A first version of obigrep. Normally fully functionnal, but not fully tested

pkg/obitax/taxon.go

@@ -2,6 +2,8 @@ package obitax
 
 import (
 	"regexp"
+
+	"git.metabarcoding.org/lecasofts/go/obitools/pkg/obiseq"
 )
 
 type TaxNode struct {
@@ -64,3 +66,23 @@ func (node *TaxNode) IsNameMatching(pattern *regexp.Regexp) bool {
 
 	return false
 }
+
+func (node *TaxNode) HasRankDefined(rank string) bool {
+
+	for node.rank != rank && node.parent != node.taxid {
+		node = node.pparent
+	}
+
+	return node.rank == rank
+
+}
+
+func HasRankDefined(taxonomy Taxonomy, rank string) obiseq.SequencePredicate {
+
+	f := func(sequence *obiseq.BioSequence) bool {
+		taxon, err := taxonomy.Taxon(sequence.Taxid())
+		return err == nil && taxon.HasRankDefined(rank)
+	}
+
+	return f
+}