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02218ab5a0
* hmmcopy/mapCounter * update test * Remove bam tag * Remove /tmp/ path from test.yml * Update modules/hmmcopy/mapcounter/meta.yml Incorporate formatting changes Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update modules/hmmcopy/mapcounter/meta.yml Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> * Update tests/modules/hmmcopy/mapcounter/main.nf Co-authored-by: James A. Fellows Yates <jfy133@gmail.com> Co-authored-by: Simon Pearce <simon.pearce@cruk.manchester.ac.uk> Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
31 lines
849 B
Text
31 lines
849 B
Text
def VERSION = '0.1.1' // Version information not provided by tool on CLI
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process HMMCOPY_MAPCOUNTER {
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label 'process_medium'
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conda (params.enable_conda ? "bioconda::hmmcopy=0.1.1" : null)
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container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
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'https://depot.galaxyproject.org/singularity/hmmcopy:0.1.1--h2e03b76_7':
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'quay.io/biocontainers/hmmcopy:0.1.1--h2e03b76_7' }"
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input:
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path bigwig
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output:
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path "*.map.wig" , emit: wig
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path "versions.yml" , emit: versions
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script:
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def args = task.ext.args ?: ''
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"""
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mapCounter \\
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$args \\
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$bigwig > ${bigwig.baseName}.map.wig
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cat <<-END_VERSIONS > versions.yml
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"${task.process}":
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hmmcopy: \$(echo $VERSION)
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END_VERSIONS
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"""
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}
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