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samplesheet_check.nf
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samplesheet_check.nf
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process SAMPLESHEET_CHECK {
tag "$samplesheet"
label 'process_single'
conda (params.enable_conda ? "conda-forge::python=3.8.3" : null)
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://depot.galaxyproject.org/singularity/python:3.8.3' :
'quay.io/biocontainers/python:3.8.3' }"
input:
path samplesheet
output:
path '*.csv' , emit: csv
path "versions.yml", emit: versions
when:
task.ext.when == null || task.ext.when
script: // This script is bundled with the pipeline, in {{ name }}/bin/
"""
check_samplesheet.py \\
$samplesheet \\
samplesheet.valid.csv
cat <<-END_VERSIONS > versions.yml
"${task.process}":
python: \$(python --version | sed 's/Python //g')
END_VERSIONS
"""
}