replaced published_contigs variable

EBI-Metagenomics · Dec 6, 2024 · e831147 · e831147
1 parent 9bbed3e
commit e831147
Show file tree

Hide file tree

Showing 2 changed files with 3 additions and 3 deletions.
diff --git a/subworkflows/local/assembly_qc.nf b/subworkflows/local/assembly_qc.nf
@@ -88,6 +88,6 @@ workflow ASSEMBLY_QC {
     )
 
     emit:
-    filtered_contigs = cleaned_contigs
+    cleaned_contigs = cleaned_contigs
     versions         = ch_versions
 }
diff --git a/workflows/miassembler.nf b/workflows/miassembler.nf
@@ -246,7 +246,7 @@ workflow MIASSEMBLER {
 
     // Coverage //
     ASSEMBLY_COVERAGE(
-        ASSEMBLY_QC.out.filtered_contigs.join( READS_QC.out.qc_reads, remainder: false ),
+        ASSEMBLY_QC.out.cleaned_contigs.join( READS_QC.out.qc_reads, remainder: false ),
         READS_QC.out.fastp_json
     )
 
@@ -255,7 +255,7 @@ workflow MIASSEMBLER {
     // Stats //
     /* The QUAST module was modified to run metaQUAST instead */
     QUAST(
-        ASSEMBLY_QC.out.filtered_contigs,
+        ASSEMBLY_QC.out.cleaned_contigs,
         [ [], [] ], // reference
         [ [], [] ]  // gff
     )