diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/filters/IVFDuplicateReads.java b/java/src/org/broadinstitute/sting/gatk/walkers/filters/IVFDuplicateReads.java
deleted file mode 100755
index 396109800..000000000
--- a/java/src/org/broadinstitute/sting/gatk/walkers/filters/IVFDuplicateReads.java
+++ /dev/null
@@ -1,65 +0,0 @@
-package org.broadinstitute.sting.gatk.walkers.filters;
-
-import net.sf.samtools.SAMRecord;
-
-import java.util.List;
-import java.util.HashSet;
-import java.util.ArrayList;
-
-import org.broadinstitute.sting.gatk.walkers.genotyper.SingleSampleGenotyper;
-import org.broadinstitute.sting.gatk.walkers.genotyper.SSGenotypeCall;
-import org.broadinstitute.sting.gatk.contexts.AlignmentContext;
-
-public class IVFDuplicateReads implements IndependentVariantFeature {
-    private SingleSampleGenotyper SSG;
-    private double[] likelihoods = new double[10];
-
-    public void initialize(String arguments) {
-        SSG = new SingleSampleGenotyper();
-        SSG.initialize();
-    }
-
-    public void compute(VariantContextWindow contextWindow) {
-        List<SAMRecord> reads = contextWindow.getContext().getAlignmentContext(useZeroQualityReads()).getReads();
-        List<Integer> offsets = contextWindow.getContext().getAlignmentContext(useZeroQualityReads()).getOffsets();
-
-        HashSet<Integer> alignmentStarts = new HashSet<Integer>();
-        ArrayList<SAMRecord> dupeRemovedReads = new ArrayList<SAMRecord>();
-        ArrayList<Integer> dupeRemovedOffsets = new ArrayList<Integer>();
-
-        for (int readIndex = 0; readIndex < reads.size(); readIndex++) {
-            SAMRecord read = reads.get(readIndex);
-            Integer offset = offsets.get(readIndex);
-            Integer start = read.getAlignmentStart();
-
-            if (!alignmentStarts.contains(start)) {
-                dupeRemovedReads.add(read);
-                dupeRemovedOffsets.add(offset);
-            }
-            
-            alignmentStarts.add(start);
-        }
-
-        AlignmentContext ac = new AlignmentContext(contextWindow.getContext().getAlignmentContext(useZeroQualityReads()).getLocation(), dupeRemovedReads, dupeRemovedOffsets);
-        SSGenotypeCall ssgcall = SSG.map(contextWindow.getContext().getTracker(), contextWindow.getContext().getReferenceContext(), ac);
-
-        double[] newlikelihoods = ssgcall.getLikelihoods();
-        for (int likelihoodIndex = 0; likelihoodIndex < newlikelihoods.length; likelihoodIndex++) {
-            likelihoods[likelihoodIndex] = newlikelihoods[likelihoodIndex] - contextWindow.getContext().getVariant().getGenotypeLikelihoods()[likelihoodIndex];
-        }
-    }
-
-    public double[] getLikelihoods() {
-        return likelihoods;
-    }
-
-    public String getStudyHeader() {
-        return "";
-    }
-
-    public String getStudyInfo() {
-        return "";
-    }
-
-    public boolean useZeroQualityReads() { return false; }
-}