From: martinahansen <martinahansen@74ccb610-7750-0410-82ae-013aeee3265d>
Date: Fri, 13 Jul 2012 13:54:49 +0000 (+0000)
Subject: made orf finder case insensitive
X-Git-Url: https://git.donarmstrong.com/?a=commitdiff_plain;h=d5e42588f9259db7d12240178e266483ab1beef7;p=biopieces.git

made orf finder case insensitive

git-svn-id: http://biopieces.googlecode.com/svn/trunk@1868 74ccb610-7750-0410-82ae-013aeee3265d
---

diff --git a/code_ruby/lib/maasha/seq.rb b/code_ruby/lib/maasha/seq.rb
index 8592cdc..b5f07f6 100644
--- a/code_ruby/lib/maasha/seq.rb
+++ b/code_ruby/lib/maasha/seq.rb
@@ -512,8 +512,8 @@ class Seq
     orfs    = []
     pos_beg = 0
 
-    regex_start = Regexp.new(start_codons.join('|'))
-    regex_stop  = Regexp.new(stop_codons.join('|'))
+    regex_start = Regexp.new(start_codons.join('|'), true)
+    regex_stop  = Regexp.new(stop_codons.join('|'), true)
 
     while pos_beg and pos_beg < self.length - size_min
       if pos_beg = self.seq.index(regex_start, pos_beg)