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Save samtools stats output
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1 changed files with 10 additions and 0 deletions
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@ -233,6 +233,16 @@ process {
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]
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}
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withName: SAMTOOLS_STATS {
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ext.prefix = { "${meta.id}_${meta.run_accession}" }
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publishDir = [
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path: { "${params.outdir}/samtools/stats" },
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mode: params.publish_dir_mode,
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enabled: params.save_hostremoval_unmapped,
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pattern: '*stats'
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]
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}
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withName: BBMAP_BBDUK {
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ext.args = [
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"entropy=${params.shortread_complexityfilter_entropy}",
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