diff --git a/public/java/src/org/broadinstitute/sting/gatk/walkers/indels/PairHMMIndelErrorModel.java b/public/java/src/org/broadinstitute/sting/gatk/walkers/indels/PairHMMIndelErrorModel.java
index 343860629..5f7730011 100755
--- a/public/java/src/org/broadinstitute/sting/gatk/walkers/indels/PairHMMIndelErrorModel.java
+++ b/public/java/src/org/broadinstitute/sting/gatk/walkers/indels/PairHMMIndelErrorModel.java
@@ -402,6 +402,12 @@ public class PairHMMIndelErrorModel {
                                     contextLogGapOpenProbabilities, contextLogGapOpenProbabilities, contextLogGapContinuationProbabilities,
                                     startIndexInHaplotype, matchMetricArray, XMetricArray, YMetricArray);
 
+                            previousHaplotypeSeen = haplotypeBases.clone();
+    
+    
+/*                            double l2 = computeReadLikehoodGivenHaplotype(haplotypeBases, readBases, readQuals, contextLogGapOpenProbabilities,
+                                    contextLogGapContinuationProbabilities, bandedLikelihoods);
+  */
                             if (DEBUG) {
                                 System.out.println("H:"+new String(haplotypeBases));
                                 System.out.println("R:"+new String(readBases));
diff --git a/public/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java b/public/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java
index 8292b8bc9..067e9088c 100755
--- a/public/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java
+++ b/public/java/test/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyperIntegrationTest.java
@@ -62,7 +62,7 @@ public class UnifiedGenotyperIntegrationTest extends WalkerTest {
     public void testMultipleSNPAlleles() {
         WalkerTest.WalkerTestSpec spec = new WalkerTest.WalkerTestSpec(
                 "-T UnifiedGenotyper -R " + b37KGReference + " -nosl -NO_HEADER -glm BOTH --dbsnp " + b37dbSNP129 + " -I " + validationDataLocation + "multiallelic.snps.bam -o %s -L " + validationDataLocation + "multiallelic.snps.intervals", 1,
-                Arrays.asList("c956f0ea0e5f002288a09f4bc4af1319"));
+                Arrays.asList("e948543b83bfd0640fcb994d72f8e234"));
         executeTest("test Multiple SNP alleles", spec);
     }
 
@@ -325,7 +325,7 @@ public class UnifiedGenotyperIntegrationTest extends WalkerTest {
         WalkerTest.WalkerTestSpec spec2 = new WalkerTest.WalkerTestSpec(
                 baseCommandIndels + " --genotyping_mode GENOTYPE_GIVEN_ALLELES -alleles " + result.get(0).getAbsolutePath() + " -I " + validationDataLocation +
                         "low_coverage_CEU.chr1.10k-11k.bam -o %s -L 1:10450700-10551000", 1,
-                Arrays.asList("0240f34e71f137518be233c9890a5349"));
+                Arrays.asList("537dd9b4174dc356fb13d8d3098ad602"));
         executeTest("test MultiSample Pilot1 CEU indels using GENOTYPE_GIVEN_ALLELES", spec2);
     }