Removes version mix for samtools sort

mribeirodantas · mribeirodantas · commit 86949d591322 · 2025-11-01T03:14:08.000-03:00
diff --git a/subworkflows/nf-core/bam_markduplicates_samtools/main.nf b/subworkflows/nf-core/bam_markduplicates_samtools/main.nf
@@ -26,7 +26,6 @@ workflow BAM_MARKDUPLICATES_SAMTOOLS {
     ch_versions = ch_versions.mix(SAMTOOLS_FIXMATE.out.versions)
 
     SAMTOOLS_SORT ( SAMTOOLS_FIXMATE.out.bam, ch_fasta, '' )
-    ch_versions = ch_versions.mix(SAMTOOLS_SORT.out.versions)
 
     SAMTOOLS_MARKDUP ( SAMTOOLS_SORT.out.bam, ch_fasta )
     ch_versions = ch_versions.mix(SAMTOOLS_MARKDUP.out.versions)
diff --git a/subworkflows/nf-core/bam_sort_stats_samtools/main.nf b/subworkflows/nf-core/bam_sort_stats_samtools/main.nf
@@ -16,7 +16,6 @@ workflow BAM_SORT_STATS_SAMTOOLS {
     ch_versions = Channel.empty()
 
     SAMTOOLS_SORT ( ch_bam, ch_fasta, '' )
-    ch_versions = ch_versions.mix(SAMTOOLS_SORT.out.versions.first())
 
     SAMTOOLS_INDEX ( SAMTOOLS_SORT.out.bam )
     ch_versions = ch_versions.mix(SAMTOOLS_INDEX.out.versions.first())
diff --git a/subworkflows/nf-core/fastq_align_dedup_bwameth/main.nf b/subworkflows/nf-core/fastq_align_dedup_bwameth/main.nf
@@ -64,7 +64,6 @@ workflow FASTQ_ALIGN_DEDUP_BWAMETH {
         ''
     )
     ch_alignment = SAMTOOLS_SORT.out.bam
-    ch_versions  = ch_versions.mix(SAMTOOLS_SORT.out.versions)
 
     /*
      * Run samtools index on alignment

Original file line number	Diff line number	Diff line change
`@@ -64,7 +64,6 @@ workflow FASTQ_ALIGN_DEDUP_BWAMETH {`
`64`	`64`	`''`
`65`	`65`	`)`
`66`	`66`	`ch_alignment = SAMTOOLS_SORT.out.bam`
`67`		`- ch_versions = ch_versions.mix(SAMTOOLS_SORT.out.versions)`
`68`	`67`
`69`	`68`	`/*`
`70`	`69`	`* Run samtools index on alignment`