Fix bug with recalibrate-BAM (#179)

* Properly skip recalibrate-BAM when not requested * Update CHANGELOG
uclahs-cds · Mar 22, 2024 · b1ad3ea · b1ad3ea
1 parent ef55365
commit b1ad3ea
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -19,6 +19,8 @@ This project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.htm
 + call-sSV: `6.0.0-rc.1` -> `6.1.0`
 + Allow downstream pipelines to fail gracefully without affecting failure of other pipelines
 + Allow waiting on multiple dependencies per pipeline before submission
+### Fixed
++ Recalibrate-BAM no longer runs automatically when not requested
 
 ---
 

diff --git a/module/recalibrate_BAM/workflow.nf b/module/recalibrate_BAM/workflow.nf
@@ -55,7 +55,7 @@ workflow recalibrate_BAM {
         }
         .set{ input_ch_with_deletion_info }
 
-        if (params.override_recalibrate_bam) {
+        if (params.override_recalibrate_bam || !params.recalibrate_BAM.is_pipeline_enabled) {
             modification_signal.until{ it == 'done' }
                 .mix(collected_input_ch)
                 .collect()