Immediate, obvious bug fix to avoid blowing up on unmapped reads

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4788 348d0f76-0448-11de-a6fe-93d51630548a

java/src/org/broadinstitute/sting/utils/BAQ.java

@@ -463,6 +463,8 @@ public class BAQ {
         if ( DEBUG ) System.out.printf("BAQ %s read %s%n", calculationType, read.getReadName());
         if ( calculationType == Mode.NONE ) { // we don't want to do anything
             ; // just fall though
+        } else if ( read.getReadUnmappedFlag() ) {
+            ; // just fall through
         } else if ( calculationType == Mode.USE_TAG_ONLY ) {
             calcBAQFromTag(read, true, true);
         } else {