diff --git a/vardict.wdl b/vardict.wdl index 1cd35d5864af9b4f18fb1ab52363b763b645e9cd..c79a768ffc1fc0a72c9c8506e20338a952a91d4d 100644 --- a/vardict.wdl +++ b/vardict.wdl @@ -22,18 +22,19 @@ task VarDict { Int geneColumn = 4 String? preCommand - Int memory = 4 + Int memory = 8 Float memoryMultiplier = 2.0 } String toolCommand = if defined(installDir) then installDir + "/VarDict" else if useJavaVersion - then "vardict-java -Xmx${memory}" + then "vardict-java" else "vardict" command { set -e -o pipefail + export JAVA_OPTS="-Xmx~{memory}G" ~{preCommand} ~{toolCommand} \ -G ~{refFasta} \