changed upper/lower case output in assemble_pairs

[biopieces.git] / code_ruby / lib / maasha / seq / assemble.rb

diff --git a/code_ruby/lib/maasha/seq/assemble.rb b/code_ruby/lib/maasha/seq/assemble.rb
index 7b02d03a61a827782a802ade399ebd5c378105cb..016322727cf15eb824f9e3f0518cca9b2ecb0241 100644 (file)
--- a/code_ruby/lib/maasha/seq/assemble.rb
+++ b/code_ruby/lib/maasha/seq/assemble.rb
@@ -64,8 +64,9 @@ class Assemble
           entry_overlap = @entry1[-1 * overlap .. -1]
         end
 
-        entry_left.seq.upcase!
-        entry_right.seq.upcase!
+        entry_left.seq.downcase!
+        entry_overlap.seq.upcase!
+        entry_right.seq.downcase!
         entry_merged          = entry_left + entry_overlap + entry_right
         entry_merged.seq_name = @entry1.seq_name + ":overlap=#{overlap}:hamming=#{hamming_dist}"