diff --git a/ivy.xml b/ivy.xml
index 84297424b..b4c8fa590 100644
--- a/ivy.xml
+++ b/ivy.xml
@@ -10,7 +10,8 @@
     <dependency org="jboss" name="javassist" rev="3.7.ga" />
     <dependency org="org.simpleframework" name="simple-xml" rev="2.0.4" />
     <dependency org="org.apache.bcel" name="bcel" rev="5.2" />
-
+    <dependency org="org.jgrapht" name="jgrapht-jdk1.5" rev="0.7.3" />
+    
     <!-- Dependencies for reflections mvn repository -->
     <dependency org="org.reflections" name="reflections" rev="0.9.2" />
     <dependency org="com.google.collections" name="google-collections" rev="0.9" />
diff --git a/java/src/org/broadinstitute/sting/gatk/datasources/providers/RodLocusView.java b/java/src/org/broadinstitute/sting/gatk/datasources/providers/RodLocusView.java
index 5e438b559..743a938a4 100644
--- a/java/src/org/broadinstitute/sting/gatk/datasources/providers/RodLocusView.java
+++ b/java/src/org/broadinstitute/sting/gatk/datasources/providers/RodLocusView.java
@@ -6,6 +6,7 @@ import org.broadinstitute.sting.gatk.contexts.AlignmentContext;
 import org.broadinstitute.sting.utils.GenomeLoc;
 import org.broadinstitute.sting.utils.MergingIterator;
 import org.broadinstitute.sting.utils.GenomeLocParser;
+import org.broadinstitute.sting.utils.StingException;
 
 import java.util.*;
 
@@ -85,6 +86,8 @@ public class RodLocusView extends LocusView implements ReferenceOrderedView {
         }
 
         rodQueue = new MergingIterator<RODRecordList<ReferenceOrderedDatum>>(iterators);
+
+        throw new StingException("RodLocusView currently disabled");
     }
 
     public RefMetaDataTracker getReferenceOrderedDataAtLocus( GenomeLoc loc ) {
diff --git a/java/src/org/broadinstitute/sting/gatk/traversals/TraverseLoci.java b/java/src/org/broadinstitute/sting/gatk/traversals/TraverseLoci.java
index 01614cbcb..0c6b7a301 100755
--- a/java/src/org/broadinstitute/sting/gatk/traversals/TraverseLoci.java
+++ b/java/src/org/broadinstitute/sting/gatk/traversals/TraverseLoci.java
@@ -21,6 +21,7 @@ import java.util.ArrayList;
  */
 public class TraverseLoci extends TraversalEngine {
     final private static String UNIT_STRING = "sites";
+    final private static boolean ENABLE_ROD_TRAVERSAL = false;
 
 
     /**
@@ -56,7 +57,7 @@ public class TraverseLoci extends TraversalEngine {
 
             //ReferenceOrderedView referenceOrderedDataView = new ReferenceOrderedView( dataProvider );
             ReferenceOrderedView referenceOrderedDataView = null;
-            if ( WalkerManager.getWalkerDataSource(walker) != DataSource.REFERENCE_ORDERED_DATA )
+            if ( ! ENABLE_ROD_TRAVERSAL || WalkerManager.getWalkerDataSource(walker) != DataSource.REFERENCE_ORDERED_DATA )
                 referenceOrderedDataView = new ManagingReferenceOrderedView( dataProvider );
             else
                 referenceOrderedDataView = (RodLocusView)locusView;
@@ -91,7 +92,7 @@ public class TraverseLoci extends TraversalEngine {
 
             // We have a final map call to execute here to clean up the skipped based from the
             // last position in the ROD to that in the interval
-        if ( WalkerManager.getWalkerDataSource(walker) == DataSource.REFERENCE_ORDERED_DATA ) {
+        if ( ENABLE_ROD_TRAVERSAL && WalkerManager.getWalkerDataSource(walker) == DataSource.REFERENCE_ORDERED_DATA ) {
             RodLocusView rodLocusView = (RodLocusView)locusView;
             long nSkipped = rodLocusView.getLastSkippedBases();
             if ( nSkipped > 0 ) {
@@ -124,7 +125,7 @@ public class TraverseLoci extends TraversalEngine {
         DataSource dataSource = WalkerManager.getWalkerDataSource(walker);
         if( dataSource == DataSource.READS )
             return new CoveredLocusView(dataProvider);
-        else if( dataSource == DataSource.REFERENCE )
+        else if( dataSource == DataSource.REFERENCE || ! ENABLE_ROD_TRAVERSAL )
             return new AllLocusView(dataProvider);
         else if( dataSource == DataSource.REFERENCE_ORDERED_DATA )
             return new RodLocusView(dataProvider);
diff --git a/java/test/org/broadinstitute/sting/playground/gatk/walkers/varianteval/VariantEvalWalkerIntegrationTest.java b/java/test/org/broadinstitute/sting/playground/gatk/walkers/varianteval/VariantEvalWalkerIntegrationTest.java
index b9c7c2141..8f072c837 100644
--- a/java/test/org/broadinstitute/sting/playground/gatk/walkers/varianteval/VariantEvalWalkerIntegrationTest.java
+++ b/java/test/org/broadinstitute/sting/playground/gatk/walkers/varianteval/VariantEvalWalkerIntegrationTest.java
@@ -171,5 +171,21 @@ public class VariantEvalWalkerIntegrationTest extends WalkerTest {
                 md5);
         List<File> result = executeTest("testEvalMarksGenotypingExample", spec).getFirst();
     }
+
+    @Test
+	public void testEvalRuntimeWithLotsOfIntervals() {
+        List<String> md5 = new ArrayList<String>();
+        md5.add("bfdc82c3fd8a286f5855d3932ede3124");
+        WalkerTest.WalkerTestSpec spec = new WalkerTest.WalkerTestSpec(
+                "-T VariantEval -R /broad/1KG/reference/human_b36_both.fasta " +
+                "-B eval,Variants,/humgen/gsa-scr1/GATK_Data/Validation_Data/NA12878.pilot_3.all.geli.calls " +
+                "-D /humgen/gsa-scr1/GATK_Data/dbsnp_129_b36.rod " +
+                "--supressDateInformation " +
+                "-L /humgen/gsa-scr1/GATK_Data/thousand_genomes_alpha_redesign.targets.b36.interval_list " +
+                "--outerr %s",
+                1, // just one output file                                                                                                                                                          
+                md5);
+        List<File> result = executeTest("testEvalRuntimeWithLotsOfIntervals", spec).getFirst();
+    }
 }