diff 0.5.0/modules/samplesheet_check/main.nf @ 1:365849f031fd

"planemo upload"
author kkonganti
date Mon, 05 Jun 2023 18:48:51 -0400
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/0.5.0/modules/samplesheet_check/main.nf	Mon Jun 05 18:48:51 2023 -0400
@@ -0,0 +1,32 @@
+process SAMPLESHEET_CHECK {
+    tag "$samplesheet"
+    label "process_femto"
+
+    module (params.enable_module ? "${params.swmodulepath}${params.fs}python${params.fs}3.8.1" : null)
+    conda (params.enable_conda ? "conda-forge::python=3.9.5" : null)
+    container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
+        'https://depot.galaxyproject.org/singularity/python:3.9--1' :
+        'quay.io/biocontainers/python:3.9--1' }"
+
+    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 nf-core/rnaseq/bin/
+        """
+        check_samplesheet.py \\
+            $samplesheet \\
+            samplesheet.valid.csv
+
+        cat <<-END_VERSIONS > versions.yml
+        "${task.process}":
+            python: \$( python --version | sed 's/Python //g' )
+        END_VERSIONS
+        """
+}
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