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https://github.com/MillironX/nf-core_modules.git
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280712419d
* Add new vcflib/vcfuniq module * Rename module from vcfutils to vcfuniq * Fix tests * Compress output by default * Fix ECLint
32 lines
915 B
Text
32 lines
915 B
Text
def VERSION = '1.0.2' // Version information not provided by tool on CLI
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process VCFLIB_VCFUNIQ {
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tag "$meta.id"
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label 'process_low'
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conda (params.enable_conda ? "bioconda::vcflib=1.0.2" : null)
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container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
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'https://depot.galaxyproject.org/singularity/vcflib:1.0.2--h3198e80_5':
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'quay.io/biocontainers/vcflib:1.0.2--h3198e80_5' }"
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input:
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tuple val(meta), path(vcf), path(tbi)
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output:
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tuple val(meta), path("*.gz"), emit: vcf
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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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def prefix = task.ext.prefix ?: "${meta.id}"
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"""
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vcfuniq \\
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$vcf \\
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| bgzip -c $args > ${prefix}.vcf.gz
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cat <<-END_VERSIONS > versions.yml
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"${task.process}":
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vcflib: $VERSION
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END_VERSIONS
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"""
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}
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