fix channel name

famosab · Dec 10, 2024 · 6dc5f99 · 6dc5f99
1 parent 78cfeca
commit 6dc5f99
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Showing 3 changed files with 6 additions and 6 deletions.
diff --git a/subworkflows/local/bam_variant_calling_germline_all/main.nf b/subworkflows/local/bam_variant_calling_germline_all/main.nf
@@ -57,7 +57,7 @@ workflow BAM_VARIANT_CALLING_GERMLINE_ALL {
     gvcf_sentieon_dnascope   = Channel.empty()
     gvcf_sentieon_haplotyper = Channel.empty()
 
-    indexcov_output          = Channel.empty()
+    out_indexcov             = Channel.empty()
     vcf_deepvariant          = Channel.empty()
     vcf_freebayes            = Channel.empty()
     vcf_haplotypecaller      = Channel.empty()
@@ -199,7 +199,7 @@ workflow BAM_VARIANT_CALLING_GERMLINE_ALL {
             fasta_fai
         )
 
-        indexcov_output = BAM_VARIANT_CALLING_INDEXCOV.out.indexcov_output
+        out_indexcov = BAM_VARIANT_CALLING_INDEXCOV.out.out_indexcov
         versions = versions.mix(BAM_VARIANT_CALLING_INDEXCOV.out.versions)
     }
 
@@ -368,7 +368,7 @@ workflow BAM_VARIANT_CALLING_GERMLINE_ALL {
     emit:
     gvcf_sentieon_dnascope
     gvcf_sentieon_haplotyper
-    indexcov_output
+    out_indexcov
     vcf_all
     vcf_deepvariant
     vcf_freebayes

diff --git a/subworkflows/local/bam_variant_calling_indexcov/main.nf b/subworkflows/local/bam_variant_calling_indexcov/main.nf
@@ -39,6 +39,6 @@ workflow BAM_VARIANT_CALLING_INDEXCOV {
 
     emit:
 
-    indexcov_output = goleft_ch.output
+    out_indexcov = goleft_ch.output
     versions
 }
diff --git a/subworkflows/local/bam_variant_calling_somatic_all/main.nf b/subworkflows/local/bam_variant_calling_somatic_all/main.nf
@@ -54,7 +54,7 @@ workflow BAM_VARIANT_CALLING_SOMATIC_ALL {
     out_msisensorpro    = Channel.empty()
     vcf_mutect2         = Channel.empty()
     vcf_tiddit          = Channel.empty()
-    indexcov_output     = Channel.empty()
+    out_indexcov        = Channel.empty()
 
     if (tools.split(',').contains('ascat')) {
         BAM_VARIANT_CALLING_SOMATIC_ASCAT(
@@ -165,7 +165,7 @@ workflow BAM_VARIANT_CALLING_SOMATIC_ALL {
             fasta_fai
         )
 
-        indexcov_output = BAM_VARIANT_CALLING_INDEXCOV.out.indexcov_output
+        out_indexcov = BAM_VARIANT_CALLING_INDEXCOV.out.out_indexcov
         versions = versions.mix(BAM_VARIANT_CALLING_INDEXCOV.out.versions)
     }