From 0a6f2660b42a223c95b98bad8b06e851b79e470e Mon Sep 17 00:00:00 2001
From: Mustafa Ozdal <mozdal@sparkdmz1.spark0.intel.com>
Date: Thu, 7 Aug 2014 13:50:42 -0700
Subject: [PATCH] Fixed a bug related to the score returned.

---
 ed_intrav.cpp | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/ed_intrav.cpp b/ed_intrav.cpp
index 942fd42..49b1fd6 100644
--- a/ed_intrav.cpp
+++ b/ed_intrav.cpp
@@ -306,8 +306,8 @@ DIST_TYPE edit_dist(uint8_t* refSeq, int refLen, uint8_t* querySeq, int queryLen
 #endif
       alignedQLenLow = alignedQLenHigh = queryLen ;
       alignedRLenLow = alignedRLenHigh = queryLen ;
-      maxScoreLow = queryLen - hdist - hdist * 6 ;
-      maxScoreHigh = queryLen - hdist - hdist * 4 ;
+      maxScoreLow = initScore + queryLen - hdist - hdist * 6 ;
+      maxScoreHigh = initScore + queryLen - hdist - hdist * 4 ;
 
       return hdist ;
     }