Change obiclean algorithm for a better evaluation of ratio

pkg/obitax/sequence_methods.go

@@ -0,0 +1,37 @@
+package obitax
+
+import (
+	"git.metabarcoding.org/lecasofts/go/obitools/pkg/obiseq"
+)
+
+// Setting the taxon at a given rank for a given sequence.
+//
+// Two attributes are added to the sequence. One named by the rank name stores
+// the taxid, a second named by the rank name suffixed with '_name' contains the
+// Scientific name of the genus.
+// If the taxon at the given rank doesn't exist for the taxonomy annotation
+// of the sequence, nothing happens.
+func (taxonomy *Taxonomy) SetTaxonAtRank(sequence *obiseq.BioSequence, rank string) *TaxNode {
+	taxid := sequence.Taxid()
+	taxon, err := taxonomy.Taxon(taxid)
+	taxonAtRank := taxon.TaxonAtRank(rank)
+
+	if err == nil && taxonAtRank != nil {
+		sequence.SetAttribute(rank, taxonAtRank.taxid)
+		sequence.SetAttribute(rank+"_name", taxonAtRank.scientificname)
+	}
+
+	return taxonAtRank
+}
+
+func (taxonomy *Taxonomy) SetSpecies(sequence *obiseq.BioSequence) *TaxNode {
+	return taxonomy.SetTaxonAtRank(sequence, "species")
+}
+
+func (taxonomy *Taxonomy) SetGenus(sequence *obiseq.BioSequence) *TaxNode {
+	return taxonomy.SetTaxonAtRank(sequence, "genus")
+}
+
+func (taxonomy *Taxonomy) SetFamily(sequence *obiseq.BioSequence) *TaxNode {
+	return taxonomy.SetTaxonAtRank(sequence, "family")
+}