From: martinahansen <martinahansen@74ccb610-7750-0410-82ae-013aeee3265d>
Date: Thu, 24 Oct 2013 09:25:12 +0000 (+0000)
Subject: fixed Seq object creation in sff.rb
X-Git-Url: https://git.donarmstrong.com/?a=commitdiff_plain;h=9e9c2a1c2e56f8a0b38e274411d76c89478bef42;p=biopieces.git

fixed Seq object creation in sff.rb

git-svn-id: http://biopieces.googlecode.com/svn/trunk@2247 74ccb610-7750-0410-82ae-013aeee3265d
---

diff --git a/code_ruby/lib/maasha/sff.rb b/code_ruby/lib/maasha/sff.rb
index 6b277e3..cabedf6 100644
--- a/code_ruby/lib/maasha/sff.rb
+++ b/code_ruby/lib/maasha/sff.rb
@@ -219,7 +219,11 @@ class Read
 
   # Method that converts a Read object's data to a Seq object.
   def to_seq
-    Seq.new(self.name, self.bases, nil, self.quality_scores.map { |i| (i += Seq::SCORE_BASE).chr }.join("") )
+    Seq.new(
+      seq_name: self.name,
+      seq: self.bases, 
+      qual: self.quality_scores.map { |i| (i += Seq::SCORE_BASE).chr }.join("")
+    )
   end
 
   # Method that soft masks the sequence (i.e. lowercases sequence) according to