Fisrt functional version

pkg/obiseq/taxonomy_workers.go

@@ -0,0 +1,64 @@
+package obiseq
+
+import (
+	"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obitax"
+	"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obiutils"
+	log "github.com/sirupsen/logrus"
+)
+
+func MakeSetTaxonAtRankWorker(taxonomy *obitax.Taxonomy, rank string) SeqWorker {
+
+	if !obiutils.Contains(taxonomy.RankList(), rank) {
+		log.Fatalf("%s is not a valid rank (allowed ranks are %v)",
+			rank,
+			taxonomy.RankList())
+	}
+
+	w := func(sequence *BioSequence) (BioSequenceSlice, error) {
+		sequence.SetTaxonAtRank(taxonomy, rank)
+		return BioSequenceSlice{sequence}, nil
+	}
+
+	return w
+}
+
+func MakeSetSpeciesWorker(taxonomy *obitax.Taxonomy) SeqWorker {
+
+	w := func(sequence *BioSequence) (BioSequenceSlice, error) {
+		sequence.SetSpecies(taxonomy)
+		return BioSequenceSlice{sequence}, nil
+	}
+
+	return w
+}
+
+func MakeSetGenusWorker(taxonomy *obitax.Taxonomy) SeqWorker {
+
+	w := func(sequence *BioSequence) (BioSequenceSlice, error) {
+		sequence.SetGenus(taxonomy)
+		return BioSequenceSlice{sequence}, nil
+	}
+
+	return w
+}
+
+func MakeSetFamilyWorker(taxonomy *obitax.Taxonomy) SeqWorker {
+
+	w := func(sequence *BioSequence) (BioSequenceSlice, error) {
+		sequence.SetFamily(taxonomy)
+		return BioSequenceSlice{sequence}, nil
+	}
+
+	return w
+}
+
+func MakeSetPathWorker(taxonomy *obitax.Taxonomy) SeqWorker {
+
+	w := func(sequence *BioSequence) (BioSequenceSlice, error) {
+		sequence.SetPath(taxonomy)
+		return BioSequenceSlice{sequence}, nil
+	}
+
+	return w
+
+}