diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/recalibration/TableRecalibrationWalker.java b/java/src/org/broadinstitute/sting/gatk/walkers/recalibration/TableRecalibrationWalker.java
index 7cfd069e5..0a5b1c71d 100644
--- a/java/src/org/broadinstitute/sting/gatk/walkers/recalibration/TableRecalibrationWalker.java
+++ b/java/src/org/broadinstitute/sting/gatk/walkers/recalibration/TableRecalibrationWalker.java
@@ -50,7 +50,7 @@ import org.broadinstitute.sting.utils.sam.GATKSAMRecord;
  * conditions:
  *
  * The above copyright notice and this permission notice shall be
-
+ * included in all copies or substantial portions of the Software.
  *
  * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
  * EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES
diff --git a/java/src/org/broadinstitute/sting/playground/gatk/walkers/variantoptimizer/AnnotationDataManager.java b/java/src/org/broadinstitute/sting/playground/gatk/walkers/variantoptimizer/AnnotationDataManager.java
index d8c18db32..64d2420d1 100755
--- a/java/src/org/broadinstitute/sting/playground/gatk/walkers/variantoptimizer/AnnotationDataManager.java
+++ b/java/src/org/broadinstitute/sting/playground/gatk/walkers/variantoptimizer/AnnotationDataManager.java
@@ -130,7 +130,8 @@ public class AnnotationDataManager {
                 // else, continue accumulating variants because this bin isn't full yet
             }
 
-            if( thisAnnotationBin.numVariants( AnnotationDatum.FULL_SET ) != 0 ) { // One final bin that may not have been dumped out
+            // One final bin that may not have been dumped out
+            if( thisAnnotationBin.numVariants( AnnotationDatum.FULL_SET ) != 0 ) {
                 output.println( thisAnnotationBin.value + "\t" + thisAnnotationBin.calcTiTv( AnnotationDatum.FULL_SET ) + "\t" + thisAnnotationBin.calcDBsnpRate() + "\t" + thisAnnotationBin.calcTPrate() +
                             "\t" + thisAnnotationBin.numVariants( AnnotationDatum.FULL_SET ) + "\tall");
                 output.println( thisAnnotationBin.value + "\t" + thisAnnotationBin.calcTiTv( AnnotationDatum.NOVEL_SET ) + "\t-1\t-1\t" + thisAnnotationBin.numVariants( AnnotationDatum.NOVEL_SET ) + "\tnovel");