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35 lines
908 B
Text
35 lines
908 B
Text
process PYCOQC {
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tag "$summary"
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label 'process_medium'
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conda (params.enable_conda ? "bioconda::pycoqc=2.5.2" : null)
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container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
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'https://depot.galaxyproject.org/singularity/pycoqc:2.5.2--py_0' :
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'quay.io/biocontainers/pycoqc:2.5.2--py_0' }"
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input:
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path summary
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output:
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path "*.html" , emit: html
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path "*.json" , emit: json
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path "versions.yml" , emit: versions
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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 args = task.ext.args ?: ''
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"""
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pycoQC \\
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$args \\
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-f $summary \\
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-o pycoqc.html \\
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-j pycoqc.json
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cat <<-END_VERSIONS > versions.yml
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"${task.process}":
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pycoqc: \$(pycoQC --version 2>&1 | sed 's/^.*pycoQC v//; s/ .*\$//')
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END_VERSIONS
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"""
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}
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