mirror of
https://github.com/metabarcoding/obitools4.git
synced 2025-06-29 16:20:46 +00:00
51 lines
1.2 KiB
Go
51 lines
1.2 KiB
Go
package obiuniq
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import (
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"log"
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"git.metabarcoding.org/lecasofts/go/obitools/pkg/obichunk"
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"git.metabarcoding.org/lecasofts/go/obitools/pkg/obiiter"
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"git.metabarcoding.org/lecasofts/go/obitools/pkg/obioptions"
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)
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func Unique(sequences obiiter.IBioSequenceBatch) obiiter.IBioSequenceBatch {
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options := make([]obichunk.WithOption, 0, 30)
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options = append(options,
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obichunk.OptionBatchCount(CLINumberOfChunks()),
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)
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if CLIUniqueInMemory() {
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log.Printf("Running dereplication in memory on %d chunks", CLINumberOfChunks())
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options = append(options, obichunk.OptionSortOnMemory())
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} else {
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log.Printf("Running dereplication on disk with %d chunks", CLINumberOfChunks())
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options = append(options, obichunk.OptionSortOnDisk())
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}
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options = append(options,
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obichunk.OptionStatOn(CLIStatsOn()...))
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options = append(options,
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obichunk.OptionSubCategory(CLIKeys()...))
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options = append(options,
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obichunk.OptionsParallelWorkers(
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obioptions.CLIParallelWorkers()),
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obichunk.OptionsBufferSize(
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obioptions.CLIBufferSize()),
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obichunk.OptionsBatchSize(
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obioptions.CLIBatchSize()),
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obichunk.OptionNAValue(CLINAValue()),
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)
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iUnique, err := obichunk.IUniqueSequence(sequences, options...)
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if err != nil {
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log.Fatal(err)
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}
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return iUnique
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}
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