obitools/obitools4
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modified:   cmd/obitools/obitag/main.go
	modified:   cmd/obitools/obitaxonomy/main.go
	modified:   pkg/obiformats/csvtaxdump_read.go
	modified:   pkg/obiformats/ecopcr_read.go
	modified:   pkg/obiformats/ncbitaxdump_read.go
	modified:   pkg/obiformats/ncbitaxdump_readtar.go
	modified:   pkg/obiformats/newick_write.go
	modified:   pkg/obiformats/options.go
	modified:   pkg/obiformats/taxonomy_read.go
	modified:   pkg/obiformats/universal_read.go
	modified:   pkg/obiiter/extract_taxonomy.go
	modified:   pkg/obioptions/options.go
	modified:   pkg/obioptions/version.go
	new file:   pkg/obiphylo/tree.go
	modified:   pkg/obiseq/biosequenceslice.go
	modified:   pkg/obiseq/taxonomy_methods.go
	modified:   pkg/obitax/taxonomy.go
	modified:   pkg/obitax/taxonset.go
	modified:   pkg/obitools/obiconvert/sequence_reader.go
	modified:   pkg/obitools/obitag/obitag.go
	modified:   pkg/obitools/obitaxonomy/obitaxonomy.go
	modified:   pkg/obitools/obitaxonomy/options.go
	deleted:    sample/.DS_Store
This commit is contained in:
Eric Coissac
2025-06-04 09:48:10 +02:00
parent 3424d3057f
commit 6cb7a5a352
23 changed files with 230 additions and 56 deletions
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8
pkg/obitax/taxonomy.go
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@ -11,6 +11,7 @@ import (
"errors"
"fmt"
"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obiphylo"
"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obiutils"
)
@ -415,3 +416,10 @@ func (taxonomy *Taxonomy) InsertPathString(path []string) (*Taxonomy, error) {
return taxonomy, nil
}
func (taxo *Taxonomy) AsPhyloTree() (*obiphylo.PhyloNode, error) {
root := taxo.Root().Node
taxa := taxo.AsTaxonSet()
return taxa.AsPhyloTree(root)
}