From 7f8180f45841cc3ffb40ca70c564a8d14ed254f7 Mon Sep 17 00:00:00 2001
From: "Moritz E. Beber" <midnighter@posteo.net>
Date: Fri, 14 Oct 2022 12:49:07 +0200
Subject: [PATCH] fix: emit tool versions

---
 modules/local/kraken_standard_report.nf | 6 ++++++
 1 file changed, 6 insertions(+)

diff --git a/modules/local/kraken_standard_report.nf b/modules/local/kraken_standard_report.nf
index ab47d81..aada6fb 100644
--- a/modules/local/kraken_standard_report.nf
+++ b/modules/local/kraken_standard_report.nf
@@ -12,6 +12,7 @@ process KRAKEN_STANDARD_REPORT {
 
     output:
     tuple val(meta), path(result), emit: report
+    path 'versions.yml'          , emit: versions
 
     when:
     task.ext.when == null || task.ext.when
@@ -21,6 +22,11 @@ process KRAKEN_STANDARD_REPORT {
     result = "${prefix}_standardized.kraken2.report.txt"
     """
     cut -f1-3,6-8 '${report}' > '${result}'
+
+    cat <<-END_VERSIONS > versions.yml
+    "${task.process}":
+        cut: \$(echo \$(cut --version 2>&1) | sed 's/^.*(GNU coreutils) //; s/ Copyright.*\$//')
+    END_VERSIONS
     """
 }