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https://github.com/metabarcoding/obitools4.git
synced 2026-03-26 14:00:51 +00:00
55 lines
1.3 KiB
Go
55 lines
1.3 KiB
Go
package main
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import (
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"os"
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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/obiannotate"
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"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obitools/obiconvert"
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"git.metabarcoding.org/obitools/obitools4/obitools4/pkg/obiutils"
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)
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func main() {
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defer obiseq.LogBioSeqStatus()
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// go tool pprof -http=":8000" ./obipairing ./cpu.pprof
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// f, err := os.Create("cpu.pprof")
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// if err != nil {
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// log.Fatal(err)
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// }
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// pprof.StartCPUProfile(f)
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// defer pprof.StopCPUProfile()
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// go tool trace cpu.trace
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// ftrace, err := os.Create("cpu.trace")
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// if err != nil {
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// log.Fatal(err)
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// }
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// trace.Start(ftrace)
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// defer trace.Stop()
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optionParser := obioptions.GenerateOptionParser(
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"obiannotate",
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"edits the sequence annotations",
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obiannotate.OptionSet,
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)
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_, args := optionParser(os.Args)
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sequences, err := obiconvert.CLIReadBioSequences(args...)
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obiconvert.OpenSequenceDataErrorMessage(args, err)
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annotator := obiannotate.CLIAnnotationPipeline()
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if obiannotate.CLIHasSetNumberFlag() {
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sequences = sequences.NumberSequences(1, !obiconvert.CLINoInputOrder())
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}
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obiconvert.CLIWriteBioSequences(sequences.Pipe(annotator), true)
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obiutils.WaitForLastPipe()
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}
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