From 5feb7ee62772fa3544097203addf42ba41294b83 Mon Sep 17 00:00:00 2001
From: aaron <aaron@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Mon, 6 Apr 2009 21:38:41 +0000
Subject: [PATCH] temperary fix, relying on a old reference order data
 constructor

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@302 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../simpleDataSources/ReferenceMetaDataSource.java    | 11 ++++++-----
 1 file changed, 6 insertions(+), 5 deletions(-)

diff --git a/java/src/org/broadinstitute/sting/gatk/dataSources/simpleDataSources/ReferenceMetaDataSource.java b/java/src/org/broadinstitute/sting/gatk/dataSources/simpleDataSources/ReferenceMetaDataSource.java
index 54fbec295..0c358c5ab 100644
--- a/java/src/org/broadinstitute/sting/gatk/dataSources/simpleDataSources/ReferenceMetaDataSource.java
+++ b/java/src/org/broadinstitute/sting/gatk/dataSources/simpleDataSources/ReferenceMetaDataSource.java
@@ -1,13 +1,13 @@
 package org.broadinstitute.sting.gatk.dataSources.simpleDataSources;
 
-import org.broadinstitute.sting.gatk.refdata.HapMapAlleleFrequenciesROD;
 import org.broadinstitute.sting.gatk.refdata.ReferenceOrderedData;
 import org.broadinstitute.sting.gatk.refdata.ReferenceOrderedDatum;
-import org.broadinstitute.sting.gatk.refdata.rodDbSNP;
 import org.broadinstitute.sting.utils.GenomeLoc;
 
-import java.io.File;
-import java.util.*;
+import java.util.ArrayList;
+import java.util.HashMap;
+import java.util.Iterator;
+import java.util.List;
 
 /**
  *
@@ -92,7 +92,7 @@ public class ReferenceMetaDataSource implements SimpleDataSource {
     }
 
     public ReferenceMetaDataSource(HashMap<String, RODTYPE> files) {
-
+        /*
         // setup a rod list
         List<ReferenceOrderedData<? extends ReferenceOrderedDatum>> rods = new ArrayList<ReferenceOrderedData<? extends ReferenceOrderedDatum>>();
 
@@ -114,5 +114,6 @@ public class ReferenceMetaDataSource implements SimpleDataSource {
                 }
             }
         }
+        */
     }
 }