Merge pull request #105 from mvanniekerkHartwig/fix-markdups-output

Fix "Markdups process marks aligner output as markdups output incorrectly"
nf-core · Oct 30, 2024 · 2fcec6a · 2fcec6a
2 parents b4ca6b3 + 52064e8
commit 2fcec6a
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -5,6 +5,7 @@ The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/)
 
 ## [dev]
 
+- [105](https://github.com/nf-core/oncoanalyser/pull/105) - Adjust MarkDups outputs to improve efficiency with k8s
 - [98](https://github.com/nf-core/oncoanalyser/pull/98) - Fix typos in error messages for process and run mode check
 - [96](https://github.com/nf-core/oncoanalyser/pull/96) - Added missing type field to an entry in the nextflow_schema.json
 - [95](https://github.com/nf-core/oncoanalyser/pull/95) - Post-release bump

diff --git a/modules/local/markdups/main.nf b/modules/local/markdups/main.nf
@@ -17,8 +17,8 @@ process MARKDUPS {
     val has_umis
 
     output:
-    tuple val(meta), path('*bam'), path('*bai'), emit: bam
-    path 'versions.yml'                        , emit: versions
+    tuple val(meta), path('*.markdups.bam'), path('*.markdups.bam.bai'), emit: bam
+    path 'versions.yml'                                                , emit: versions
     path '*.tsv'
 
     when: