diff --git a/samtools.wdl b/samtools.wdl index bbd436740191eb3b4bb60390f76f31c6403a611e..aaa7ee3541029b3ca0b5d6351992a63659fff88c 100644 --- a/samtools.wdl +++ b/samtools.wdl @@ -1,8 +1,7 @@ task Index { String? preCommand File bamFilePath - - String bamIndexPath = bamFilePath + ".bai" + String bamIndexPath command { set -e -o pipefail