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add stub for qualimap/rnaseq (#1946)

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Co-authored-by: Ramprasad Neethiraj <20065894+ramprasadn@users.noreply.github.com>
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Annick Renevey 2022-08-09 15:24:35 +02:00 committed by GitHub
parent 94619a3faf
commit 53108b6b51
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1 changed files with 12 additions and 1 deletions
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modules/qualimap/rnaseq/main.nf
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@ -20,7 +20,7 @@ process QUALIMAP_RNASEQ {
script: script:
def args = task.ext.args ?: '' def args = task.ext.args ?: ''
prefix = task.ext.prefix ?: "${meta.id}" def prefix = task.ext.prefix ?: "${meta.id}"
def paired_end = meta.single_end ? '' : '-pe' def paired_end = meta.single_end ? '' : '-pe'
def memory = task.memory.toGiga() + "G" def memory = task.memory.toGiga() + "G"
@ -49,4 +49,15 @@ process QUALIMAP_RNASEQ {
qualimap: \$(echo \$(qualimap 2>&1) | sed 's/^.*QualiMap v.//; s/Built.*\$//') qualimap: \$(echo \$(qualimap 2>&1) | sed 's/^.*QualiMap v.//; s/Built.*\$//')
END_VERSIONS END_VERSIONS
""" """
stub:
def prefix = task.ext.prefix ?: "${meta.id}"
"""
mkdir ${prefix}
cat <<-END_VERSIONS > versions.yml
"${task.process}":
qualimap: \$(echo \$(qualimap 2>&1) | sed 's/^.*QualiMap v.//; s/Built.*\$//')
END_VERSIONS
"""
} }