mirror of
https://github.com/metabarcoding/obitools4.git
synced 2026-03-25 21:40:52 +00:00
56c1f4180c
This commit refactors the k-mer index management tools to use a unified subcommand structure with obik, adds support for per-set metadata and ID management, enhances the k-mer set group builder to support appending to existing groups, and improves command-line option handling with a new global options registration system. Key changes: - Introduce obik command with subcommands (index, ls, summary, cp, mv, rm, super, lowmask) - Add support for per-set metadata and ID management in kmer set groups - Implement ability to append to existing kmer index groups - Refactor option parsing to use a global options registration system - Add new commands for listing, copying, moving, and removing sets - Enhance low-complexity masking with new options and output formats - Improve kmer index summary with Jaccard distance matrix support - Remove deprecated obikindex and obisuperkmer commands - Update build process to use the new subcommand structure
35 lines
711 B
Go
35 lines
711 B
Go
package main
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import (
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"context"
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"errors"
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"os"
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log "github.com/sirupsen/logrus"
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"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obioptions"
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"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obiseq"
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"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obitools/obik"
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"github.com/DavidGamba/go-getoptions"
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)
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func main() {
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defer obiseq.LogBioSeqStatus()
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opt, parser := obioptions.GenerateSubcommandParser(
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"obik",
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"Manage disk-based kmer indices",
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obik.OptionSet,
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)
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_, remaining := parser(os.Args)
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err := opt.Dispatch(context.Background(), remaining)
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if err != nil {
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if errors.Is(err, getoptions.ErrorHelpCalled) {
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os.Exit(0)
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}
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log.Fatalf("Error: %v", err)
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}
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}
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