From: martinahansen <martinahansen@74ccb610-7750-0410-82ae-013aeee3265d>
Date: Thu, 5 Dec 2013 14:16:58 +0000 (+0000)
Subject: fixed qual scores in sam.rb
X-Git-Url: https://git.donarmstrong.com/?p=biopieces.git;a=commitdiff_plain;h=5479490038e34904c92cdd92b1c47034b7452e53

fixed qual scores in sam.rb

git-svn-id: http://biopieces.googlecode.com/svn/trunk@2275 74ccb610-7750-0410-82ae-013aeee3265d
---

diff --git a/code_ruby/lib/maasha/sam.rb b/code_ruby/lib/maasha/sam.rb
index cf5acda..ba192c3 100644
--- a/code_ruby/lib/maasha/sam.rb
+++ b/code_ruby/lib/maasha/sam.rb
@@ -76,7 +76,7 @@ class Sam < Filesys
     bp[:SEQ]      = sam[:SEQ].seq
 
     unless sam[:SEQ].qual.nil?
-      bp[:SCORES] = sam[:SEQ].qual
+      bp[:SCORES] = sam[:SEQ].qual_convert!(:base_64, :base_33).qual
     end
 
     if sam[:NM] and sam[:NM].to_i > 0