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https://github.com/MillironX/nf-core_modules.git
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62da45b0e1
* Bump chromap version 0.2.0 * Temporary use the docker container until singularity container becomes available * Temporary use the docker container until singularity container available * Remove empty lines * Update singularity container after became available
36 lines
909 B
Text
36 lines
909 B
Text
process CHROMAP_INDEX {
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tag '$fasta'
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label 'process_medium'
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conda (params.enable_conda ? "bioconda::chromap=0.2.0" : null)
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container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
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'https://depot.galaxyproject.org/singularity/chromap:0.2.0--hd03093a_1' :
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'quay.io/biocontainers/chromap:0.2.0--hd03093a_1' }"
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input:
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path fasta
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output:
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path "*.index" , emit: index
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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 = fasta.baseName
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"""
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chromap \\
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-i \\
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$args \\
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-t $task.cpus \\
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-r $fasta \\
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-o ${prefix}.index
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cat <<-END_VERSIONS > versions.yml
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"${task.process}":
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chromap: \$(echo \$(chromap --version 2>&1))
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END_VERSIONS
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"""
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}
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