diff --git a/sambamba.wdl b/sambamba.wdl index b411429773d19c2e18263c3cdda6c7d9b88109d3..b402f5808806aea54c4025280ddab24f337abee8 100644 --- a/sambamba.wdl +++ b/sambamba.wdl @@ -55,6 +55,11 @@ task Markdup { sambamba index ~{outputPath} ~{bamIndexPath} } + output { + File outputBam = outputPath + File outputBamIndex = bamIndexPath + } + runtime { memory: "~{memoryGb}G" cpu: threads