Merge pull request #36 from Ferlab-Ste-Justine/fix/clin-2947-make-res…

…ume-work-again fix: CLIN-2947 make resume work again
Ferlab-Ste-Justine · Oct 21, 2024 · c31c086 · c31c086
2 parents 730f32e + 9573078
commit c31c086
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -12,7 +12,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 ### `Fixed`
 - [#35](https://github.com/Ferlab-Ste-Justine/Post-processing-Pipeline/pull/35) Fix incorrect assumption about assets folder location in github ci workflow
-
+- [#36](https://github.com/Ferlab-Ste-Justine/Post-processing-Pipeline/pull/36) Fix variable input in process BCFTOOLS_NORM causing resume problems
 
 ## v2.0.0dev
 

diff --git a/subworkflows/local/exclude_mnps/main.nf b/subworkflows/local/exclude_mnps/main.nf
@@ -17,8 +17,7 @@ workflow EXCLUDE_MNPS {
 
     def ch_bcftoolsfilter_for_bcftoolsnorm = BCFTOOLS_FILTER.out.vcf.join(BCFTOOLS_FILTER.out.tbi)
 
-    ch_reference = input.map{meta,file -> [meta,reference_path]}
-    BCFTOOLS_NORM(ch_bcftoolsfilter_for_bcftoolsnorm,ch_reference)
+    BCFTOOLS_NORM(ch_bcftoolsfilter_for_bcftoolsnorm, [[:], reference_path])
     ch_output_excludemnps = BCFTOOLS_NORM.out.vcf.join(BCFTOOLS_NORM.out.tbi)
         .map{meta, vcf, tbi ->[meta,[vcf,tbi]]}