diff --git a/java/src/org/broadinstitute/sting/oneoffprojects/walkers/AnnotationByAlleleFrequencyWalker.java b/java/src/org/broadinstitute/sting/oneoffprojects/walkers/AnnotationByAlleleFrequencyWalker.java
index 4f1f4ba58..9c49f44f3 100755
--- a/java/src/org/broadinstitute/sting/oneoffprojects/walkers/AnnotationByAlleleFrequencyWalker.java
+++ b/java/src/org/broadinstitute/sting/oneoffprojects/walkers/AnnotationByAlleleFrequencyWalker.java
@@ -153,8 +153,8 @@ public class AnnotationByAlleleFrequencyWalker  extends RodWalker<Integer, Integ
 
 
             try {
-                vc_eval = tracker.getVariantContext("eval", vc, loc, true);
-                vc_ref = tracker.getVariantContext("HapMap", vc, loc, true);
+                vc_eval = tracker.getVariantContext(ref,"eval", vc, loc, true);
+                vc_ref = tracker.getVariantContext(ref,"HapMap", vc, loc, true);
             } catch (java.util.NoSuchElementException e) {
                 return 0;
             }