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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 42acfd9d0bccfc0411944c342a5b889f5feae736.
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1 parent bcbeeb4 commit f5b22ba10bac5b4d51adac3052ad33063aa0e25b @MauricioCarneiro MauricioCarneiro committed Dec 12, 2012
Showing with 0 additions and 3 deletions.
  1. +0 −3 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;
}

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