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Patch a small bug on json write

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This commit is contained in:
Eric Coissac
2024-12-20 19:42:03 +01:00
parent abfa8f357a
commit 5d0f996625
14 changed files with 458 additions and 79 deletions
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10
pkg/obitools/obiannotate/obiannotate.go
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@@ -273,31 +273,31 @@ func CLIAnnotationWorker() obiseq.SeqWorker {
}
if CLIHasTaxonAtRank() {
taxo := obigrep.CLILoadSelectedTaxonomy()
taxo := obitax.DefaultTaxonomy()
w := AddTaxonAtRankWorker(taxo, CLITaxonAtRank()...)
annotator = annotator.ChainWorkers(w)
}
if CLISetTaxonomicPath() {
taxo := obigrep.CLILoadSelectedTaxonomy()
taxo := obitax.DefaultTaxonomy()
w := obiseq.MakeSetPathWorker(taxo)
annotator = annotator.ChainWorkers(w)
}
if CLISetTaxonomicRank() {
taxo := obigrep.CLILoadSelectedTaxonomy()
taxo := obitax.DefaultTaxonomy()
w := AddTaxonRankWorker(taxo)
annotator = annotator.ChainWorkers(w)
}
if CLISetScientificName() {
taxo := obigrep.CLILoadSelectedTaxonomy()
taxo := obitax.DefaultTaxonomy()
w := AddScientificNameWorker(taxo)
annotator = annotator.ChainWorkers(w)
}
if CLIHasAddLCA() {
taxo := obigrep.CLILoadSelectedTaxonomy()
taxo := obitax.DefaultTaxonomy()
w := obiseq.AddLCAWorker(taxo, CLILCASlotName(), CLILCAThreshold())
annotator = annotator.ChainWorkers(w)
}