diff --git a/public/java/src/org/broadinstitute/sting/gatk/walkers/bqsr/RecalDatum.java b/public/java/src/org/broadinstitute/sting/gatk/walkers/bqsr/RecalDatum.java
index d197cc6b6..dde805e8d 100755
--- a/public/java/src/org/broadinstitute/sting/gatk/walkers/bqsr/RecalDatum.java
+++ b/public/java/src/org/broadinstitute/sting/gatk/walkers/bqsr/RecalDatum.java
@@ -109,7 +109,6 @@ public class RecalDatum extends RecalDatumOptimized {
 
     public final void resetCalculatedQualities() {
         empiricalQuality = 0.0;
-        estimatedQReported = 0.0;
     }
 
     private double calcExpectedErrors() {
diff --git a/public/java/src/org/broadinstitute/sting/gatk/walkers/bqsr/RecalibrationReport.java b/public/java/src/org/broadinstitute/sting/gatk/walkers/bqsr/RecalibrationReport.java
index 897e1645d..e7a698904 100644
--- a/public/java/src/org/broadinstitute/sting/gatk/walkers/bqsr/RecalibrationReport.java
+++ b/public/java/src/org/broadinstitute/sting/gatk/walkers/bqsr/RecalibrationReport.java
@@ -24,7 +24,7 @@ public class RecalibrationReport {
     GATKReportTable argumentTable;                                                                                      // keep the argument table untouched just for output purposes
     RecalibrationArgumentCollection RAC;                                                                                // necessary for quantizing qualities with the same parameter | todo -- this should be a new parameter, not necessarily coming from the original table parameter list
     
-    private static String UNRECOGNIZED_REPORT_TABLE_EXCEPTION = "Unrecognized table. Did you add an extra required covariate? This is a hard check that needs propagate through the code";
+    private static String UNRECOGNIZED_REPORT_TABLE_EXCEPTION = "Unrecognized table. Did you add an extra required covariate? This is a hard check.";
 
     public RecalibrationReport(final File RECAL_FILE) {
         GATKReport report = new GATKReport(RECAL_FILE);
@@ -77,10 +77,11 @@ public class RecalibrationReport {
     /**
      * Combines two recalibration reports by adding all observations and errors
      * 
-     * Note: This method DOES NOT recalculate the empirical qualities and quantized qualities. You have to recalculate them
-     * after combining. The reason for not calculating it is because this function is inteded for combining a series of 
-     * recalibration reports, and it only makes sense to calculate the empirical qualities and quantized qualities after all 
-     * the recalibration reports have been combined. Having the user recalculate when appropriate, makes this method faster
+     * Note: This method DOES NOT recalculate the empirical qualities and quantized qualities. You have to recalculate
+     * them after combining. The reason for not calculating it is because this function is inteded for combining a
+     * series of recalibration reports, and it only makes sense to calculate the empirical qualities and quantized
+     * qualities after all the recalibration reports have been combined. Having the user recalculate when appropriate,
+     * makes this method faster
      *
      * Note2: The empirical quality reported, however, is recalculated given its simplicity.
      * 
@@ -97,7 +98,7 @@ public class RecalibrationReport {
                 if (thisDatum == null)
                     thisDatum = otherDatum;                                                                             // sometimes the datum in other won't be present in 'this'. So just assign it!
                 else
-                    thisDatum.increment(otherDatum);                                                                    // add the two datum objects into 'this'
+                    thisDatum.combine(otherDatum);                                                                      // add the two datum objects into 'this'
                 thisDatum.resetCalculatedQualities();                                                                   // reset the empirical quality to make sure the user doesn't forget to recalculate it
             }            
         }
diff --git a/public/java/test/org/broadinstitute/sting/gatk/walkers/bqsr/BQSRGathererUnitTest.java b/public/java/test/org/broadinstitute/sting/gatk/walkers/bqsr/BQSRGathererUnitTest.java
index bded9001e..fe83dce22 100644
--- a/public/java/test/org/broadinstitute/sting/gatk/walkers/bqsr/BQSRGathererUnitTest.java
+++ b/public/java/test/org/broadinstitute/sting/gatk/walkers/bqsr/BQSRGathererUnitTest.java
@@ -60,7 +60,7 @@ public class BQSRGathererUnitTest {
      * @param factor 1 to test for equality, any other value to multiply the original value and match with the calculated
      */
     private void testTablesWithColumnsAndFactor(GATKReportTable original, GATKReportTable calculated, List<String> columnsToTest, int factor) {
-        for (Object primaryKey : original.getPrimaryKeys()) {                                                  // tables don't necessarily have the same primary keys
+        for (Object primaryKey : original.getPrimaryKeys()) {                                                           // tables don't necessarily have the same primary keys
             for (String column : columnsToTest) {
                 Object actual = calculated.get(primaryKey, column);
                 Object expected = original.get(primaryKey, column);