|
0
|
1 process SAMPLESHEET_CHECK {
|
|
|
2 tag "$samplesheet"
|
|
|
3 label "process_femto"
|
|
|
4
|
|
|
5 module (params.enable_module ? "${params.swmodulepath}${params.fs}python${params.fs}3.8.1" : null)
|
|
|
6 conda (params.enable_conda ? "conda-forge::python=3.9.5" : null)
|
|
|
7 container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
|
|
|
8 'https://depot.galaxyproject.org/singularity/python:3.9--1' :
|
|
|
9 'quay.io/biocontainers/python:3.9--1' }"
|
|
|
10
|
|
|
11 input:
|
|
|
12 path samplesheet
|
|
|
13
|
|
|
14 output:
|
|
|
15 path '*.csv' , emit: csv
|
|
|
16 path "versions.yml", emit: versions
|
|
|
17
|
|
|
18 when:
|
|
|
19 task.ext.when == null || task.ext.when
|
|
|
20
|
|
|
21 script: // This script is bundled with the pipeline, in nf-core/rnaseq/bin/
|
|
|
22 """
|
|
|
23 check_samplesheet.py \\
|
|
|
24 $samplesheet \\
|
|
|
25 samplesheet.valid.csv
|
|
|
26
|
|
|
27 cat <<-END_VERSIONS > versions.yml
|
|
|
28 "${task.process}":
|
|
|
29 python: \$( python --version | sed 's/Python //g' )
|
|
|
30 END_VERSIONS
|
|
|
31 """
|
|
|
32 } |
