From: martinahansen <martinahansen@74ccb610-7750-0410-82ae-013aeee3265d>
Date: Tue, 13 Mar 2012 09:58:04 +0000 (+0000)
Subject: addid missing S_END to sam.rb
X-Git-Url: https://git.donarmstrong.com/?a=commitdiff_plain;h=38edc546092d27f1fe693f2c9157029f39d5d6b8;p=biopieces.git

addid missing S_END to sam.rb

git-svn-id: http://biopieces.googlecode.com/svn/trunk@1767 74ccb610-7750-0410-82ae-013aeee3265d
---

diff --git a/code_ruby/lib/maasha/sam.rb b/code_ruby/lib/maasha/sam.rb
index d718627..ba9ffb0 100644
--- a/code_ruby/lib/maasha/sam.rb
+++ b/code_ruby/lib/maasha/sam.rb
@@ -63,6 +63,7 @@ class Sam < Filesys
     bp[:STRAND]   = sam[:FLAG].revcomp? ? '-' : '+'
     bp[:S_ID]     = sam[:RNAME]
     bp[:S_BEG]    = sam[:POS]
+    bp[:S_END]    = sam[:POS] + sam[:SEQ].length - 1
     bp[:MAPQ]     = sam[:MAPQ]
     bp[:CIGAR]    = sam[:CIGAR].to_s