obitools/obitools4
2
0
Fork 0
mirror of https://github.com/metabarcoding/obitools4.git synced 2026-03-26 14:00:51 +00:00
Code Issues Packages Projects Releases Wiki Activity

Add managment of the taxonomy alias politic

Browse Source
This commit is contained in:
Eric Coissac
2025-02-10 14:05:47 +01:00
parent e2563cd8df
commit 6a8061cc4f
16 changed files with 114 additions and 48 deletions
Download Patch File Download Diff File Expand all files Collapse all files

8
pkg/obitools/obigrep/options.go
View File

@@ -248,14 +248,14 @@ func CLIRestrictTaxonomyPredicate() obiseq.SequencePredicate {
if len(_BelongTaxa) > 0 {
taxonomy := obitax.DefaultTaxonomy()
taxon, err := taxonomy.Taxon(_BelongTaxa[0])
taxon, _, err := taxonomy.Taxon(_BelongTaxa[0])
if err != nil {
p = obiseq.IsSubCladeOfSlot(taxonomy, _BelongTaxa[0])
} else {
p = obiseq.IsSubCladeOf(taxonomy, taxon)
}
for _, staxid := range _BelongTaxa[1:] {
taxon, err := taxonomy.Taxon(staxid)
taxon, _, err := taxonomy.Taxon(staxid)
if err != nil {
p2 = obiseq.IsSubCladeOfSlot(taxonomy, staxid)
} else {
@@ -278,7 +278,7 @@ func CLIAvoidTaxonomyPredicate() obiseq.SequencePredicate {
if len(_NotBelongTaxa) > 0 {
taxonomy := obitax.DefaultTaxonomy()
taxon, err := taxonomy.Taxon(_NotBelongTaxa[0])
taxon, _, err := taxonomy.Taxon(_NotBelongTaxa[0])
if err != nil {
p = obiseq.IsSubCladeOfSlot(taxonomy, _NotBelongTaxa[0])
} else {
@@ -286,7 +286,7 @@ func CLIAvoidTaxonomyPredicate() obiseq.SequencePredicate {
}
for _, taxid := range _NotBelongTaxa[1:] {
taxon, err := taxonomy.Taxon(taxid)
taxon, _, err := taxonomy.Taxon(taxid)
if err != nil {
p2 = obiseq.IsSubCladeOfSlot(taxonomy, taxid)
} else {