obitools3

libecoPCR

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

libjson

C: Json comments: added an obi_read_comment function to read one value

2019-08-31 18:28:51 +02:00

_sse.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

.gitignore

Add some .ignore files

2019-03-29 15:52:54 +01:00

array_indexer.c

C: fixed remaining memory bug in array indexer

2019-09-01 17:24:57 +02:00

array_indexer.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

bloom.c

Commented #ifdef directive for detect_bucket_size function because it

2016-04-27 10:24:40 +02:00

bloom.h

Updated prototypes with no arguments with a void argument as suggested

2018-10-17 12:00:40 +02:00

build_reference_db.c

Various display improvements

2019-09-03 21:46:39 +02:00

build_reference_db.h

C: build_ref_db: now adds a comment with the threshold used to build the

2019-08-31 18:29:40 +02:00

char_str_indexer.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

char_str_indexer.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

CMakeLists.txt

CMake: setting compiler higher to avoid conflicts, and linking libopenmp

2019-05-22 16:26:30 +02:00

crc64.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

crc64.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

dna_seq_indexer.c

minor fixes and comments

2018-11-19 11:23:54 +01:00

dna_seq_indexer.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

encode.c

C: Added a function to get a nucleotide at a specific index in an

2019-01-21 17:18:02 +01:00

encode.h

C: Added a function to get a nucleotide at a specific index in an

2019-01-21 17:18:02 +01:00

hashtable.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

hashtable.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

kmer_similarity.c

ngsfilter and alignpairedend: paired-end reads are now correctly

2019-07-23 18:56:51 +02:00

kmer_similarity.h

fixed a comment

2019-09-10 14:42:12 +02:00

linked_list.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

linked_list.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

murmurhash2.c

Renamed MurmurHash2.c file to murmurhash2.c as it could be a problem

2016-04-26 14:29:17 +02:00

murmurhash2.h

Little annotations for the murmur hash function.

2016-04-21 13:53:29 +02:00

obi_clean.c

obi clean: fixed an openmp bug where the share size would be 0 blocking

2019-09-10 15:37:33 +02:00

obi_clean.h

obiclean parallelized

2019-06-20 19:44:04 +02:00

obi_ecopcr.c

Little fixes for linux compilation

2019-09-05 17:19:29 +02:00

obi_ecopcr.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obi_ecotag.c

ecotag: trying to use a threshold lower than the ref db threshold now

2019-09-15 19:27:47 +02:00

obi_ecotag.h

New command and C functions: obi ecotag

2018-12-09 19:19:32 +01:00

obi_lcs.c

C: obi lcs: cleaner progress print

2019-03-31 15:42:58 +02:00

obi_lcs.h

C obi_lcs: updated deprecated column names and associated comments

2018-12-09 19:17:13 +01:00

obiavl.c

C: optimized dir opening

2019-08-29 16:35:10 +02:00

obiavl.h

C: optimized dir opening

2019-08-29 16:35:10 +02:00

obiblob_indexer.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obiblob_indexer.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obiblob.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obiblob.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidebug.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidms_taxonomy.c

C: taxonomy: fixed a segfault on linux when trying to fclose an unopened

2019-03-30 15:19:12 +01:00

obidms_taxonomy.h

C, taxonomy: new function to get the lowest common ancestor of two taxa

2018-11-27 16:00:29 +01:00

obidms.c

C: optimized dir opening

2019-08-29 16:35:10 +02:00

obidms.h

Removed a deprecated element from the DMS structure

2018-11-07 13:36:08 +01:00

obidmscolumn_array.c

Fixed a bug in the array indexer where the value's length was no

2018-11-27 16:18:34 +01:00

obidmscolumn_array.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_blob.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_blob.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_bool.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_bool.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_char.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_char.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_float.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_float.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_idx.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_idx.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_int.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_int.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_qual.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_qual.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_seq.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_seq.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_str.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn_str.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obidmscolumn.c

C: Fixed opened DIR leak

2019-09-04 16:48:13 +02:00

obidmscolumn.h

Minor fixes

2019-08-18 19:45:53 +02:00

obidmscolumndir.c

C: fixed a bug when opening or creating a new column directory where the

2019-09-04 13:16:28 +02:00

obidmscolumndir.h

C: made it so column DIR* are not kept open to handle very large DMS

2019-09-04 12:55:21 +02:00

obierrno.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obierrno.h

New command and C functions: obi ecotag

2018-12-09 19:19:32 +01:00

obilittlebigman.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obilittlebigman.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obitypes.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obitypes.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

obiview.c

obi ls: various improvements

2019-09-10 14:41:43 +02:00

obiview.h

obi uniq: various improvements and fixes #66

2019-08-27 20:27:36 +02:00

sse_banded_LCS_alignment.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

sse_banded_LCS_alignment.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

uint8_indexer.c

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

uint8_indexer.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

upperband.c

updated a comment

2019-07-23 19:03:24 +02:00

upperband.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00

utils.c

C: optimized dir opening

2019-08-29 16:35:10 +02:00

utils.h

Weird buggy Eclipse commit with nothing changed

2018-10-21 17:35:18 +02:00