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31 lines
965 B
Text
31 lines
965 B
Text
process ASSEMBLYSCAN {
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tag "$meta.id"
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label 'process_low'
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conda (params.enable_conda ? "bioconda::assembly-scan=0.4.1" : null)
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container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
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'https://depot.galaxyproject.org/singularity/assembly-scan:0.4.1--pyhdfd78af_0' :
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'quay.io/biocontainers/assembly-scan:0.4.1--pyhdfd78af_0' }"
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input:
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tuple val(meta), path(assembly)
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output:
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tuple val(meta), 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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def prefix = task.ext.prefix ?: "${meta.id}"
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"""
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assembly-scan $assembly > ${prefix}.json
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cat <<-END_VERSIONS > versions.yml
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"${task.process}":
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assemblyscan: \$( assembly-scan --version 2>&1 | sed 's/^.*assembly-scan //; s/Using.*\$//' )
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END_VERSIONS
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"""
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}
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