diff --git a/picard.wdl b/picard.wdl index 8962c4b615a621000601c8ad4c374bfe2f2c814d..1d8376ca34a11c7de2c5fc1b2884f4c22486b4b2 100644 --- a/picard.wdl +++ b/picard.wdl @@ -366,7 +366,7 @@ task GatherBamFiles { Int memoryMb = javaXmxMb + 512 Int javaXmxMb = 1024 - Int compressionLevel = 1 + Int? compressionLevel Boolean createMd5File = false # One minute per input gigabyte. Int timeMinutes = 1 + ceil(size(inputBams, "G") * 1) @@ -380,7 +380,7 @@ task GatherBamFiles { GatherBamFiles \ INPUT=~{sep=' INPUT=' inputBams} \ OUTPUT=~{outputBamPath} \ - COMPRESSION_LEVEL=~{compressionLevel} \ + ~{"COMPRESSION_LEVEL=" + compressionLevel} \ CREATE_INDEX=true \ CREATE_MD5_FILE=~{true="true" false="false" createMd5File} }