Revert "Bug fix for RR: don't let the softclip start position be less…

… than 1" this introduced a bug in reduce reads by de-activating it's hard clipping of the out of bounds soft-clips (specially in the MT). DEV-322 #resolve #time 4m This reverts commit 42acfd9.
broadgsa · Dec 12, 2012 · f5b22ba · f5b22ba
1 parent bcbeeb4
commit f5b22ba
Showing 1 changed file with 0 additions and 3 deletions.
diff --git a/public/java/src/org/broadinstitute/sting/utils/sam/GATKSAMRecord.java b/public/java/src/org/broadinstitute/sting/utils/sam/GATKSAMRecord.java
@@ -397,9 +397,6 @@ public int getSoftStart() {
                 else if (op != CigarOperator.HARD_CLIP)
                     break;
             }
-
-            if ( softStart < 1 )
-                softStart = 1;
         }
         return softStart;
     }