mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-09-21 07:42:05 +00:00
49b18b1639
* add stub section * add stub for bcftools norm * add stub to more modules * fix expansionhunter tests * revert changes -picard * Update stub to write version no.s to a file * add picard * revert picard again * add stubs to more modules * fix bwamem2 * add bcftools view * add stubs * fix svdb query * review suggestions
43 lines
1.1 KiB
Text
43 lines
1.1 KiB
Text
process MULTIQC {
|
|
label 'process_medium'
|
|
|
|
conda (params.enable_conda ? 'bioconda::multiqc=1.12' : null)
|
|
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
|
|
'https://depot.galaxyproject.org/singularity/multiqc:1.12--pyhdfd78af_0' :
|
|
'quay.io/biocontainers/multiqc:1.12--pyhdfd78af_0' }"
|
|
|
|
input:
|
|
path multiqc_files
|
|
|
|
output:
|
|
path "*multiqc_report.html", emit: report
|
|
path "*_data" , emit: data
|
|
path "*_plots" , optional:true, emit: plots
|
|
path "versions.yml" , emit: versions
|
|
|
|
when:
|
|
task.ext.when == null || task.ext.when
|
|
|
|
script:
|
|
def args = task.ext.args ?: ''
|
|
"""
|
|
multiqc -f $args .
|
|
|
|
cat <<-END_VERSIONS > versions.yml
|
|
"${task.process}":
|
|
multiqc: \$( multiqc --version | sed -e "s/multiqc, version //g" )
|
|
END_VERSIONS
|
|
"""
|
|
|
|
stub:
|
|
"""
|
|
touch multiqc_data
|
|
touch multiqc_plots
|
|
touch multiqc_report.html
|
|
|
|
cat <<-END_VERSIONS > versions.yml
|
|
"${task.process}":
|
|
multiqc: \$( multiqc --version | sed -e "s/multiqc, version //g" )
|
|
END_VERSIONS
|
|
"""
|
|
}
|