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Adds possibility to extract a taxonomy from taxonomic path included in sequence files

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This commit is contained in:
Eric Coissac
2025-01-30 11:18:21 +01:00
parent 2452aef7a9
commit 0df082da06
20 changed files with 460 additions and 173 deletions
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7
pkg/obiseq/taxonomy_predicate.go
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@ -63,7 +63,12 @@ func IsSubCladeOfSlot(taxonomy *obitax.Taxonomy, key string) SequencePredicate {
val, ok := sequence.GetStringAttribute(key)
if ok {
parent := taxonomy.Taxon(val)
parent, err := taxonomy.Taxon(val)
if err != nil {
log.Warnf("%s: %s is unkown from the taxonomy (%v)", sequence.Id(), val, err)
}
taxon := sequence.Taxon(taxonomy)
return parent != nil && taxon != nil && taxon.IsSubCladeOf(parent)
}