diff --git a/rtg.wdl b/rtg.wdl index ae1e5157d46eb15c41fcbf8255c60f493a6f485d..bc5aa2756e3b6e89eda5b4b4aed471dd4b3eb9ba 100644 --- a/rtg.wdl +++ b/rtg.wdl @@ -64,6 +64,7 @@ task VcfEval { File calls File callsIndex File? evaluationRegions + File? bedRegions String outputDir = "output/" String? region File template @@ -85,6 +86,7 @@ task VcfEval { --baseline ~{baseline} \ --calls ~{calls} \ ~{"--evaluation-regions " + evaluationRegions} \ + ~{"--bed-regions " + bedRegions} \ --output ~{outputDir} \ --template ~{template} \ ~{true="--all-records" false="" allRecords} \