diff --git a/dge_workflow/dge_utils.sh b/dge_workflow/dge_utils.sh index f62511ed2a8db36363216a7f53251f57c2c5ed83..646ca00a655bae7059d4de4ffccd9450e06fc52d 100755 --- a/dge_workflow/dge_utils.sh +++ b/dge_workflow/dge_utils.sh @@ -207,6 +207,8 @@ fi ## collect all bam-files and group them allBams=$(find $bamDir | grep ".bam$" | grep -v "unmapped" | sort) +## todo use optional argument here --> default "unmapped" --> allow user to add others +#allBams=$(find $bamDir | grep ".bam$" | grep -v "unmapped" | grep -v "1029" | sort) bamsSplit="" for label in $(echo $labels | tr ", " " "); do