Removed some debugging print statements.

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@707 348d0f76-0448-11de-a6fe-93d51630548a

java/src/org/broadinstitute/sting/secondarybase/AnnotateSecondaryBase.java

@@ -60,9 +60,6 @@ public class AnnotateSecondaryBase extends CommandLineProgram {
         while ((rr = iparser.next()) != null) {
             FourProbRead fpr = model.call(rr);
 
-            System.out.println(rr.getSequenceAsString());
-            System.out.println(fpr.getPrimaryBaseSequence());
-
             SAMRecord sr = constructSAMRecord(rr, fpr, sfh, RUN_BARCODE);
             sfw.addAlignment(sr);
         }