diff --git a/public/java/src/org/broadinstitute/sting/gatk/traversals/TraverseActiveRegions.java b/public/java/src/org/broadinstitute/sting/gatk/traversals/TraverseActiveRegions.java
index 4fe83f331..a2c37944a 100644
--- a/public/java/src/org/broadinstitute/sting/gatk/traversals/TraverseActiveRegions.java
+++ b/public/java/src/org/broadinstitute/sting/gatk/traversals/TraverseActiveRegions.java
@@ -34,9 +34,6 @@ public class TraverseActiveRegions <M,T> extends TraversalEngine<M,T,ActiveRegio
     private final LinkedList<ActiveRegion> workQueue = new LinkedList<ActiveRegion>();
     private final LinkedHashSet<GATKSAMRecord> myReads = new LinkedHashSet<GATKSAMRecord>();
 
-    // package access for unit testing
-    ActivityProfile profile;
-
     @Override
     public String getTraversalUnits() {
         return "active regions";
@@ -56,7 +53,7 @@ public class TraverseActiveRegions <M,T> extends TraversalEngine<M,T,ActiveRegio
 
         int minStart = Integer.MAX_VALUE;
         final List<ActiveRegion> activeRegions = new LinkedList<ActiveRegion>();
-        profile = new ActivityProfile(engine.getGenomeLocParser(), walker.hasPresetActiveRegions() );
+        ActivityProfile profile = new ActivityProfile(engine.getGenomeLocParser(), walker.hasPresetActiveRegions() );
 
         ReferenceOrderedView referenceOrderedDataView = getReferenceOrderedView(walker, dataProvider, locusView);
 
diff --git a/public/java/src/org/broadinstitute/sting/utils/activeregion/ActivityProfile.java b/public/java/src/org/broadinstitute/sting/utils/activeregion/ActivityProfile.java
index 38cfbb38d..e96eb843d 100644
--- a/public/java/src/org/broadinstitute/sting/utils/activeregion/ActivityProfile.java
+++ b/public/java/src/org/broadinstitute/sting/utils/activeregion/ActivityProfile.java
@@ -103,11 +103,6 @@ public class ActivityProfile {
         isActiveList.add(result);
     }
 
-    // for unit testing
-    public List<ActivityProfileResult> getActiveList() {
-        return isActiveList;
-    }
-
     public int size() {
         return isActiveList.size();
     }
diff --git a/public/java/test/org/broadinstitute/sting/gatk/traversals/TraverseActiveRegionsTest.java b/public/java/test/org/broadinstitute/sting/gatk/traversals/TraverseActiveRegionsTest.java
index 8740a8b68..edc818aca 100644
--- a/public/java/test/org/broadinstitute/sting/gatk/traversals/TraverseActiveRegionsTest.java
+++ b/public/java/test/org/broadinstitute/sting/gatk/traversals/TraverseActiveRegionsTest.java
@@ -41,6 +41,7 @@ public class TraverseActiveRegionsTest extends BaseTest {
 
     private class DummyActiveRegionWalker extends ActiveRegionWalker<Integer, Integer> {
         private final double prob;
+        public List<GenomeLoc> isActiveCalls = new ArrayList<GenomeLoc>();
 
         public DummyActiveRegionWalker() {
             this.prob = 1.0;
@@ -48,6 +49,7 @@ public class TraverseActiveRegionsTest extends BaseTest {
 
         @Override
         public ActivityProfileResult isActive(RefMetaDataTracker tracker, ReferenceContext ref, AlignmentContext context) {
+            isActiveCalls.add(ref.getLocus());
             return new ActivityProfileResult(ref.getLocus(), prob);
         }
 
@@ -71,7 +73,7 @@ public class TraverseActiveRegionsTest extends BaseTest {
 
     private IndexedFastaSequenceFile reference;
     private GenomeLocParser genomeLocParser;
-    private ActiveRegionWalker<Integer, Integer> walker;
+    private DummyActiveRegionWalker walker;
 
     @BeforeClass
     private void init() throws FileNotFoundException {
@@ -83,18 +85,21 @@ public class TraverseActiveRegionsTest extends BaseTest {
     @Test
     public void testAllIntervalsSeen() throws Exception {
         List<GenomeLoc> intervals = new ArrayList<GenomeLoc>();
+        List<GenomeLoc> activeIntervals = new ArrayList<GenomeLoc>();
+
         GenomeLoc interval = genomeLocParser.createGenomeLoc("1", 1, 1);
         intervals.add(interval);
 
         LocusShardDataProvider dataProvider = createDataProvider(intervals);
 
         t.traverse(walker, dataProvider, 0);
+        activeIntervals.addAll(walker.isActiveCalls);
 
         boolean allGenomeLocsSeen = true;
         for (GenomeLoc loc : intervals) {
             boolean thisGenomeLocSeen = false;
-            for (ActivityProfileResult active : t.profile.getActiveList()) {
-                if (loc.equals(active.getLoc())) {
+            for (GenomeLoc activeLoc : activeIntervals) {
+                if (loc.equals(activeLoc)) {
                     thisGenomeLocSeen = true;
                     break;
                 }