diff --git a/public/java/src/org/broadinstitute/sting/utils/sam/GATKSAMRecord.java b/public/java/src/org/broadinstitute/sting/utils/sam/GATKSAMRecord.java index 6c7a162f8..9fdb48b34 100755 --- 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 class GATKSAMRecord extends BAMRecord { else if (op != CigarOperator.HARD_CLIP) break; } - - if ( softStart < 1 ) - softStart = 1; } return softStart; }