diff --git a/CPAT.wdl b/CPAT.wdl index b92053d1e1fcdbe116fc845c845442fd1b7aeecc..53aeac94a84f05cdd2fd2d211c5fca4e96b62154 100644 --- a/CPAT.wdl +++ b/CPAT.wdl @@ -30,7 +30,7 @@ task CPAT { } output { - File outFile=outFilePath + File outFile = outFilePath } runtime { diff --git a/collect-columns.wdl b/collect-columns.wdl index 910aeac255dc07afc22068896d69aa81ef56fed8..edd674380e565aa98e9ff4a0e5ae2bca326469d9 100644 --- a/collect-columns.wdl +++ b/collect-columns.wdl @@ -37,7 +37,7 @@ task CollectColumns { } runtime { - memory: 4 + ceil(0.5* length(inputTables)) + memory: 4 + ceil(0.5 * length(inputTables)) docker: dockerImage } } \ No newline at end of file diff --git a/somaticseq.wdl b/somaticseq.wdl index 7a25a0817950525000d53e2b13eccf4d79bfa323..450152554c244306819917310f54ba891667c6df 100644 --- a/somaticseq.wdl +++ b/somaticseq.wdl @@ -273,7 +273,7 @@ task ModifyStrelka { String installDir = "/opt/somaticseq/vcfModifier" #the location in the docker image File strelkaVCF - String? outputVCFName = basename(strelkaVCF, ".gz") + String outputVCFName = basename(strelkaVCF, ".gz") Int threads = 1 String dockerImage = "lethalfang/somaticseq:3.1.0"