From ba349e8d52626ed3ae4eeb2af829995c1f894a82 Mon Sep 17 00:00:00 2001
From: ebanks <ebanks@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Wed, 15 Jul 2009 19:40:50 +0000
Subject: [PATCH] add FLT ROD

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1257 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../gatk/refdata/ReferenceOrderedData.java    | 19 +++++++++++--------
 1 file changed, 11 insertions(+), 8 deletions(-)

diff --git a/java/src/org/broadinstitute/sting/gatk/refdata/ReferenceOrderedData.java b/java/src/org/broadinstitute/sting/gatk/refdata/ReferenceOrderedData.java
index 1a3c4d30c..9ff4b9c83 100644
--- a/java/src/org/broadinstitute/sting/gatk/refdata/ReferenceOrderedData.java
+++ b/java/src/org/broadinstitute/sting/gatk/refdata/ReferenceOrderedData.java
@@ -1,18 +1,21 @@
 package org.broadinstitute.sting.gatk.refdata;
 
-import org.apache.log4j.Logger;
-import org.broadinstitute.sting.utils.MalformedGenomeLocException;
-import org.broadinstitute.sting.utils.Utils;
-import org.broadinstitute.sting.utils.xReadLines;
-
 import java.io.File;
-import java.io.FileNotFoundException;
 import java.io.FileWriter;
 import java.io.IOException;
+import java.io.FileNotFoundException;
+import java.util.*;
 import java.lang.reflect.Constructor;
 import java.lang.reflect.InvocationTargetException;
 import java.lang.reflect.Method;
-import java.util.*;
+
+import org.broadinstitute.sting.gatk.iterators.PushbackIterator;
+import org.broadinstitute.sting.gatk.refdata.rodRefSeq;
+import org.broadinstitute.sting.utils.GenomeLoc;
+import org.broadinstitute.sting.utils.xReadLines;
+import org.broadinstitute.sting.utils.Utils;
+import org.broadinstitute.sting.utils.MalformedGenomeLocException;
+import org.apache.log4j.Logger;
 
 /**
  * Class for representing arbitrary reference ordered data sets
@@ -61,6 +64,7 @@ public class ReferenceOrderedData<ROD extends ReferenceOrderedDatum> implements
         addModule("HapMapAlleleFrequencies", HapMapAlleleFrequenciesROD.class);
         addModule("SAMPileup", rodSAMPileup.class);
         addModule("GELI", rodGELI.class);
+        addModule("FLT", rodFLT.class);
         addModule("RefSeq", rodRefSeq.class);
         addModule("Table", TabularROD.class);
         addModule("PooledEM", PooledEMSNPROD.class);
@@ -69,7 +73,6 @@ public class ReferenceOrderedData<ROD extends ReferenceOrderedDatum> implements
         addModule("HapMapGenotype", HapMapGenotypeROD.class);
         addModule("Intervals", IntervalRod.class);
         addModule("Variants", rodVariants.class);
-        addModule("GFF", RodGLF.class);
     }