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98ed71c8f6
* feat(homer): Add pos2bed module * test(homer): Pass bed format * test(homer): Add upstream dependencies to avoid regressions * Update modules/homer/pos2bed/main.nf Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de>
33 lines
930 B
Text
33 lines
930 B
Text
def VERSION = '4.11' // Version information not provided by tool on CLI
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process HOMER_POS2BED {
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tag "$meta.id"
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label 'process_medium'
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conda (params.enable_conda ? "bioconda::homer=4.11" : null)
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container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
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'https://depot.galaxyproject.org/singularity/homer:4.11--pl526hc9558a2_3' :
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'quay.io/biocontainers/homer:4.11--pl526hc9558a2_3' }"
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input:
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tuple val(meta), path(peaks)
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output:
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tuple val(meta), path("*.bed"), emit: bed
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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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def prefix = task.ext.prefix ?: "${meta.id}"
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"""
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pos2bed.pl $peaks > ${prefix}.bed
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cat <<-END_VERSIONS > versions.yml
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"${task.process}":
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homer: $VERSION
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END_VERSIONS
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"""
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}
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