31 lines
661 B
Text
31 lines
661 B
Text
process CLIQUESNV {
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tag "${prefix}"
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label 'process_high'
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label 'cliquesnv'
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container 'quay.io/biocontainers/cliquesnv:2.0.3--hdfd78af_0'
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input:
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tuple val(prefix), path(bam), path(bai)
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val(method)
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output:
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tuple val(prefix), path("*.json")
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tuple val(prefix), path("*.fasta")
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publishDir "${params.outdir}/${task.process}", mode: 'copy'
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when:
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task.ext.when == null || task.ext.when
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script:
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def jmemstring = task.memory.toMega() + 'M'
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"""
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cliquesnv \\
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-Xmx${jmemstring} \\
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-threads ${task.cpus} \\
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-m '${method}' \\
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-in "${bam}" \\
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-outDir .
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"""
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}
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