Commit 595e482d authored by Peter van 't Hof's avatar Peter van 't Hof
Browse files

Set defaults for gc limits

parent 18e22c1b
......@@ -21,9 +21,9 @@ import org.broadinstitute.gatk.queue.function.JavaCommandLineFunction
trait BiopetJavaCommandLineFunction extends JavaCommandLineFunction with BiopetCommandLineFunction {
executable = config("java", default = "java", submodule = "java", freeVar = false)
javaGCThreads = config("java_gc_threads")
javaGCHeapFreeLimit = config("java_gc_heap_freelimit")
javaGCTimeLimit = config("java_gc_timelimit")
javaGCThreads = config("java_gc_threads", default = 4)
javaGCHeapFreeLimit = config("java_gc_heap_freelimit", default = 10)
javaGCTimeLimit = config("java_gc_timelimit", default = 50)
override def defaultVmemFactor: Double = 2.0
......@@ -38,8 +38,6 @@ trait BiopetJavaCommandLineFunction extends JavaCommandLineFunction with BiopetC
if (javaMainClass != null && javaClasspath.isEmpty)
javaClasspath = JavaCommandLineFunction.currentClasspath
//threads = getThreads(defaultThreads)
}
/** Creates command to execute extension */
......
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