From 4f8d8309607ecc2141d8af52a6f93147503a2b5e Mon Sep 17 00:00:00 2001
From: Mark DePristo <depristo@broadinstitute.org>
Date: Sat, 30 Jul 2011 15:34:20 -0400
Subject: [PATCH] Updated to reflect new parse() function

---
 .../queue/util/ScalaCompoundArgumentTypeDescriptor.scala     | 5 +++++
 1 file changed, 5 insertions(+)

diff --git a/public/scala/src/org/broadinstitute/sting/queue/util/ScalaCompoundArgumentTypeDescriptor.scala b/public/scala/src/org/broadinstitute/sting/queue/util/ScalaCompoundArgumentTypeDescriptor.scala
index 40a296022..58341a0a5 100644
--- a/public/scala/src/org/broadinstitute/sting/queue/util/ScalaCompoundArgumentTypeDescriptor.scala
+++ b/public/scala/src/org/broadinstitute/sting/queue/util/ScalaCompoundArgumentTypeDescriptor.scala
@@ -4,6 +4,7 @@ import collection.JavaConversions._
 import org.broadinstitute.sting.queue.QException
 import java.lang.Class
 import org.broadinstitute.sting.commandline.{ArgumentMatches, ArgumentSource, ArgumentTypeDescriptor, ParsingEngine}
+import java.lang.reflect.Type
 
 /**
  * An ArgumentTypeDescriptor that can parse the scala collections.
@@ -42,6 +43,10 @@ class ScalaCompoundArgumentTypeDescriptor extends ArgumentTypeDescriptor {
    * @param argumentMatches The argument match strings that were found for this argument source.
    * @return The parsed object.
    */
+  def parse(parsingEngine: ParsingEngine, source: ArgumentSource, typeType: Type, argumentMatches: ArgumentMatches) = {
+    parse(parsingEngine,source, makeRawTypeIfNecessary(typeType), argumentMatches)
+  }
+  
   def parse(parsingEngine: ParsingEngine, source: ArgumentSource, classType: Class[_], argumentMatches: ArgumentMatches) = {
     val componentType = ReflectionUtils.getCollectionType(source.field)
     val componentArgumentParser = parsingEngine.selectBestTypeDescriptor(componentType)