update star/align to include an optional sam output (support for --chimOutType SeparateSAMold option) (#1378)

Co-authored-by: Praveen Raj S <43108054+praveenraj2018@users.noreply.github.com>
2 years ago · 1dddf1ce94
parent 9c386c5dd8
commit 1dddf1ce94
1 changed files with 1 additions and 0 deletions
--- a/modules/star/align/main.nf
+++ b/modules/star/align/main.nf
@ -29,6 +29,7 @@ process STAR_ALIGN {
    tuple val(meta), path('*fastq.gz')               , optional:true, emit: fastq
    tuple val(meta), path('*.tab')                   , optional:true, emit: tab
    tuple val(meta), path('*.out.junction')          , optional:true, emit: junction
+    tuple val(meta), path('*.out.sam')               , optional:true, emit: sam

    when:
    task.ext.when == null || task.ext.when