/vendor/glpk/draft/glpapi12.o vendor/cigraph/vendor/glpk/draft/glpapi13.o vendor/cigraph/vendor/glpk/draft/glpios01.o vendor/cigraph/vendor/glpk/draft/glpios02.o vendor/cigraph/vendor/glpk/draft/glpios03.o vendor/cigraph/vendor/glpk/draft/glpios07.o vendor/cigraph/vendor/glpk/draft/glpios09.o vendor/cigraph/vendor/glpk/draft/glpios11.o vendor/cigraph/vendor/glpk/draft/glpios12.o vendor/cigraph/vendor/glpk/draft/glpipm.o vendor/cigraph/vendor/glpk/draft/glpmat.o vendor/cigraph/vendor/glpk/draft/glpscl.o vendor/cigraph/vendor/glpk/draft/glpssx01.o vendor/cigraph/vendor/glpk/draft/glpssx02.o vendor/cigraph/vendor/glpk/draft/lux.o vendor/cigraph/vendor/glpk/env/alloc.o vendor/cigraph/vendor/glpk/env/dlsup.o vendor/cigraph/vendor/glpk/env/env.o vendor/cigraph/vendor/glpk/env/error.o vendor/cigraph/vendor/glpk/env/stdc.o vendor/cigraph/vendor/glpk/env/stdout.o vendor/cigraph/vendor/glpk/env/stream.o vendor/cigraph/vendor/glpk/env/time.o vendor/cigraph/vendor/glpk/env/tls.o vendor/cigraph/vendor/glpk/intopt/cfg.o vendor/cigraph/vendor/glpk/intopt/cfg1.o vendor/cigraph/vendor/glpk/intopt/cfg2.o vendor/cigraph/vendor/glpk/intopt/clqcut.o vendor/cigraph/vendor/glpk/intopt/covgen.o vendor/cigraph/vendor/glpk/intopt/fpump.o vendor/cigraph/vendor/glpk/intopt/gmicut.o vendor/cigraph/vendor/glpk/intopt/gmigen.o vendor/cigraph/vendor/glpk/intopt/mirgen.o vendor/cigraph/vendor/glpk/intopt/spv.o vendor/cigraph/vendor/glpk/minisat/minisat.o vendor/cigraph/vendor/glpk/misc/avl.o vendor/cigraph/vendor/glpk/misc/bignum.o vendor/cigraph/vendor/glpk/misc/dimacs.o vendor/cigraph/vendor/glpk/misc/dmp.o vendor/cigraph/vendor/glpk/misc/ffalg.o vendor/cigraph/vendor/glpk/misc/fp2rat.o vendor/cigraph/vendor/glpk/misc/fvs.o vendor/cigraph/vendor/glpk/misc/gcd.o vendor/cigraph/vendor/glpk/misc/hbm.o vendor/cigraph/vendor/glpk/misc/jd.o vendor/cigraph/vendor/glpk/misc/keller.o vendor/cigraph/vendor/glpk/misc/ks.o vendor/cigraph/vendor/glpk/misc/mc13d.o vendor/cigraph/vendor/glpk/misc/mc21a.o vendor/cigraph/vendor/glpk/misc/mt1.o vendor/cigraph/vendor/glpk/misc/mygmp.o vendor/cigraph/vendor/glpk/misc/okalg.o vendor/cigraph/vendor/glpk/misc/qmd.o vendor/cigraph/vendor/glpk/misc/relax4.o vendor/cigraph/vendor/glpk/misc/rgr.o vendor/cigraph/vendor/glpk/misc/rng.o vendor/cigraph/vendor/glpk/misc/rng1.o vendor/cigraph/vendor/glpk/misc/round2n.o vendor/cigraph/vendor/glpk/misc/spm.o vendor/cigraph/vendor/glpk/misc/str2int.o vendor/cigraph/vendor/glpk/misc/str2num.o vendor/cigraph/vendor/glpk/misc/strspx.o vendor/cigraph/vendor/glpk/misc/strtrim.o vendor/cigraph/vendor/glpk/misc/triang.o vendor/cigraph/vendor/glpk/misc/wclique.o vendor/cigraph/vendor/glpk/misc/wclique1.o vendor/cigraph/vendor/glpk/mpl/mpl1.o vendor/cigraph/vendor/glpk/mpl/mpl2.o vendor/cigraph/vendor/glpk/mpl/mpl3.o vendor/cigraph/vendor/glpk/mpl/mpl4.o vendor/cigraph/vendor/glpk/mpl/mpl5.o vendor/cigraph/vendor/glpk/mpl/mpl6.o vendor/cigraph/vendor/glpk/mpl/mplsql.o vendor/cigraph/vendor/glpk/npp/npp1.o vendor/cigraph/vendor/glpk/npp/npp2.o vendor/cigraph/vendor/glpk/npp/npp3.o vendor/cigraph/vendor/glpk/npp/npp4.o vendor/cigraph/vendor/glpk/npp/npp5.o vendor/cigraph/vendor/glpk/npp/npp6.o vendor/cigraph/vendor/glpk/proxy/main.o vendor/cigraph/vendor/glpk/proxy/proxy.o vendor/cigraph/vendor/glpk/proxy/proxy1.o vendor/cigraph/vendor/glpk/simplex/spxat.o vendor/cigraph/vendor/glpk/simplex/spxchuzc.o vendor/cigraph/vendor/glpk/simplex/spxchuzr.o vendor/cigraph/vendor/glpk/simplex/spxlp.o vendor/cigraph/vendor/glpk/simplex/spxnt.o vendor/cigraph/vendor/glpk/simplex/spxprim.o vendor/cigraph/vendor/glpk/simplex/spxprob.o vendor/cigraph/vendor/glpk/simplex/spychuzc.o vendor/cigraph/vendor/glpk/simplex/spychuzr.o vendor/cigraph/vendor/glpk/simplex/spydual.o -L/opt/conda/lib -lxml2 -L/opt/conda/lib -lz -L/opt/conda/lib -llzma -L/opt/conda/lib -L/opt/conda/lib -licui18n -licuuc -licudata -lm -ldl -llapack -lblas -lgfortran -lm -L/usr/lib/R/lib -lR +#11 594.4 installing to /usr/local/lib/R/site-library/00LOCK-igraph/00new/igraph/libs +#11 594.4 ** R +#11 594.5 ** inst +#11 594.5 ** byte-compile and prepare package for lazy loading +#11 598.3 ** help +#11 599.0 *** installing help indices +#11 599.4 *** copying figures +#11 599.4 ** building package indices +#11 599.9 ** installing vignettes +#11 599.9 ** testing if installed package can be loaded from temporary location +#11 600.0 ** checking absolute paths in shared objects and dynamic libraries +#11 600.0 ** testing if installed package can be loaded from final location +#11 600.3 ** testing if installed package keeps a record of temporary installation path +#11 600.3 * DONE (igraph) +#11 600.5 * installing *source* package ‘cowplot’ ... +#11 600.5 ** package ‘cowplot’ successfully unpacked and MD5 sums checked +#11 600.5 ** using staged installation +#11 600.5 ** R +#11 600.5 ** inst +#11 600.5 ** byte-compile and prepare package for lazy loading +#11 601.1 ** help +#11 601.1 *** installing help indices +#11 601.2 *** copying figures +#11 601.2 ** building package indices +#11 601.2 ** installing vignettes +#11 601.2 ** testing if installed package can be loaded from temporary location +#11 601.6 ** testing if installed package can be loaded from final location +#11 602.0 ** testing if installed package keeps a record of temporary installation path +#11 602.0 * DONE (cowplot) +#11 602.1 * installing *source* package ‘reshape2’ ... +#11 602.1 ** package ‘reshape2’ successfully unpacked and MD5 sums checked +#11 602.1 ** using staged installation +#11 602.1 ** libs +#11 602.1 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c RcppExports.cpp -o RcppExports.o +#11 603.2 g++ -std=gnu++14 -I"/usr/share/R/include" -DNDEBUG -I'/usr/local/lib/R/site-library/Rcpp/include' -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c melt.cpp -o melt.o +#11 604.3 g++ -std=gnu++14 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o reshape2.so RcppExports.o melt.o -L/usr/lib/R/lib -lR +#11 604.3 installing to /usr/local/lib/R/site-library/00LOCK-reshape2/00new/reshape2/libs +#11 604.3 ** R +#11 604.3 ** data +#11 604.3 *** moving datasets to lazyload DB +#11 604.3 ** inst +#11 604.3 ** byte-compile and prepare package for lazy loading +#11 604.6 ** help +#11 604.6 *** installing help indices +#11 604.6 ** building package indices +#11 604.7 ** testing if installed package can be loaded from temporary location +#11 604.9 ** checking absolute paths in shared objects and dynamic libraries +#11 604.9 ** testing if installed package can be loaded from final location +#11 605.1 ** testing if installed package keeps a record of temporary installation path +#11 605.1 * DONE (reshape2) +#11 605.3 * installing *source* package ‘seqinr’ ... +#11 605.3 ** package ‘seqinr’ successfully unpacked and MD5 sums checked +#11 605.3 ** using staged installation +#11 605.3 ** libs +#11 605.3 gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_TYPE_CHECKING_STRICT -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c alignment.c -o alignment.o +#11 605.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_TYPE_CHECKING_STRICT -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fastacc.c -o fastacc.o +#11 605.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_TYPE_CHECKING_STRICT -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c getzlibsock.c -o getzlibsock.o +#11 605.5 gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_TYPE_CHECKING_STRICT -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c kaks.c -o kaks.o +#11 605.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_TYPE_CHECKING_STRICT -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c packagename_init.c -o packagename_init.o +#11 605.7 gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_TYPE_CHECKING_STRICT -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c util.c -o util.o +#11 605.8 gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_TYPE_CHECKING_STRICT -fpic -g -O2 -ffile-prefix-map=/build/r-base-nNSpe3/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c zsockr.c -o zsockr.o +#11 605.8 gcc -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -o seqinr.so alignment.o fastacc.o getzlibsock.o kaks.o packagename_init.o util.o zsockr.o -lz -L/usr/lib/R/lib -lR +#11 605.8 installing to /usr/local/lib/R/site-library/00LOCK-seqinr/00new/seqinr/libs +#11 605.8 ** R +#11 605.8 ** data +#11 605.8 ** inst +#11 605.8 ** byte-compile and prepare package for lazy loading +#11 607.2 ** help +#11 607.3 *** installing help indices +#11 607.4 *** copying figures +#11 607.4 ** building package indices +#11 607.6 ** testing if installed package can be loaded from temporary location +#11 607.7 ** checking absolute paths in shared objects and dynamic libraries +#11 607.7 ** testing if installed package can be loaded from final location +#11 607.9 ** testing if installed package keeps a record of temporary installation path +#11 607.9 * DONE (seqinr) +#11 607.9 +#11 607.9 The downloaded source packages are in +#11 607.9 ‘/tmp/RtmpLlOIIx/downloaded_packages’ +#11 607.9 Running `R CMD build`... +#11 608.4 * checking for file ‘/tmp/RtmpLlOIIx/remotesaa0e1fbf3df5/metabaRfactory-metabaR-9bce6ab/DESCRIPTION’ ... OK +#11 608.4 * preparing ‘metabaR’: +#11 608.4 * checking DESCRIPTION meta-information ... OK +#11 608.4 * checking for LF line-endings in source and make files and shell scripts +#11 608.4 * checking for empty or unneeded directories +#11 608.4 * building ‘metabaR_1.0.0.tar.gz’ +#11 608.4 Installing package into ‘/usr/local/lib/R/site-library’ +#11 608.4 (as ‘lib’ is unspecified) +#11 608.6 * installing *source* package ‘metabaR’ ... +#11 608.6 ** using staged installation +#11 608.6 ** R +#11 608.6 ** data +#11 608.6 *** moving datasets to lazyload DB +#11 609.4 ** inst +#11 609.4 ** byte-compile and prepare package for lazy loading +#11 610.7 ** help +#11 610.7 *** installing help indices +#11 610.7 *** copying figures +#11 610.7 ** building package indices +#11 610.8 ** installing vignettes +#11 610.8 ** testing if installed package can be loaded from temporary location +#11 611.6 ** testing if installed package can be loaded from final location +#11 612.4 ** testing if installed package keeps a record of temporary installation path +#11 612.4 * DONE (metabaR) +#11 612.5 > +#11 612.5 > +#11 612.5 +#11 612.5 R version 4.1.2 (2021-11-01) -- "Bird Hippie" +#11 612.5 Copyright (C) 2021 The R Foundation for Statistical Computing +#11 612.5 Platform: aarch64-unknown-linux-gnu (64-bit) +#11 612.5 +#11 612.5 R is free software and comes with ABSOLUTELY NO WARRANTY. +#11 612.5 You are welcome to redistribute it under certain conditions. +#11 612.5 Type 'license()' or 'licence()' for distribution details. +#11 612.5 +#11 612.5 Natural language support but running in an English locale +#11 612.5 +#11 612.5 R is a collaborative project with many contributors. +#11 612.5 Type 'contributors()' for more information and +#11 612.5 'citation()' on how to cite R or R packages in publications. +#11 612.5 +#11 612.5 Type 'demo()' for some demos, 'help()' for on-line help, or +#11 612.5 'help.start()' for an HTML browser interface to help. +#11 612.5 Type 'q()' to quit R. +#11 612.5 +#11 612.5 > IRkernel::installspec(user = FALSE) +#11 613.0 > +#11 613.0 > +#11 DONE 613.2s + +#13 [stage-1 4/11] RUN pip install --no-cache-dir bash_kernel csvkit && python -m bash_kernel.install --sys-prefix +#13 0.468 Collecting bash_kernel +#13 0.671 Downloading bash_kernel-0.10.0-py2.py3-none-any.whl.metadata (5.2 kB) +#13 0.701 Collecting csvkit +#13 0.719 Downloading csvkit-2.1.0-py2.py3-none-any.whl.metadata (3.4 kB) +#13 0.728 Requirement already satisfied: pexpect>=4.0 in /opt/conda/lib/python3.11/site-packages (from bash_kernel) (4.8.0) +#13 0.730 Requirement already satisfied: ipykernel in /opt/conda/lib/python3.11/site-packages (from bash_kernel) (6.25.2) +#13 0.761 Collecting filetype (from bash_kernel) +#13 0.777 Downloading filetype-1.2.0-py2.py3-none-any.whl.metadata (6.5 kB) +#13 0.819 Collecting agate>=1.12.0 (from csvkit) +#13 0.837 Downloading agate-1.13.0-py2.py3-none-any.whl.metadata (3.4 kB) +#13 0.864 Collecting agate-excel>=0.4.0 (from csvkit) +#13 0.892 Downloading agate_excel-0.4.1-py2.py3-none-any.whl.metadata (2.7 kB) +#13 0.917 Collecting agate-dbf>=0.2.3 (from csvkit) +#13 0.934 Downloading agate_dbf-0.2.3-py2.py3-none-any.whl.metadata (2.5 kB) +#13 0.964 Collecting agate-sql>=0.7.0 (from csvkit) +#13 0.982 Downloading agate_sql-0.7.2-py2.py3-none-any.whl.metadata (2.6 kB) +#13 1.024 Collecting openpyxl (from csvkit) +#13 1.041 Downloading openpyxl-3.1.5-py2.py3-none-any.whl.metadata (2.5 kB) +#13 1.043 Requirement already satisfied: sqlalchemy in /opt/conda/lib/python3.11/site-packages (from csvkit) (2.0.22) +#13 1.152 Collecting xlrd (from csvkit) +#13 1.170 Downloading xlrd-2.0.2-py2.py3-none-any.whl.metadata (3.5 kB) +#13 1.185 Requirement already satisfied: Babel>=2.0 in /opt/conda/lib/python3.11/site-packages (from agate>=1.12.0->csvkit) (2.13.0) +#13 1.211 Collecting isodate>=0.5.4 (from agate>=1.12.0->csvkit) +#13 1.228 Downloading isodate-0.7.2-py3-none-any.whl.metadata (11 kB) +#13 1.258 Collecting leather>=0.3.2 (from agate>=1.12.0->csvkit) +#13 1.276 Downloading leather-0.4.0-py2.py3-none-any.whl.metadata (2.8 kB) +#13 1.308 Collecting parsedatetime!=2.5,>=2.1 (from agate>=1.12.0->csvkit) +#13 1.328 Downloading parsedatetime-2.6-py3-none-any.whl.metadata (4.7 kB) +#13 1.364 Collecting python-slugify>=1.2.1 (from agate>=1.12.0->csvkit) +#13 1.386 Downloading python_slugify-8.0.4-py2.py3-none-any.whl.metadata (8.5 kB) +#13 1.415 Collecting pytimeparse>=1.1.5 (from agate>=1.12.0->csvkit) +#13 1.434 Downloading pytimeparse-1.1.8-py2.py3-none-any.whl.metadata (3.4 kB) +#13 1.466 Collecting dbfread>=2.0.5 (from agate-dbf>=0.2.3->csvkit) +#13 1.486 Downloading dbfread-2.0.7-py2.py3-none-any.whl.metadata (3.3 kB) +#13 1.517 Collecting olefile (from agate-excel>=0.4.0->csvkit) +#13 1.535 Downloading olefile-0.47-py2.py3-none-any.whl.metadata (9.7 kB) +#13 1.569 Collecting et-xmlfile (from openpyxl->csvkit) +#13 1.585 Downloading et_xmlfile-2.0.0-py3-none-any.whl.metadata (2.7 kB) +#13 1.590 Requirement already satisfied: ptyprocess>=0.5 in /opt/conda/lib/python3.11/site-packages (from pexpect>=4.0->bash_kernel) (0.7.0) +#13 1.616 Requirement already satisfied: typing-extensions>=4.2.0 in /opt/conda/lib/python3.11/site-packages (from sqlalchemy->csvkit) (4.8.0) +#13 1.619 Requirement already satisfied: greenlet!=0.4.17 in /opt/conda/lib/python3.11/site-packages (from sqlalchemy->csvkit) (3.0.0) +#13 1.640 Requirement already satisfied: comm>=0.1.1 in /opt/conda/lib/python3.11/site-packages (from ipykernel->bash_kernel) (0.1.4) +#13 1.641 Requirement already satisfied: debugpy>=1.6.5 in /opt/conda/lib/python3.11/site-packages (from ipykernel->bash_kernel) (1.8.0) +#13 1.642 Requirement already satisfied: ipython>=7.23.1 in /opt/conda/lib/python3.11/site-packages (from ipykernel->bash_kernel) (8.16.1) +#13 1.642 Requirement already satisfied: jupyter-client>=6.1.12 in /opt/conda/lib/python3.11/site-packages (from ipykernel->bash_kernel) (8.4.0) +#13 1.643 Requirement already satisfied: jupyter-core!=5.0.*,>=4.12 in /opt/conda/lib/python3.11/site-packages (from ipykernel->bash_kernel) (5.4.0) +#13 1.644 Requirement already satisfied: matplotlib-inline>=0.1 in /opt/conda/lib/python3.11/site-packages (from ipykernel->bash_kernel) (0.1.6) +#13 1.644 Requirement already satisfied: nest-asyncio in /opt/conda/lib/python3.11/site-packages (from ipykernel->bash_kernel) (1.5.8) +#13 1.644 Requirement already satisfied: packaging in /opt/conda/lib/python3.11/site-packages (from ipykernel->bash_kernel) (23.2) +#13 1.645 Requirement already satisfied: psutil in /opt/conda/lib/python3.11/site-packages (from ipykernel->bash_kernel) (5.9.5) +#13 1.645 Requirement already satisfied: pyzmq>=20 in /opt/conda/lib/python3.11/site-packages (from ipykernel->bash_kernel) (25.1.1) +#13 1.646 Requirement already satisfied: tornado>=6.1 in /opt/conda/lib/python3.11/site-packages (from ipykernel->bash_kernel) (6.3.3) +#13 1.647 Requirement already satisfied: traitlets>=5.4.0 in /opt/conda/lib/python3.11/site-packages (from ipykernel->bash_kernel) (5.11.2) +#13 1.693 Requirement already satisfied: backcall in /opt/conda/lib/python3.11/site-packages (from ipython>=7.23.1->ipykernel->bash_kernel) (0.2.0) +#13 1.693 Requirement already satisfied: decorator in /opt/conda/lib/python3.11/site-packages (from ipython>=7.23.1->ipykernel->bash_kernel) (5.1.1) +#13 1.694 Requirement already satisfied: jedi>=0.16 in /opt/conda/lib/python3.11/site-packages (from ipython>=7.23.1->ipykernel->bash_kernel) (0.19.1) +#13 1.695 Requirement already satisfied: pickleshare in /opt/conda/lib/python3.11/site-packages (from ipython>=7.23.1->ipykernel->bash_kernel) (0.7.5) +#13 1.695 Requirement already satisfied: prompt-toolkit!=3.0.37,<3.1.0,>=3.0.30 in /opt/conda/lib/python3.11/site-packages (from ipython>=7.23.1->ipykernel->bash_kernel) (3.0.39) +#13 1.696 Requirement already satisfied: pygments>=2.4.0 in /opt/conda/lib/python3.11/site-packages (from ipython>=7.23.1->ipykernel->bash_kernel) (2.16.1) +#13 1.696 Requirement already satisfied: stack-data in /opt/conda/lib/python3.11/site-packages (from ipython>=7.23.1->ipykernel->bash_kernel) (0.6.2) +#13 1.709 Requirement already satisfied: python-dateutil>=2.8.2 in /opt/conda/lib/python3.11/site-packages (from jupyter-client>=6.1.12->ipykernel->bash_kernel) (2.8.2) +#13 1.716 Requirement already satisfied: platformdirs>=2.5 in /opt/conda/lib/python3.11/site-packages (from jupyter-core!=5.0.*,>=4.12->ipykernel->bash_kernel) (3.11.0) +#13 1.743 Collecting text-unidecode>=1.3 (from python-slugify>=1.2.1->agate>=1.12.0->csvkit) +#13 1.759 Downloading text_unidecode-1.3-py2.py3-none-any.whl.metadata (2.4 kB) +#13 1.799 Requirement already satisfied: parso<0.9.0,>=0.8.3 in /opt/conda/lib/python3.11/site-packages (from jedi>=0.16->ipython>=7.23.1->ipykernel->bash_kernel) (0.8.3) +#13 1.808 Requirement already satisfied: wcwidth in /opt/conda/lib/python3.11/site-packages (from prompt-toolkit!=3.0.37,<3.1.0,>=3.0.30->ipython>=7.23.1->ipykernel->bash_kernel) (0.2.8) +#13 1.814 Requirement already satisfied: six>=1.5 in /opt/conda/lib/python3.11/site-packages (from python-dateutil>=2.8.2->jupyter-client>=6.1.12->ipykernel->bash_kernel) (1.16.0) +#13 1.825 Requirement already satisfied: executing>=1.2.0 in /opt/conda/lib/python3.11/site-packages (from stack-data->ipython>=7.23.1->ipykernel->bash_kernel) (1.2.0) +#13 1.826 Requirement already satisfied: asttokens>=2.1.0 in /opt/conda/lib/python3.11/site-packages (from stack-data->ipython>=7.23.1->ipykernel->bash_kernel) (2.4.0) +#13 1.826 Requirement already satisfied: pure-eval in /opt/conda/lib/python3.11/site-packages (from stack-data->ipython>=7.23.1->ipykernel->bash_kernel) (0.2.2) +#13 1.861 Downloading bash_kernel-0.10.0-py2.py3-none-any.whl (616 kB) +#13 1.918 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 617.0/617.0 kB 11.4 MB/s eta 0:00:00 +#13 1.935 Downloading csvkit-2.1.0-py2.py3-none-any.whl (75 kB) +#13 1.952 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 76.0/76.0 kB 4.2 MB/s eta 0:00:00 +#13 1.969 Downloading agate-1.13.0-py2.py3-none-any.whl (95 kB) +#13 1.971 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 95.9/95.9 kB 401.4 MB/s eta 0:00:00 +#13 1.989 Downloading agate_dbf-0.2.3-py2.py3-none-any.whl (3.6 kB) +#13 2.005 Downloading agate_excel-0.4.1-py2.py3-none-any.whl (7.1 kB) +#13 2.024 Downloading agate_sql-0.7.2-py2.py3-none-any.whl (7.3 kB) +#13 2.043 Downloading openpyxl-3.1.5-py2.py3-none-any.whl (250 kB) +#13 2.051 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 250.9/250.9 kB 44.0 MB/s eta 0:00:00 +#13 2.067 Downloading xlrd-2.0.2-py2.py3-none-any.whl (96 kB) +#13 2.072 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 96.6/96.6 kB 60.0 MB/s eta 0:00:00 +#13 2.093 Downloading filetype-1.2.0-py2.py3-none-any.whl (19 kB) +#13 2.113 Downloading dbfread-2.0.7-py2.py3-none-any.whl (20 kB) +#13 2.130 Downloading isodate-0.7.2-py3-none-any.whl (22 kB) +#13 2.153 Downloading leather-0.4.0-py2.py3-none-any.whl (30 kB) +#13 2.175 Downloading parsedatetime-2.6-py3-none-any.whl (42 kB) +#13 2.178 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 42.5/42.5 kB 202.2 MB/s eta 0:00:00 +#13 2.198 Downloading python_slugify-8.0.4-py2.py3-none-any.whl (10 kB) +#13 2.213 Downloading pytimeparse-1.1.8-py2.py3-none-any.whl (10.0 kB) +#13 2.234 Downloading et_xmlfile-2.0.0-py3-none-any.whl (18 kB) +#13 2.254 Downloading olefile-0.47-py2.py3-none-any.whl (114 kB) +#13 2.270 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 114.6/114.6 kB 7.9 MB/s eta 0:00:00 +#13 2.292 Downloading text_unidecode-1.3-py2.py3-none-any.whl (78 kB) +#13 2.313 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 78.2/78.2 kB 4.5 MB/s eta 0:00:00 +#13 2.796 Installing collected packages: text-unidecode, pytimeparse, parsedatetime, leather, filetype, dbfread, xlrd, python-slugify, olefile, isodate, et-xmlfile, openpyxl, agate, agate-sql, agate-excel, agate-dbf, csvkit, bash_kernel +#13 3.241 Successfully installed agate-1.13.0 agate-dbf-0.2.3 agate-excel-0.4.1 agate-sql-0.7.2 bash_kernel-0.10.0 csvkit-2.1.0 dbfread-2.0.7 et-xmlfile-2.0.0 filetype-1.2.0 isodate-0.7.2 leather-0.4.0 olefile-0.47 openpyxl-3.1.5 parsedatetime-2.6 python-slugify-8.0.4 pytimeparse-1.1.8 text-unidecode-1.3 xlrd-2.0.2 +#13 3.242 WARNING: Running pip as the 'root' user can result in broken permissions and conflicting behaviour with the system package manager. It is recommended to use a virtual environment instead: https://pip.pypa.io/warnings/venv +#13 3.543 Installing IPython kernel spec +#13 DONE 3.7s + +#14 [stage-1 5/11] RUN gem install youplot +#14 1.180 Building native extensions. This could take a while... +#14 2.611 Successfully installed enumerable-statistics-2.0.8 +#14 2.611 Successfully installed unicode_plot-0.0.5 +#14 2.611 Successfully installed youplot-0.4.6 +#14 2.611 Parsing documentation for enumerable-statistics-2.0.8 +#14 2.611 Installing ri documentation for enumerable-statistics-2.0.8 +#14 2.611 Parsing documentation for unicode_plot-0.0.5 +#14 2.611 Installing ri documentation for unicode_plot-0.0.5 +#14 2.611 Parsing documentation for youplot-0.4.6 +#14 2.611 Installing ri documentation for youplot-0.4.6 +#14 2.611 Done installing documentation for enumerable-statistics, unicode_plot, youplot after 0 seconds +#14 2.611 3 gems installed +#14 DONE 2.7s + +#15 [stage-1 6/11] RUN mkdir -p /home/jovyan/.local/share/jupyter && chown -R 1000:100 /home/jovyan +#15 DONE 0.1s + +#16 [stage-1 7/11] COPY start-notebook.sh /usr/local/bin/start-notebook.sh +#16 DONE 0.1s + +#17 [stage-1 8/11] RUN chmod +x /usr/local/bin/start-notebook.sh +#17 DONE 0.2s + +#18 [stage-1 9/11] COPY --from=rust-builder /home/jovyan/.cargo/bin/csvlens /usr/local/bin/ +#18 DONE 0.1s + +#19 [stage-1 10/11] COPY --from=rust-builder /usr/local/bin/* /usr/local/bin/ +#19 DONE 0.3s + +#20 [stage-1 11/11] WORKDIR /home/jovyan/work +#20 DONE 0.1s + +#21 exporting to image +#21 exporting layers +#21 exporting layers 4.3s done +#21 writing image sha256:3d8d0d98d6d73def354c12c91a47a913581ed599ebf9c536061249bd773d943c done +#21 naming to docker.io/library/jupyterhub-student:latest done +#21 DONE 4.4s diff --git a/web_src/lectures/computers/regex/lecture_regex.qmd b/web_src/05_Lectures/00_Computers/regex/lecture_regex.qmd similarity index 100% rename from web_src/lectures/computers/regex/lecture_regex.qmd rename to web_src/05_Lectures/00_Computers/regex/lecture_regex.qmd diff --git a/web_src/lectures/computers/regex/slides_regex.qmd b/web_src/05_Lectures/00_Computers/regex/slides_regex.qmd similarity index 98% rename from web_src/lectures/computers/regex/slides_regex.qmd rename to web_src/05_Lectures/00_Computers/regex/slides_regex.qmd index b8df902..bfba27f 100644 --- a/web_src/lectures/computers/regex/slides_regex.qmd +++ b/web_src/05_Lectures/00_Computers/regex/slides_regex.qmd @@ -2,9 +2,11 @@ title: "Regular Expressions" format: revealjs: - theme: beige # thème des slides css: ../../slides.css - transition: fade # effet de transition entre les slides + transition: slide + scrollable: true + theme: beige + html-math-method: mathjax --- diff --git a/web_src/lectures/computers/unix/commande-tube.svg b/web_src/05_Lectures/00_Computers/unix/commande-tube.svg similarity index 100% rename from web_src/lectures/computers/unix/commande-tube.svg rename to web_src/05_Lectures/00_Computers/unix/commande-tube.svg diff --git a/web_src/lectures/computers/unix/commande.svg b/web_src/05_Lectures/00_Computers/unix/commande.svg similarity index 100% rename from web_src/lectures/computers/unix/commande.svg rename to web_src/05_Lectures/00_Computers/unix/commande.svg diff --git a/web_src/lectures/computers/unix/fs-link.svg b/web_src/05_Lectures/00_Computers/unix/fs-link.svg similarity index 100% rename from web_src/lectures/computers/unix/fs-link.svg rename to web_src/05_Lectures/00_Computers/unix/fs-link.svg diff --git a/web_src/lectures/computers/unix/fs-spdir.svg b/web_src/05_Lectures/00_Computers/unix/fs-spdir.svg similarity index 100% rename from web_src/lectures/computers/unix/fs-spdir.svg rename to web_src/05_Lectures/00_Computers/unix/fs-spdir.svg diff --git a/web_src/lectures/computers/unix/fs.svg b/web_src/05_Lectures/00_Computers/unix/fs.svg similarity index 100% rename from web_src/lectures/computers/unix/fs.svg rename to web_src/05_Lectures/00_Computers/unix/fs.svg diff --git a/web_src/lectures/computers/unix/gnome-fs-directory.svg b/web_src/05_Lectures/00_Computers/unix/gnome-fs-directory.svg similarity index 100% rename from web_src/lectures/computers/unix/gnome-fs-directory.svg rename to web_src/05_Lectures/00_Computers/unix/gnome-fs-directory.svg diff --git a/web_src/lectures/computers/unix/gnome-fs-home.svg b/web_src/05_Lectures/00_Computers/unix/gnome-fs-home.svg similarity index 100% rename from web_src/lectures/computers/unix/gnome-fs-home.svg rename to web_src/05_Lectures/00_Computers/unix/gnome-fs-home.svg diff --git a/web_src/lectures/computers/unix/gnome-fs-regular.svg b/web_src/05_Lectures/00_Computers/unix/gnome-fs-regular.svg similarity index 100% rename from web_src/lectures/computers/unix/gnome-fs-regular.svg rename to web_src/05_Lectures/00_Computers/unix/gnome-fs-regular.svg diff --git a/web_src/lectures/computers/unix/gnome-fs-slink.svg b/web_src/05_Lectures/00_Computers/unix/gnome-fs-slink.svg similarity index 100% rename from web_src/lectures/computers/unix/gnome-fs-slink.svg rename to web_src/05_Lectures/00_Computers/unix/gnome-fs-slink.svg diff --git a/web_src/lectures/computers/unix/images/OBITools-web.png b/web_src/05_Lectures/00_Computers/unix/images/OBITools-web.png similarity index 100% rename from web_src/lectures/computers/unix/images/OBITools-web.png rename to web_src/05_Lectures/00_Computers/unix/images/OBITools-web.png diff --git a/web_src/lectures/computers/unix/images/automata.svg b/web_src/05_Lectures/00_Computers/unix/images/automata.svg similarity index 100% rename from web_src/lectures/computers/unix/images/automata.svg rename to web_src/05_Lectures/00_Computers/unix/images/automata.svg diff --git a/web_src/lectures/computers/unix/images/challenge.png b/web_src/05_Lectures/00_Computers/unix/images/challenge.png similarity index 100% rename from web_src/lectures/computers/unix/images/challenge.png rename to web_src/05_Lectures/00_Computers/unix/images/challenge.png diff --git a/web_src/lectures/computers/unix/images/command-grep1.svg b/web_src/05_Lectures/00_Computers/unix/images/command-grep1.svg similarity index 100% rename from web_src/lectures/computers/unix/images/command-grep1.svg rename to web_src/05_Lectures/00_Computers/unix/images/command-grep1.svg diff --git a/web_src/lectures/computers/unix/images/command-grep2.svg b/web_src/05_Lectures/00_Computers/unix/images/command-grep2.svg similarity index 100% rename from web_src/lectures/computers/unix/images/command-grep2.svg rename to web_src/05_Lectures/00_Computers/unix/images/command-grep2.svg diff --git a/web_src/lectures/computers/unix/images/command-grep3.svg b/web_src/05_Lectures/00_Computers/unix/images/command-grep3.svg similarity index 100% rename from web_src/lectures/computers/unix/images/command-grep3.svg rename to web_src/05_Lectures/00_Computers/unix/images/command-grep3.svg diff --git a/web_src/lectures/computers/unix/images/command-grepless.svg b/web_src/05_Lectures/00_Computers/unix/images/command-grepless.svg similarity index 100% rename from web_src/lectures/computers/unix/images/command-grepless.svg rename to web_src/05_Lectures/00_Computers/unix/images/command-grepless.svg diff --git a/web_src/lectures/computers/unix/images/command.svg b/web_src/05_Lectures/00_Computers/unix/images/command.svg similarity index 100% rename from web_src/lectures/computers/unix/images/command.svg rename to web_src/05_Lectures/00_Computers/unix/images/command.svg diff --git a/web_src/lectures/computers/unix/images/exp1.dot b/web_src/05_Lectures/00_Computers/unix/images/exp1.dot similarity index 100% rename from web_src/lectures/computers/unix/images/exp1.dot rename to web_src/05_Lectures/00_Computers/unix/images/exp1.dot diff --git a/web_src/lectures/computers/unix/images/exp1.svg b/web_src/05_Lectures/00_Computers/unix/images/exp1.svg similarity index 100% rename from web_src/lectures/computers/unix/images/exp1.svg rename to web_src/05_Lectures/00_Computers/unix/images/exp1.svg diff --git a/web_src/lectures/computers/unix/images/exp2.dot b/web_src/05_Lectures/00_Computers/unix/images/exp2.dot similarity index 100% rename from web_src/lectures/computers/unix/images/exp2.dot rename to web_src/05_Lectures/00_Computers/unix/images/exp2.dot diff --git a/web_src/lectures/computers/unix/images/exp2.svg b/web_src/05_Lectures/00_Computers/unix/images/exp2.svg similarity index 100% rename from web_src/lectures/computers/unix/images/exp2.svg rename to web_src/05_Lectures/00_Computers/unix/images/exp2.svg diff --git a/web_src/lectures/computers/unix/images/exp3.dot b/web_src/05_Lectures/00_Computers/unix/images/exp3.dot similarity index 100% rename from web_src/lectures/computers/unix/images/exp3.dot rename to web_src/05_Lectures/00_Computers/unix/images/exp3.dot diff --git a/web_src/lectures/computers/unix/images/exp3.svg b/web_src/05_Lectures/00_Computers/unix/images/exp3.svg similarity index 100% rename from web_src/lectures/computers/unix/images/exp3.svg rename to web_src/05_Lectures/00_Computers/unix/images/exp3.svg diff --git a/web_src/lectures/computers/unix/images/exp4.dot b/web_src/05_Lectures/00_Computers/unix/images/exp4.dot similarity index 100% rename from web_src/lectures/computers/unix/images/exp4.dot rename to web_src/05_Lectures/00_Computers/unix/images/exp4.dot diff --git a/web_src/lectures/computers/unix/images/exp4.svg b/web_src/05_Lectures/00_Computers/unix/images/exp4.svg similarity index 100% rename from web_src/lectures/computers/unix/images/exp4.svg rename to web_src/05_Lectures/00_Computers/unix/images/exp4.svg diff --git a/web_src/lectures/computers/unix/images/exp5.dot b/web_src/05_Lectures/00_Computers/unix/images/exp5.dot similarity index 100% rename from web_src/lectures/computers/unix/images/exp5.dot rename to web_src/05_Lectures/00_Computers/unix/images/exp5.dot diff --git a/web_src/lectures/computers/unix/images/exp5.svg b/web_src/05_Lectures/00_Computers/unix/images/exp5.svg similarity index 100% rename from web_src/lectures/computers/unix/images/exp5.svg rename to web_src/05_Lectures/00_Computers/unix/images/exp5.svg diff --git a/web_src/lectures/computers/unix/images/exp6.dot b/web_src/05_Lectures/00_Computers/unix/images/exp6.dot similarity index 100% rename from web_src/lectures/computers/unix/images/exp6.dot rename to web_src/05_Lectures/00_Computers/unix/images/exp6.dot diff --git a/web_src/lectures/computers/unix/images/exp6.svg b/web_src/05_Lectures/00_Computers/unix/images/exp6.svg similarity index 100% rename from web_src/lectures/computers/unix/images/exp6.svg rename to web_src/05_Lectures/00_Computers/unix/images/exp6.svg diff --git a/web_src/lectures/computers/unix/images/filesystem-link.png b/web_src/05_Lectures/00_Computers/unix/images/filesystem-link.png similarity index 100% rename from web_src/lectures/computers/unix/images/filesystem-link.png rename to web_src/05_Lectures/00_Computers/unix/images/filesystem-link.png diff --git a/web_src/lectures/computers/unix/images/filesystem-special.png b/web_src/05_Lectures/00_Computers/unix/images/filesystem-special.png similarity index 100% rename from web_src/lectures/computers/unix/images/filesystem-special.png rename to web_src/05_Lectures/00_Computers/unix/images/filesystem-special.png diff --git a/web_src/lectures/computers/unix/images/filesystem.png b/web_src/05_Lectures/00_Computers/unix/images/filesystem.png similarity index 100% rename from web_src/lectures/computers/unix/images/filesystem.png rename to web_src/05_Lectures/00_Computers/unix/images/filesystem.png diff --git a/web_src/lectures/computers/unix/images/loop.svg b/web_src/05_Lectures/00_Computers/unix/images/loop.svg similarity index 100% rename from web_src/lectures/computers/unix/images/loop.svg rename to web_src/05_Lectures/00_Computers/unix/images/loop.svg diff --git a/web_src/lectures/computers/unix/images/nano.png b/web_src/05_Lectures/00_Computers/unix/images/nano.png similarity index 100% rename from web_src/lectures/computers/unix/images/nano.png rename to web_src/05_Lectures/00_Computers/unix/images/nano.png diff --git a/web_src/lectures/computers/unix/images/obitools-command.svg b/web_src/05_Lectures/00_Computers/unix/images/obitools-command.svg similarity index 100% rename from web_src/lectures/computers/unix/images/obitools-command.svg rename to web_src/05_Lectures/00_Computers/unix/images/obitools-command.svg diff --git a/web_src/lectures/computers/unix/images/obitools.png b/web_src/05_Lectures/00_Computers/unix/images/obitools.png similarity index 100% rename from web_src/lectures/computers/unix/images/obitools.png rename to web_src/05_Lectures/00_Computers/unix/images/obitools.png diff --git a/web_src/lectures/computers/unix/images/permissions.png b/web_src/05_Lectures/00_Computers/unix/images/permissions.png similarity index 100% rename from web_src/lectures/computers/unix/images/permissions.png rename to web_src/05_Lectures/00_Computers/unix/images/permissions.png diff --git a/web_src/lectures/computers/unix/images/terminal.svg b/web_src/05_Lectures/00_Computers/unix/images/terminal.svg similarity index 100% rename from web_src/lectures/computers/unix/images/terminal.svg rename to web_src/05_Lectures/00_Computers/unix/images/terminal.svg diff --git a/web_src/lectures/computers/unix/lecture_unix.qmd b/web_src/05_Lectures/00_Computers/unix/lecture_unix.qmd similarity index 100% rename from web_src/lectures/computers/unix/lecture_unix.qmd rename to web_src/05_Lectures/00_Computers/unix/lecture_unix.qmd diff --git a/web_src/lectures/computers/unix/ls-stdout.svg b/web_src/05_Lectures/00_Computers/unix/ls-stdout.svg similarity index 100% rename from web_src/lectures/computers/unix/ls-stdout.svg rename to web_src/05_Lectures/00_Computers/unix/ls-stdout.svg diff --git a/web_src/lectures/computers/unix/pipe.svg b/web_src/05_Lectures/00_Computers/unix/pipe.svg similarity index 100% rename from web_src/lectures/computers/unix/pipe.svg rename to web_src/05_Lectures/00_Computers/unix/pipe.svg diff --git a/web_src/lectures/computers/unix/process.svg b/web_src/05_Lectures/00_Computers/unix/process.svg similarity index 100% rename from web_src/lectures/computers/unix/process.svg rename to web_src/05_Lectures/00_Computers/unix/process.svg diff --git a/web_src/lectures/computers/unix/shell-inout.svg b/web_src/05_Lectures/00_Computers/unix/shell-inout.svg similarity index 100% rename from web_src/lectures/computers/unix/shell-inout.svg rename to web_src/05_Lectures/00_Computers/unix/shell-inout.svg diff --git a/web_src/lectures/computers/unix/slides.qmd b/web_src/05_Lectures/00_Computers/unix/slides.qmd similarity index 99% rename from web_src/lectures/computers/unix/slides.qmd rename to web_src/05_Lectures/00_Computers/unix/slides.qmd index c378d6e..d9297b7 100644 --- a/web_src/lectures/computers/unix/slides.qmd +++ b/web_src/05_Lectures/00_Computers/unix/slides.qmd @@ -6,12 +6,11 @@ title: | author: frederic.boyer@univ-grenoble-alpes.fr format: revealjs: - theme: beige css: ../../slides.css - transition: fade - width: 1280 - height: 720 - center: true + transition: slide + scrollable: true + theme: beige + html-math-method: mathjax --- # Introduction to Unix diff --git a/web_src/lectures/computers/unix/unix-modern-bash.qmd b/web_src/05_Lectures/00_Computers/unix/unix-modern-bash.qmd similarity index 100% rename from web_src/lectures/computers/unix/unix-modern-bash.qmd rename to web_src/05_Lectures/00_Computers/unix/unix-modern-bash.qmd diff --git a/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/Slides.qmd b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/Slides.qmd new file mode 100644 index 0000000..b918f40 --- /dev/null +++ b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/Slides.qmd @@ -0,0 +1,1248 @@ +--- +title: "Biodiversity metrics \ and metabarcoding" +author: "Eric Coissac" +date: "02/02/2024" +bibliography: inst/REFERENCES.bib +format: + revealjs: + css: ../../slides.css + transition: slide + scrollable: true + theme: beige + html-math-method: mathjax +editor: visual +--- + +```{r setup, include=FALSE} +library(knitr) +library(tidyverse) +library(kableExtra) +library(latex2exp) +library(MetabarSchool) + +opts_chunk$set(echo = FALSE, + cache = TRUE, + cache.lazy = FALSE) +``` + +# Summary + +- The MetabarSchool Package +- What do the reading numbers per PCR mean? +- Rarefaction vs. relative frequencies +- alpha diversity metrics +- beta diversity metrics +- multidimentionnal analysis +- comparison between datasets + +# The MetabarSchool Package + +## Installing the package + +You need the *devtools* package + +```{r eval=FALSE, echo=TRUE} +install.packages("devtools",dependencies = TRUE) +``` + +Then you can install *MetabarSchool* + +```{r eval=FALSE, echo=TRUE} +devtools::install_git("https://git.metabarcoding.org/MetabarcodingSchool/biodiversity-metrics.git") +``` + +You will also need the *vegan* package + +```{r eval=FALSE, echo=TRUE} +install.packages("vegan",dependencies = TRUE) +``` + +# The dataset + +## The mock community {.flexbox .vcenter .smaller} + +A 16 plants mock community + +```{r} +data("plants.16") +x = cbind(` ` =seq_len(nrow(plants.16)),plants.16) +x$`Relative aboundance`=paste0('1/',1/x$dilution) +knitr::kable(x[,-(4:5)], + format = "html", + row.names = FALSE, + align = "rlrr") %>% + kable_styling(position = "center") +``` + +## The experiment {.flexbox .vcenter} + +```{r} +data("positive.samples") +``` + +- `r nrow(positive.samples)` PCR of the mock community using SPER02 trnL-P6-Loop primers + + - `r length(table(positive.samples$dilution))` dilutions of the mock community: `r paste0('1/',names(table(positive.samples$dilution)))` + + - `r as.numeric(table(positive.samples$dilution)[1])` repeats per dilution + +## Loading data + +```{r echo=TRUE} +library(MetabarSchool) + +data("positive.count") +data("positive.samples") +data("positive.motus") +``` + +- `positive.count` read count matrix $`r nrow(positive.count)` \; PCRs \; \times \; `r ncol(positive.count)` \; MOTUs$ + +```{r} +knitr::kable(positive.count[1:5,1:5], + format="html", + align = 'rc') %>% + kable_styling(position = "center") %>% + row_spec(0, angle = -45) +``` + +
+ +```{r echo=TRUE,eval=FALSE} +positive.count[1:5,1:5] +``` + +## Loading data + +```{r echo=TRUE} +library(MetabarSchool) + +data("positive.count") +data("positive.samples") +data("positive.motus") +``` + +- `positive.samples` a `r nrow(positive.samples)` rows `data.frame` of `r ncol(positive.samples)` columns describing each PCR + +```{r} +knitr::kable(head(positive.samples,n=3), + format="html", + align = 'rc') %>% + kable_styling(position = "center") +``` + +
+ +```{r echo=TRUE,eval=FALSE} +head(positive.samples,n=3) +``` + +## Loading data + +```{r echo=TRUE} +library(MetabarSchool) + +data("positive.count") +data("positive.samples") +data("positive.motus") +``` + +- `positive.motus` : a `r nrow(positive.motus)` rows `data.frame` of `r ncol(positive.motus)` columns describing each MOTU + +```{r} +knitr::kable(head(positive.motus,n=3), + format = "html", + align = 'rlrc') %>% + kable_styling(position = "center") +``` + +
+ +```{r echo=TRUE,eval=FALSE} +head(positive.motus,n=3) +``` + +## Removing singleton sequences {.flexbox .vcenter} + +Singleton sequences are observed only once over the complete dataset. + +```{r echo=TRUE,eval=FALSE} +table(colSums(positive.count) == 1) +``` + +```{r} +kable(t(table(colSums(positive.count) == 1)), + format = "html") %>% + kable_styling(position = "center") %>% + row_spec(0, align = 'c') +``` + +
+ +We discard them they are unanimously considered as rubbish. + +```{r echo=TRUE} +are.not.singleton = colSums(positive.count) > 1 +positive.count = positive.count[,are.not.singleton] +positive.motus = positive.motus[are.not.singleton,] +``` + +- `positive.count` is now a $`r nrow(positive.count)` \; PCRs \; \times \; `r ncol(positive.count)` \; MOTUs$ matrix + +## Not all the PCR have the same number of reads {.flexbox .vcenter} + +Despite all standardization efforts + +```{r fig.height=3} +par(bg=NA) +hist(rowSums(positive.count), + breaks = 15, + xlab="Read counts", + main = "Number of read per PCR") +``` + +::: green +Is it related to the amount of DNA in the extract ? +::: + +## What do the reading numbers per PCR mean? {.smaller} + +```{r echo=TRUE, fig.height=4} +par(bg=NA) +boxplot(rowSums(positive.count) ~ positive.samples$dilution,log="y") +abline(h = median(rowSums(positive.count)),lw=2,col="red",lty=2) +``` + +```{r} +SC = summary(aov((rowSums(positive.count)) ~ positive.samples$dilution))[[1]]$`Sum Sq` +``` + +::: red2 +
Only `r round((SC/sum(SC)*100)[1],1)`% of the PCR read count variation is explain by dilution
+::: + +## You must normalize your read counts + +Two options: + +### Rarefaction + +Randomly subsample the same number of reads for all the PCRs + +### Relative frequencies + +Divide the read count of each MOTU in each sample by the total total read count of the same sample + +$$ +\text{Relative fequency}(Motu_i,Sample_j) = \frac{\text{Read count}(Motu_i,Sample_j)}{\sum_{k=1}^n\text{Read count}(Motu_k,Sample_j)} +$$ + +```{r echo=TRUE,warning=FALSE,message=FALSE} +library(vegan) +``` + +## Rarefying read count (1) {.flexbox .vcenter} + +- We look for the minimum read number per PCR + +```{r echo=TRUE} +min(rowSums(positive.count)) +``` + +```{r echo=TRUE} +positive.count.rarefied = rrarefy(positive.count,2000) +``` + +## Rarefying read count (2) {.flexbox .vcenter} + +```{r fig.height=4} +par(mfrow=c(1,2),bg=NA) +hist(log10(colSums(positive.count)+1), + main = "Not rarefied", + xlim = c(0,6), + ylim = c(0,2300), + breaks = 30, + xlab = TeX("$\\log_{10}(reads per MOTUs)$")) +hist(log10(colSums(positive.count.rarefied)+1), + main = "Rarefied data", + xlim = c(0,6), + ylim = c(0,2300), + breaks = 30, + xlab = TeX("$\\log_{10}(reads per MOTUs)$")) +``` + +## Rarefying read count (3) {.flexbox .vcenter} + +Identifying the MOTUs with reads count greater than $0$ after rarefaction. + +```{r echo=TRUE} +are.still.present = colSums(positive.count.rarefied)>0 +are.still.present[1:5] +``` + +```{r echo=TRUE} +table(are.still.present) +``` + +## Rarefying read count (4) {.flexbox .vcenter} + +```{r echo=TRUE, fig.height=3.5} +par(bg=NA) +boxplot(colSums(positive.count) ~ are.still.present, log="y") +``` + +The MOTUs removed by rarefaction were at most occurring `r max(colSums(positive.count[,!are.still.present]))` times + +The MOTUs kept by rarefaction were at least occurring `r min(colSums(positive.count[,are.still.present]))` times + +## Rarefying read count (5) {.vcenter} + +### Keep only sequences with reads after rarefaction + +```{r echo=TRUE} +positive.count.rarefied = positive.count.rarefied[,are.still.present] +positive.motus.rare = positive.motus[are.still.present,] +``` + +
positive.motus.rare is now a $`r nrow(positive.count.rarefied)` \; PCRs \; \times \; `r ncol(positive.count.rarefied)` \; MOTUs$
+ +## Why rarefying ? {.vcenter .columns-2} + +```{r, out.width = "200px"} +knitr::include_graphics("figures/subsampling.svg") +``` + +



Increasing the number of reads just increase the description of the subpart of the PCR you have sequenced. + +## Transforming read counts to relative frequencies + +```{r echo=TRUE} +positive.count.relfreq = decostand(positive.count, + method = "total") +``` + +No sequences will be set to zero + +```{r echo=TRUE} +table(colSums(positive.count.relfreq) == 0) +``` + +# Measuring diversity + +## The different types of diversity {.vcenter} + +::: {style="float: left; width: 40%;"} +```{r} +knitr::include_graphics("figures/diversity.svg") +``` +::: + +::: {style="float: left; width: 60%;"} +

@Whittaker:10:00



+ +- $\alpha\text{-diversity}$ : Mean diversity per site ($species/site$) + +- $\gamma\text{-diversity}$ : Regional biodiversity ($species/region$) + +- $\beta\text{-diversity}$ : $\beta = \frac{\gamma}{\alpha}$ ($sites/region$) +::: + +# $\alpha$-diversity + +## Which is th most diverse environment ? {.flexbox .vcenter} + +```{r out.width = "400px"} +knitr::include_graphics("figures/alpha_diversity.svg") +``` + +```{r out.width = "400px"} +E1 = c(A=0.25,B=0.25,C=0.25,D=0.25,E=0,F=0,G=0) +E2 = c(A=0.55,B=0.07,C=0.02,D=0.17,E=0.07,F=0.07,G=0.03) +environments = t(data.frame(`Environment 1` = E1,`Environment 2` = E2)) +kable(environments, + format="html", + align = 'rr') %>% + kable_styling(position = "center") +``` + +## Richness {.flexbox .vcenter} + +The actual number of species present in your environement whatever their aboundances + +```{r out.width = "400px"} +knitr::include_graphics("figures/alpha_diversity.svg") +``` + +```{r echo=TRUE} +S = rowSums(environments > 0) +``` + +```{r} +kable(data.frame(S=S), + format="html", + align = 'rr') %>% + kable_styling(position = "center") +``` + +## Gini-Simpson's index {.smaller} + +::: {style="float: left; width: 60%;"} +The Simpson's index is the probability of having the same species twice when you randomly select two specimens.

+::: + +::: {style="float: right; width: 40%;"} +$$ +\lambda =\sum _{i=1}^{S}p_{i}^{2} +$$
+::: + +
+ +$\lambda$ decrease when complexity of your ecosystem increase. + +Gini-Simpson's index defined as $1-\lambda$ increase with diversity + +```{r out.width = "250px"} +knitr::include_graphics("figures/alpha_diversity.svg") +``` + +
+ +```{r echo=TRUE} +GS = 1 - rowSums(environments^2) +``` + +```{r} +kable(data.frame(`Gini-Simpson`=GS), + format="html", + align = 'rr') %>% + kable_styling(position = "center") +``` + +## Shannon entropy {.smaller} + +Shannon entropy is based on information theory: + +
$H^{\prime }=-\sum _{i=1}^{S}p_{i}\log p_{i}$
+ +if $A$ is a community where every species are equally represented then $$ +H(A) = \log|A| +$$ + +
+ +```{r out.width = "400px"} +knitr::include_graphics("figures/alpha_diversity.svg") +``` + +
+ +```{r echo=TRUE} +H = - rowSums(environments * log(environments),na.rm = TRUE) +``` + +```{r} +kable(data.frame(`Shannon index`=H), + format="html", + align = 'rr') %>% + kable_styling(position = "center") +``` + +## Hill's number {.smaller} + +::: {style="float: left; width: 50%;"} +As : $$ +H(A) = \log|A| \;\Rightarrow\; ^1D = e^{H(A)} +$$
+::: + +::: {style="float: right; width: 50%;"} +where $^1D$ is the theoretical number of species in a evenly distributed community that would have the same Shannon's entropy than ours. +::: + +
+ +

+ +```{r out.width = "400px"} +knitr::include_graphics("figures/alpha_diversity.svg") +``` + +
+ +```{r echo=TRUE} +D2 = exp(- rowSums(environments * log(environments),na.rm = TRUE)) +``` + +```{r} +kable(data.frame(`Hill Numbers`=D2), + format="html", + align = 'rr') %>% + kable_styling(position = "center") +``` + +## Generalized logaritmic function {.smaller} + +Based on the generalized entropy @Tsallis:94:00 we can propose a generalized form of logarithm. + +$$ +^q\log(x) = \frac{x^{(1-q)}-1}{1-q} +$$ + +The function is not defined for $q=1$ but when $q \longrightarrow 1\;,\; ^q\log(x) \longrightarrow \log(x)$ + +$$ +^q\log(x) = \left\{ + \begin{align} + \log(x),& \text{if } q = 1\\ + \frac{x^{(1-q)}-1}{1-q},& \text{otherwise} + \end{align} + \right. +$$ + +```{r echo=TRUE, eval=FALSE} +log_q = function(x,q=1) { + if (q==1) + log(x) + else + (x^(1-q)-1)/(1-q) +} +``` + +## Impact of $q$ on the `log_q` function + +```{r} +layout(matrix(c(1,1,2),nrow=1)) +qs = seq(0,5,by=1) +x = seq(0.001,1,length.out = 100) +plot(x,log_q(x,0),lty=2,lwd=3,col=0,type="l", + ylab = TeX("$^q\\log$"), + ylim=c(-10,0)) + +for (i in seq_along(qs)) { + points(x,log_q(x,qs[i]),lty=1,lwd=1,col=i,type="l") +} + +points(x,log(x),lty=2,lwd=3,col="red",type="l") + +plot(0,type='n',axes=FALSE,ann=FALSE) +legend("topleft",legend = qs,fill = seq_along(qs),cex=1.5) + + +``` + +## And its inverse function {.flexbox .vcenter} + +$$ +^qe^x = \left\{ + \begin{align} + e^x,& \text{if } x = 1 \\ + (1 + x(1-q))^{(\frac{1}{1-q})},& \text{otherwise} + \end{align} + \right. +$$ + +```{r echo=TRUE, eval=FALSE} +exp_q = function(x,q=1) { + if (q==1) + exp(x) + else + (1 + (1-q)*x)^(1/(1-q)) +} +``` + +## Generalised Shannon entropy + +$$ +^qH = - \sum_{i=1}^S p_i \; ^q\log p_i +$$ + +```{r echo=TRUE, eval=FALSE} +H_q = function(x,q=1) { + sum(x * log_q(1/x,q),na.rm = TRUE) +} +``` + +and generalized the previously presented Hill's number + +$$ +^qD=^qe^{^qH} +$$ + +```{r echo=TRUE, eval=FALSE} + D_q = function(x,q=1) { + exp_q(H_q(x,q),q) +} +``` + +## Biodiversity spectrum (1) {.flexbox .vcenter} + +```{r echo=TRUE, eval=FALSE} +H_spectrum = function(x,q=1) { + sapply(q,function(Q) H_q(x,Q)) +} +``` + +```{r echo=TRUE, eval=FALSE} +D_spectrum = function(x,q=1) { + sapply(q,function(Q) D_q(x,Q)) +} +``` + +## Biodiversity spectrum (2) + +```{r echo=TRUE,warning=FALSE,error=FALSE} +library(MetabarSchool) +qs = seq(from=0,to=3,by=0.1) +environments.hq = apply(environments,MARGIN = 1,H_spectrum,q=qs) +environments.dq = apply(environments,MARGIN = 1,D_spectrum,q=qs) +``` + +```{r} +par(mfrow=c(1,2),bg=NA) +plot(qs,environments.hq[,2],type="l",col="red", + xlab=TeX('$q$'), + ylab=TeX('$^qH$'), + xlim=c(-0.5,3.5), + main="generalized entropy") +points(qs,environments.hq[,1],type="l",col="blue") +abline(v=c(0,1,2),lty=2,col=4:6) +plot(qs,environments.dq[,2],type="l",col="red", + xlab=TeX('$q$'), + ylab=TeX('$^qD$'), + main="Hill's number") +points(qs,environments.dq[,1],type="l",col="blue") +abline(v=c(0,1,2),lty=2,col=4:6) +``` + +## Generalized entropy $vs$ $\alpha$-diversity indices + +- $^0H(X) = S - 1$ : the richness minus one. + +- $^1H(X) = H^{\prime}$ : the Shannon's entropy. + +- $^2H(X) = 1 - \lambda$ : Gini-Simpson's index. + +### When computing the exponential of entropy : Hill's number {.smaller} + +- $^0D(X) = S$ : The richness. + +- $^1D(X) = e^{H^{\prime}}$ : The number of species in an even community having the same $H^{\prime}$. + +- $^2D(X) = 1 / \lambda$ : The number of species in an even community having the same Gini-Simpson's index. + +
+ +
+ +$q$ can be considered as a penality you give to rare species + +**when** $q=0$ all the species have the same weight + +
+ +## Biodiversity spectrum of the mock community + +```{r echo=TRUE} +H.mock = H_spectrum(plants.16$dilution,qs) +D.mock = D_spectrum(plants.16$dilution,qs) +``` + +```{r} +par(mfrow=c(1,2),bg=NA) +plot(qs,H.mock,type="l", + xlab=TeX('$q$'), + ylab=TeX('$^qH$'), + xlim=c(-0.5,3.5), + main="generalized entropy") +abline(v=c(0,1,2),lty=2,col=4:6) +plot(qs,D.mock,type="l", + xlab=TeX('$q$'), + ylab=TeX('$^qD$'), + main="Hill's number") +abline(v=c(0,1,2),lty=2,col=4:6) +``` + +## Biodiversity spectrum and metabarcoding (1) {.smaller} + +```{r echo=TRUE} +positive.H = apply(positive.count.relfreq, + MARGIN = 1, + FUN = H_spectrum, + q=qs) +``` + +```{r} +par(bg=NA) +boxplot(t(positive.H), + xlab=TeX('$q$'), + ylab=TeX('$^qH$'), + log="y",las=2,names=qs) +points(H.mock,col="red",type="l") +``` + +## Biodiversity spectrum and metabarcoding (2) {.flexbox .vcenter .smaller} + +```{r} +par(bg=NA) +boxplot(t(positive.H)[,11:31], + xlab=TeX('$q$'), + ylab=TeX('$^qH$'), + log="y", + names=qs[11:31]) +points(H.mock[11:31],col="red",type="l") +positive.H.means = rowMeans(positive.H) + +``` + +## Biodiversity spectrum and metabarcoding (3) {.smaller} + +```{r echo=TRUE} +positive.D = apply(positive.count.relfreq, + MARGIN = 1, + FUN = D_spectrum, + q=qs) +``` + +```{r} +par(bg=NA) +boxplot(t(positive.D), + xlab=TeX('$q$'), + ylab=TeX('$^qD$'), + log="y",las=2,names=qs) +points(D.mock,col="red",type="l") + +positive.D.means = rowMeans(positive.D) +``` + +## Impact of data cleaning on $\alpha$-diversity (1) + +We realize a basic cleaning: + +- removing signletons +- too short or long sequences +- clustering data using `obiclean` + +```{bash eval=FALSE,echo=TRUE} +obigrep -p 'count > 1' \ + positifs.uniq.annotated.fasta \ + > positifs.uniq.annotated.no.singleton.fasta + +obigrep -l 10 -L 150 \ + positifs.uniq.annotated.no.singleton.fasta \ + > positifs.uniq.annotated.good.length.fasta + +obiclean -s merged_sample -H -C -r 0.1 \ + positifs.uniq.annotated.good.length.fasta \ + > positifs.uniq.annotated.clean.fasta +``` + +## Impact of data cleaning on $\alpha$-diversity (2) + +```{r echo=TRUE} +data(positive.clean.count) + +positive.clean.count.relfreq = decostand(positive.clean.count, + method = "total") + +positive.clean.H = apply(positive.clean.count.relfreq, + MARGIN = 1, + FUN = H_spectrum, + q=qs) +``` + +```{r fig.height=3.5} +par(bg=NA) +boxplot(t(positive.clean.H), + xlab=TeX('$q$'), + ylab=TeX('$^qH$'), + log="y",las=2,names=qs) +points(H.mock,col="red",type="l") +``` + +## Impact of data cleaning on $\alpha$-diversity (3) + +```{r echo=TRUE} +positive.clean.D = apply(positive.clean.count.relfreq, + MARGIN = 1, + FUN = D_spectrum, + q=qs) +``` + +```{r} +par(bg=NA) +boxplot(t(positive.clean.D), + xlab=TeX('$q$'), + ylab=TeX('$^qD$'), + log="y",las=2,names=qs) +points(D.mock,col="red",type="l") + +positive.clean.D.means = rowMeans(positive.D) +``` + +# $\beta$-diversity + +## Dissimilarity indices or non-metric distances {.flexbox .vcenter} + +
A dissimilarity index $d(A,B)$ is a numerical measurement
of how far apart objects $A$ and $B$ are.
+ +### Properties + +$$ +\begin{align} +d(A,B) \geqslant& 0 \\ +d(A,B) =& d(B,A) \\ +d(A,B) =& 0 \iff A = B \\ +\end{align} +$$ + +## Some dissimilarity indices + +### Bray-Curtis + +Relying on contengency table (quantitative data) + +$$ +{\displaystyle BC(A,B)=1-{\frac {2\sum _{i=1}^{p}min(N_{Ai},N_{Bi})}{\sum _{i=1}^{p}(N_{Ai}+N_{Bi})}}}, \; \text{with }p\text{ the total number of species} +$$ + +### Jaccard indices + +Relying on presence absence data + +$$ + J(A,B) = {{|A \cap B|}\over{|A \cup B|}} = {{|A \cap B|}\over{|A| + |B| - |A \cap B|}}. +$$ + +## Metrics or distances + +::: {style="float: left; width: 50%;"} +```{r out.width = "400px"} +knitr::include_graphics("figures/metric.svg") +``` +::: + +::: {style="float: right; width: 50%;"} +A metric is a dissimilarity index verifying the *subadditivity* also named *triangle inequality* + +$$ +\begin{align} +d(A,B) \geqslant& 0 \\ +d(A,B) =& \;d(B,A) \\ +d(A,B) =& \;0 \iff A = B \\ +d(A,B) \leqslant& \;d(A,C) + d(C,B) +\end{align} +$$ +::: + +## Some metrics + +::::: columns +::: {.column width="40%"} +```{r out.width = "400px"} +knitr::include_graphics("figures/Distance.svg") +``` +::: + +::: {.column width="60%"} +### Computing + +$$ +\begin{align} +d_e =& \sqrt{(x_A - x_B)^2 + (y_A - y_B)^2} \\ +d_m =& |x_A - x_B| + |y_A - y_B| \\ +d_c =& \max(|x_A - x_B| , |y_A - y_B|) \\ +\end{align} +$$ +::: +::::: + +## Generalizable on a n-dimension space {.smaller} + +Considering 2 points $A$ and $B$ defined by $n$ variables + +$$ +\begin{align} +A :& (a_1,a_2,a_3,...,a_n) \\ +B :& (b_1,b_2,b_3,...,b_n) +\end{align} +$$ + +with $a_i$ and $b_i$ being respectively the value of the $i^{th}$ variable for $A$ and $B$. + +$$ +\begin{align} +d_e =& \sqrt{\sum_{i=1}^{n}(a_i - b_i)^2 } \\ +d_m =& \sum_{i=1}^{n}\left| a_i - b_i \right| \\ +d_c =& \max\limits_{1\leqslant i \leqslant n}\left|a_i - b_i\right| \\ +\end{align} +$$ + +## For the fun... ;-) {.flexbox .vcenter} + +You can generalize those distances as a norm of order $k$ + +$$ +d^k = \sqrt[k]{\sum_{i=1}^n|a_i - b_i|^k} +$$ + +- $k=1 \Rightarrow D_m$ Manhatan distance +- $k=2 \Rightarrow D_e$ Euclidean distance +- $k=\infty \Rightarrow D_c$ Chebychev distance + +## Metrics and ultrametrics + +::::: columns +::: {.column width="40%"} +```{r out.width = "400px"} +knitr::include_graphics("figures/ultrametric.svg") +``` +::: + +::: {.column width="60%"} +### Metric + +$$ +d(x,z)\leqslant d(x,y)+d(y,z) +$$ + +### Ultrametric + +$$ +d(x,z)\leq \max(d(x,y),d(y,z)) +$$ +::: +::::: + +## Why it is nice to use metrics ? {.flexbox .vcenter} + +- A metric induce a metric space +- In a metric space rotations are isometries +- This means that rotations are not changing distances between objects +- Multidimensional scaling (PCA, PCoA, CoA...) are rotations + +## The data set {.flexbox .vcenter} + +**We analyzed two forest sites in French Guiana** + +- Mana : Soil is composed of white sands. + +- Petit Plateau : Terra firme (firm land). In the Amazon, it corresponds to the area of the forest that is not flooded during high water periods. The terra firme is characterized by old and poor soils. + +**At each site, twice sixteen samples where collected over an hectar** + +- Sixteen samples of soil. Each of them is constituted by a mix of five cores of 50g from the 10 first centimeters of soil covering half square meter. + +- Sixteen samples of litter. Each of them is constituted by the total litter collecter over the same half square meter where soil was sampled + +```{r echo=TRUE} +data("guiana.count") +data("guiana.motus") +data("guiana.samples") +``` + +## Clean out bad PCR cycle 1 {.flexbox .vcenter .smaller} + +```{r echo=TRUE,fig.height=2.5} +s = tag_bad_pcr(guiana.samples$sample,guiana.count) +guiana.count.clean = guiana.count[s$keep,] +guiana.samples.clean = guiana.samples[s$keep,] +``` + +```{r echo=TRUE} +table(s$keep) +``` + +## Clean out bad PCR cycle 2 {.flexbox .vcenter .smaller} + +```{r echo=TRUE,fig.height=2.5} +s = tag_bad_pcr(guiana.samples.clean$sample,guiana.count.clean) +guiana.count.clean = guiana.count.clean[s$keep,] +guiana.samples.clean = guiana.samples.clean[s$keep,] +``` + +```{r echo=TRUE} +table(s$keep) +``` + +## Clean out bad PCR cycle 3 {.flexbox .vcenter .smaller} + +```{r echo=TRUE,fig.height=2.5} +s = tag_bad_pcr(guiana.samples.clean$sample,guiana.count.clean) +guiana.count.clean = guiana.count.clean[s$keep,] +guiana.samples.clean = guiana.samples.clean[s$keep,] +``` + +```{r echo=TRUE} +table(s$keep) +``` + +## Averaging good PCR replicates (1) {.flexbox .vcenter} + +```{r echo=TRUE} +guiana.samples.clean = cbind(guiana.samples.clean,s[rownames(guiana.samples.clean),]) + +guiana.count.mean = aggregate(decostand(guiana.count.clean,method = "total"), + by = list(guiana.samples.clean$sample), + FUN=mean) + +n = guiana.count.mean[,1] +guiana.count.mean = guiana.count.mean[,-1] +rownames(guiana.count.mean)=as.character(n) +guiana.count.mean = as.matrix(guiana.count.mean) + +dim(guiana.count.mean) +``` + +## Averaging good PCR replicates (2) {.flexbox .vcenter} + +```{r echo=TRUE} +guiana.samples.mean = aggregate(guiana.samples.clean, + by = list(guiana.samples.clean$sample), + FUN=function(i) i[1]) +n = guiana.samples.mean[,1] +guiana.samples.mean = guiana.samples.mean[,-1] +rownames(guiana.samples.mean)=as.character(n) + +dim(guiana.samples.mean) +``` + +### Keep only samples {.flexbox .vcenter} + +```{r echo=TRUE} +guiana.samples.final = guiana.samples.mean[! is.na(guiana.samples.mean$site_id),] +guiana.count.final = guiana.count.mean[! is.na(guiana.samples.mean$site_id),] +``` + +## Estimating similarity between samples {.flexbox .vcenter} + +```{r echo=TRUE} +guiana.hellinger.final = decostand(guiana.count.final,method = "hellinger") +guiana.relfreq.final = decostand(guiana.count.final,method = "total") +guiana.presence.1.final = guiana.relfreq.final > 0.001 +guiana.presence.10.final = guiana.relfreq.final > 0.01 +guiana.presence.50.final = guiana.relfreq.final > 0.05 + +guiana.bc.dist = vegdist(guiana.relfreq.final,method = "bray") +guiana.euc.dist = vegdist(guiana.hellinger.final,method = "euclidean") +guiana.jac.1.dist = vegdist(guiana.presence.1.final,method = "jaccard") +guiana.jac.10.dist = vegdist(guiana.presence.10.final,method = "jaccard") +guiana.jac.50.dist = vegdist(guiana.presence.50.final,method = "jaccard") +``` + +## Euclidean distance on Hellinger transformation + +```{r echo=TRUE,fig.height=3,fig.width=3} +xy = guiana.count.final[,order(-colSums(guiana.count.final))] +xy = xy[,1:2] +xy.hellinger = decostand(xy,method = "hellinger") +``` + +::::: columns +::: {.column width="40%"} +```{r, fig.width=4,fig.height=4} +par(bg=NA) +plot(xy.hellinger,asp=1) +``` +::: + +::: {.column width="60%"} +```{r out.width = "400px"} +knitr::include_graphics("figures/euclidean_hellinger.svg") +``` +::: +::::: + +## Bray-Curtis distance on relative frequencies + +$$ +BC_{jk}=1-{\frac {2\sum _{i=1}^{p}min(N_{ij},N_{ik})}{\sum _{i=1}^{p}(N_{ij}+N_{ik})}} +$$ + +$$ +BC_{jk}=\frac{\sum _{i=1}^{p}(N_{ij}+N_{ik})-\sum _{i=1}^{p}2\;min(N_{ij},N_{ik})}{\sum _{i=1}^{p}(N_{ij}+N_{ik})} +$$ + +$$ +BC_{jk}=\frac{\sum _{i=1}^{p}(N_{ij} - min(N_{ij},N_{ik}) + (N_{ik} - min(N_{ij},N_{ik}))}{\sum _{i=1}^{p}(N_{ij}+N_{ik})} +$$ + +$$ +BC_{jk}=\frac{\sum _{i=1}^{p}|N_{ij} - N_{ik}|}{\sum _{i=1}^{p}N_{ij}+\sum _{i=1}^{p}N_{ik}} +$$ + +$$ +BC_{jk}=\frac{\sum _{i=1}^{p}|N_{ij} - N_{ik}|}{1+1} +$$ + +$$ +BC_{jk}=\frac{1}{2}\sum _{i=1}^{p}|N_{ij} - N_{ik}| +$$ + +## Principale coordinate analysis (1) {.flexbox .vcenter} + +```{r echo=TRUE} +guiana.bc.pcoa = cmdscale(guiana.bc.dist,k=3,eig = TRUE) +guiana.euc.pcoa = cmdscale(guiana.euc.dist,k=3,eig = TRUE) +guiana.jac.1.pcoa = cmdscale(guiana.jac.1.dist,k=3,eig = TRUE) +guiana.jac.10.pcoa = cmdscale(guiana.jac.10.dist,k=3,eig = TRUE) +guiana.jac.50.pcoa = cmdscale(guiana.jac.50.dist,k=3,eig = TRUE) +``` + +## Principale coordinate analysis (2) + +```{r fig.height=5,fig.width=7.5} +samples.type = interaction(guiana.samples.final$Material, + guiana.samples.final$Site, + drop = FALSE) + +par(mfrow=c(2,3),bg=NA) +plot(guiana.bc.pcoa$points[,1:2], + col = samples.type, + asp = 1, + xlab="Axis 1", + ylab="Axis 2", + main = "Bray Curtis on Rel. Freqs") +plot(guiana.euc.pcoa$points[,1],-guiana.euc.pcoa$points[,2], + col = samples.type, + asp = 1, + xlab="Axis 1", + ylab="Axis 2", + main = "Euclidean on Hellinger") +plot(0,type='n',axes=FALSE,ann=FALSE) +legend("topleft",legend = levels(samples.type),fill = 1:4,cex=1.2) +plot(guiana.jac.1.pcoa$points[,1:2], + col = samples.type, + asp = 1, + xlab="Axis 1", + ylab="Axis 2", + main = "Jaccard on presence (0.1%)") +plot(-guiana.jac.10.pcoa$points[,1],guiana.jac.10.pcoa$points[,2], + col = samples.type, + asp = 1, + xlab="Axis 1", + ylab="Axis 2", + main = "Jaccard on presence (1%)") +plot(guiana.jac.50.pcoa$points[,1:2], + col = samples.type, + asp = 1, + xlab="Axis 1", + ylab="Axis 2", + main = "Jaccard on presence (5%)") + +``` + +## Principale composante analysis {.flexbox .vcenter} + +```{r echo=TRUE} +guiana.hellinger.pca = prcomp(guiana.hellinger.final,center = TRUE, scale. = FALSE) +``` + +```{r fig.height=4,fig.width=12} +par(mfrow=c(1,3),bg=NA) +plot(guiana.euc.pcoa$points[,1:2], + col = samples.type, + asp = 1, + xlab="Axis 1", + ylab="Axis 2", + main = "Euclidean on Hellinger") +plot(guiana.hellinger.pca$x[,1:2], + col = samples.type, + asp = 1, + xlab="Axis 1", + ylab="Axis 2", + main = "PCA on hellinger data") +plot(0,type='n',axes=FALSE,ann=FALSE) +legend("topleft",legend = levels(samples.type),fill = 1:4,cex=1.2) +``` + +````{=html} + +```` + +## Comparing diversity of the environments + +```{r} +guiana.relfreq.final = apply(guiana.relfreq.final, + MARGIN = 1, + FUN = H_spectrum, + q=qs) +``` + +```{r fig.width=9,fig.height=6} +par(mfrow=c(2,3),bg=NA) +boxplot(t(guiana.relfreq.final[,samples.type=="litter.Mana"]),log="y", + names=qs,las=2,ylim=c(0.5,500),main = "Mana", xlab="q", + ylab=TeX('$^qH$')) +boxplot(t(guiana.relfreq.final[,samples.type=="soil.Mana"]),log="y", + names=qs,las=2,col=2,add=TRUE) +boxplot(t(guiana.relfreq.final[,samples.type=="litter.Petit Plateau"]),log="y", + names=qs,las=2,col=3,ylim=c(0.5,500), main="Petit Plateau", xlab="q", + ylab=TeX('$^qH$')) +boxplot(t(guiana.relfreq.final[,samples.type=="soil.Petit Plateau"]),log="y", + names=qs,las=2,col=4,add=TRUE) +plot(0,type='n',axes=FALSE,ann=FALSE) +legend("topleft",legend = levels(samples.type),fill = 1:4,cex=1.5) +boxplot(t(guiana.relfreq.final[,samples.type=="litter.Mana"]),log="y", + names=qs,las=2,ylim=c(0.5,500), main="Litter", xlab="q", + ylab=TeX('$^qH$')) +boxplot(t(guiana.relfreq.final[,samples.type=="litter.Petit Plateau"]),log="y", + names=qs,las=2,col=3,add=TRUE) +boxplot(t(guiana.relfreq.final[,samples.type=="soil.Mana"]),log="y", + names=qs,las=2,col=2,ylim=c(0.5,500),main="Soil", xlab="q", + ylab=TeX('$^qH$')) +boxplot(t(guiana.relfreq.final[,samples.type=="soil.Petit Plateau"]),log="y", + names=qs,las=2,col=4,add=TRUE) +``` + +## Bibliography \ No newline at end of file diff --git a/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/Distance.svg b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/Distance.svg new file mode 100644 index 0000000..81c7a89 --- /dev/null +++ b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/Distance.svg @@ -0,0 +1,167 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + Euclidean distance + + + Manhattan distance + + + Chebyshev distance + + + + + + + + + + + A + + + + + + + + B + + + + + + + + + + x + B + + + + + + + + y + B + + + + + + + + + + y + A + + + + + + + + x + A + + + + + + + diff --git a/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/alpha_diversity.svg b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/alpha_diversity.svg new file mode 100644 index 0000000..4235d4f --- /dev/null +++ b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/alpha_diversity.svg @@ -0,0 +1,108 @@ + + + + + + + + + + + + + + + B + + + + + + A + + + + + + + + D + + + + Environment 1 + + + + + + + C + + + + + + + + + + + + + G + + + + Environment 2 + + + + + + + B + + + + + + + + F + + + + + + + + E + + + + + + A + + + + + + + + D + + + + + + + + C + + + + + + diff --git a/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/diversity.svg b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/diversity.svg new file mode 100644 index 0000000..4e20120 --- /dev/null +++ b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/diversity.svg @@ -0,0 +1,66 @@ + + + + + + + + + + + Environment + + + + + + + + Site A + + + + + + + + Site B + + + + + + + + Site C + + + + 𝛂-diversity + + + 𝛾 + -diversity + + + 𝛽 + -diversity + + + + + + + + + + + + + + + + + + + diff --git a/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/euclidean_hellinger.svg b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/euclidean_hellinger.svg new file mode 100644 index 0000000..29e95b7 --- /dev/null +++ b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/euclidean_hellinger.svg @@ -0,0 +1,34 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + cos( + 𝛼 + )=R + + + d + + + diff --git a/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/metric.svg b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/metric.svg new file mode 100644 index 0000000..31623dc --- /dev/null +++ b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/metric.svg @@ -0,0 +1,32 @@ + + + + + + + + + + + + + C + + + A + + + B + + + + + + + + + + + + + diff --git a/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/subsampling.svg b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/subsampling.svg new file mode 100644 index 0000000..c6073fb --- /dev/null +++ b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/subsampling.svg @@ -0,0 +1,48 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + Subsampling + + + Subsampling + + + Subsampling + + + + + + + + + + diff --git a/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/ultrametric.svg b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/ultrametric.svg new file mode 100644 index 0000000..1b0b081 --- /dev/null +++ b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/figures/ultrametric.svg @@ -0,0 +1,44 @@ + + + + + + + + + + + + + C + + + A + + + B + + + + + + + + + + + + + + + + + + + + + + + + + diff --git a/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/inst/REFERENCES.bib b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/inst/REFERENCES.bib new file mode 100644 index 0000000..66fa4d5 --- /dev/null +++ b/web_src/05_Lectures/05_Metabarcoding/Biodiversity_indices/inst/REFERENCES.bib @@ -0,0 +1,60 @@ +%% This BibTeX bibliography file was created using BibDesk. +%% http://bibdesk.sourceforge.net/ + + +%% Created for Eric Coissac at 2018-10-18 14:52:51 +0200 + + +%% Saved with string encoding Unicode (UTF-8) + + + +@article{Tsallis:94:00, + Author = {Tsallis, Constantino}, + Date-Added = {2018-10-18 14:52:41 +0200}, + Date-Modified = {2018-10-18 14:52:49 +0200}, + Journal = {Quim. Nova}, + Number = 6, + Pages = {468--471}, + Title = {What are the numbers that experiments provide}, + Volume = 17, + Year = 1994} + + +@ARTICLE{Whittaker:10:00, + title = "Meta-analyses and mega-mistakes: calling time on meta-analysis + of the species richness-productivity relationship", + author = "Whittaker, Robert J", + abstract = "The form of the species richness-productivity relationship + (SRPR) is both theoretically important and contentious. In an + effort to distill general patterns, ecologists have undertaken + meta-analyses, within which each SRPR data set is first + classified into one of five alternative forms: positive, humped + (unimodal), negative, U-shaped (unimodal), and no relationship. + Herein, I first provide a critique of this approach, based on 68 + plant data sets/ studies used in three meta-analyses published + in Ecology. The meta-analyses are shown to have resulted in + highly divergent outcomes, inconsistent and often highly + inappropriate classification of data sets, and the introduction + and multiplication of errors from one meta-analysis to the next. + I therefore call on the ecological community at large to adopt a + far more rigorous and critical attitude to the use of + meta-analysis. Second, I develop the argument that the + literature on the SRPR continues to be bedeviled by a common + failing to appreciate the fundamental importance of the scale of + analysis, beginning with the confusion evident between concepts + of grain, focus, and extent. I postulate that variation in the + form of the SRPR at fine scales of analysis owes much to + artifacts of the sampling regime adopted. An improved + understanding may emerge from combining sampling theory with an + understanding of the factors controlling the form of species + abundance distributions and species accumulation curves.", + journal = "Ecology", + publisher = "Eco Soc America", + volume = 91, + number = 9, + pages = "2522--2533", + month = sep, + year = 2010 +} + diff --git a/web_src/lectures/slides.css b/web_src/05_Lectures/slides.css similarity index 100% rename from web_src/lectures/slides.css rename to web_src/05_Lectures/slides.css