From ee02b610689726f11656b94d57d859ae99b1a11b Mon Sep 17 00:00:00 2001
From: aaron <aaron@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Sat, 9 May 2009 07:07:33 +0000
Subject: [PATCH] added support for the argument collections code

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@648 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../org/broadinstitute/sting/utils/cmdLine/ParsingEngine.java  | 3 +++
 1 file changed, 3 insertions(+)

diff --git a/java/src/org/broadinstitute/sting/utils/cmdLine/ParsingEngine.java b/java/src/org/broadinstitute/sting/utils/cmdLine/ParsingEngine.java
index 944b9009c..e9c4f9a01 100755
--- a/java/src/org/broadinstitute/sting/utils/cmdLine/ParsingEngine.java
+++ b/java/src/org/broadinstitute/sting/utils/cmdLine/ParsingEngine.java
@@ -86,6 +86,9 @@ public class ParsingEngine {
                 Argument argument = field.getAnnotation(Argument.class);
                 if(argument != null)
                     argumentsFromSource.add( new ArgumentDefinition(argument,source,field) );
+                ArgumentCollection argumentCollection = field.getAnnotation(ArgumentCollection.class);
+                if(argumentCollection != null)
+                    addArgumentSource(sourceName, field.getType());
             }
             source = source.getSuperclass();
         }