Forgot to used the renamed thingy

EBI-Metagenomics · May 30, 2024 · 622773a · 622773a
1 parent 6ed34e1
commit 622773a
Showing 1 changed file with 3 additions and 3 deletions.
diff --git a/subworkflows/ebi-metagenomics/reads_bwamem2_decontamination/main.nf b/subworkflows/ebi-metagenomics/reads_bwamem2_decontamination/main.nf
@@ -13,10 +13,10 @@ workflow READS_BWAMEM2_DECONTAMINATION {
 
     ch_versions = Channel.empty()
 
-    BWAMEM2_MEM(ch_reads, ch_reference)
-    ch_versions = ch_versions.mix(BWAMEM2_MEM.out.versions.first())
+    BWAMEM2_MEM_DECONT(ch_reads, ch_reference)
+    ch_versions = ch_versions.mix(BWAMEM2_MEM_DECONT.out.versions.first())
 
-    SAMTOOLS_BAM2FQ( BWAMEM2_MEM.out.bam.map { meta, bam, _ -> [ meta, bam, meta.single_end == false ] } )
+    SAMTOOLS_BAM2FQ( BWAMEM2_MEM_DECONT.out.bam.map { meta, bam, _ -> [ meta, bam, meta.single_end == false ] } )
     ch_versions = ch_versions.mix(SAMTOOLS_BAM2FQ.out.versions.first())
 
     emit: