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https://github.com/MillironX/nf-core_modules.git
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4eed099a12
* Fix broken Quast module and bump MultiQC version in dumpsoftwareversions * Bump HISAT2 version to 2.2.1 * Remove empty md5sums * Remove empty md5sums * Remove empty md5sums
31 lines
1.1 KiB
Text
31 lines
1.1 KiB
Text
process HISAT2_EXTRACTSPLICESITES {
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tag "$gtf"
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label 'process_medium'
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// WARN: Version information not provided by tool on CLI. Please update version string below when bumping container versions.
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conda (params.enable_conda ? 'bioconda::hisat2=2.2.1' : null)
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container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
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'https://depot.galaxyproject.org/singularity/hisat2:2.2.1--h1b792b2_3' :
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'quay.io/biocontainers/hisat2:2.2.1--h1b792b2_3' }"
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input:
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path gtf
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output:
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path "*.splice_sites.txt", emit: txt
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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 VERSION = '2.2.1' // WARN: Version information not provided by tool on CLI. Please update this string when bumping container versions.
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"""
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hisat2_extract_splice_sites.py $gtf > ${gtf.baseName}.splice_sites.txt
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cat <<-END_VERSIONS > versions.yml
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"${task.process}":
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hisat2: $VERSION
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END_VERSIONS
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"""
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}
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