obitools/obitools4
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debug obigrep taxonomy options

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This commit is contained in:
Eric Coissac
2025-01-15 20:48:34 +01:00
parent 4ae3336135
commit 757448cb1e
2 changed files with 3 additions and 3 deletions
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2
pkg/obioptions/version.go
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@ -8,7 +8,7 @@ import (
// corresponds to the last commit, and not the one when the file will be // corresponds to the last commit, and not the one when the file will be
// commited // commited
var _Commit = "d066bb6" var _Commit = "4ae3336"
var _Version = "Release 4.2.0" var _Version = "Release 4.2.0"
// Version returns the version of the obitools package. // Version returns the version of the obitools package.

4
pkg/obitools/obigrep/options.go
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@ -6,7 +6,6 @@ import (
log "github.com/sirupsen/logrus" log "github.com/sirupsen/logrus"
"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obiapat" "git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obiapat"
"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obioptions"
"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obiseq" "git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obiseq"
"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obitax" "git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obitax"
"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obitools/obiconvert" "git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obitools/obiconvert"
@ -48,7 +47,6 @@ var _pattern_indel = false
var _pattern_only_forward = false var _pattern_only_forward = false
func TaxonomySelectionOptionSet(options *getoptions.GetOpt) { func TaxonomySelectionOptionSet(options *getoptions.GetOpt) {
obioptions.LoadTaxonomyOptionSet(options, false, false)
options.StringSliceVar(&_BelongTaxa, "restrict-to-taxon", 1, 1, options.StringSliceVar(&_BelongTaxa, "restrict-to-taxon", 1, 1,
options.Alias("r"), options.Alias("r"),
@ -67,6 +65,8 @@ func TaxonomySelectionOptionSet(options *getoptions.GetOpt) {
} }
func SequenceSelectionOptionSet(options *getoptions.GetOpt) { func SequenceSelectionOptionSet(options *getoptions.GetOpt) {
TaxonomySelectionOptionSet(options)
options.StringVar(&_IdList, "id-list", _IdList, options.StringVar(&_IdList, "id-list", _IdList,
options.ArgName("FILENAME"), options.ArgName("FILENAME"),
options.Description("<FILENAME> points to a text file containing the list of sequence record identifiers to be selected."+ options.Description("<FILENAME> points to a text file containing the list of sequence record identifiers to be selected."+