working on pair.rb

git-svn-id: http://biopieces.googlecode.com/svn/trunk@1921 74ccb610-7750-0410-82ae-013aeee3265d

diff --git a/code_ruby/lib/maasha/align/pair.rb b/code_ruby/lib/maasha/align/pair.rb
index c9486733953fe2c781250781dd9f52551e5a7d21..6e2dcadf36f51e1ef7fc5ebbbe6f29ceddc73299 100644 (file)
--- a/code_ruby/lib/maasha/align/pair.rb
+++ b/code_ruby/lib/maasha/align/pair.rb
@@ -279,14 +279,14 @@ module PairAlign
         s_gaps += diff.abs
       end
 
-      @matches[1 .. -1].each do |match|
-        diff = (q_gaps + match.q_beg) - (s_gaps + match.s_beg)
+      @matches[1 .. -1].each do |m|
+        diff = (q_gaps + m.q_beg) - (s_gaps + m.s_beg)
 
         if diff < 0
-          @q_entry.seq.insert(match.q_beg + q_gaps, "-" * diff.abs)
+          @q_entry.seq.insert(m.q_beg + q_gaps, "-" * diff.abs)
           q_gaps += diff.abs
         elsif diff > 0
-          @s_entry.seq.insert(match.s_beg + s_gaps, "-" * diff.abs)
+          @s_entry.seq.insert(m.s_beg + s_gaps, "-" * diff.abs)
           s_gaps += diff.abs
         end
       end

diff --git a/code_ruby/test/maasha/test_math_aux.rb b/code_ruby/test/maasha/test_math_aux.rb
index 1cc37908b98ab86f9ae2d2e5c7dd46a01ee2f1d0..29a0facfd49cc4baa001627ae230455222d17eb0 100755 (executable)
--- a/code_ruby/test/maasha/test_math_aux.rb
+++ b/code_ruby/test/maasha/test_math_aux.rb
@@ -38,3 +38,4 @@ class MathTest < Test::Unit::TestCase
     assert_equal(1.5, Math.dist_point2line( 3, 3, 0, 4.5, 5, 4.5))
   end
 end
+