Reuse ref_ch instead of redundantly redefining in effluent workflow

BCCDC-PHL · Dec 27, 2023 · d275756 · d275756
1 parent 9e86248
commit d275756
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Showing 2 changed files with 2 additions and 5 deletions.
diff --git a/modules/effluent.nf b/modules/effluent.nf
@@ -203,13 +203,9 @@ workflow EFFLUENT {
   trim_aln_ch
   freeb_vcf_ch
   ann_vcf_ch
+  ref_ch
 
   main:
-  ref_ch = Channel
-  .fromPath(params.ref, 
-  checkIfExists:true)
-
-
 
   if (params.rerun_lins != null){
 

diff --git a/modules/treatment.nf b/modules/treatment.nf
@@ -315,4 +315,5 @@ workflow TREATMENT {
   trim_aln_ch
   freeb_vcf_ch
   ann_vcf_ch
+  ref_ch
 }