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6e7c0e945b
* added vcf2db * fix test.yml * possible fix for failing tests * fix version number * fix test.yml * removed some comments
37 lines
942 B
Text
37 lines
942 B
Text
VERSION = "2020.02.24"
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process VCF2DB {
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tag "$meta.id"
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label 'process_medium'
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conda (params.enable_conda ? "bioconda::vcf2db=2020.02.24" : null)
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container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
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'https://depot.galaxyproject.org/singularity/vcf2db:2020.02.24--hdfd78af_1':
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'quay.io/biocontainers/vcf2db:2020.02.24--hdfd78af_1' }"
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input:
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tuple val(meta), path(vcf), path(ped)
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output:
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tuple val(meta), path("*.db") , emit: db
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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 ?: "${meta.id}"
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"""
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vcf2db.py \\
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$vcf \\
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$ped \\
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${prefix}.db \\
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$args
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cat <<-END_VERSIONS > versions.yml
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"${task.process}":
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vcf2db: $VERSION
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END_VERSIONS
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"""
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}
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