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33 lines
885 B
Text
33 lines
885 B
Text
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// Import generic module functions
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include { initOptions; saveFiles; getSoftwareName } from './functions'
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params.options = [:]
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def options = initOptions(params.options)
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process MINIMAP2_INDEX {
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label 'process_medium'
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publishDir "${params.outdir}",
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mode: params.publish_dir_mode,
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saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), meta:meta, publish_by_meta:['']) }
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conda (params.enable_conda ? "bioconda::minimap2=2.17" : null)
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container "quay.io/biocontainers/minimap2:2.17--hed695b0_3"
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input:
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path(fasta)
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output:
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path("*.mmi") , emit: index
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path "*.version.txt" ,emit: version
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script:
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"""
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minimap2 \\
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-t $task.cpus \\
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-d ${fasta}.mmi \\
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$fasta
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ps
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minimap2 --version &> minimap2.version.txt
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"""
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}
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