changed default memory

protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/broad/CommandLineGATK.scala

@@ -311,6 +311,8 @@ trait CommandLineGATK extends BiopetJavaCommandLineFunction with Reference with
   override def versionExitcode = List(0, 1)
   def versionCommand = executable + " -jar " + jarFile + " -version"
 
+  override def defaultCoreMemory = 4.0
+  override def faiRequired = true
   override def dictRequired = true
 
   override def beforeGraph() {

protected/biopet-gatk-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/gatk/broad/HaplotypeCaller.scala

@@ -397,8 +397,6 @@ class HaplotypeCaller(val root: Configurable) extends CommandLineGATK with Scatt
   @Argument(fullName = "filter_bases_not_stored", shortName = "filterNoBases", doc = "Filter out reads with no stored bases (i.e. '*' where the sequence should be), instead of failing with an error", required = false, exclusiveOf = "", validation = "")
   var filter_bases_not_stored: Boolean = config("filter_bases_not_stored", default = false)
 
-  override def defaultCoreMemory = 3.0
-
   override def beforeGraph() {
     super.beforeGraph()
     if (out != null && !org.broadinstitute.gatk.utils.io.IOUtils.isSpecialFile(out))