[BioRuby-cvs] bioruby/lib/bio/data na.rb,0.12,0.13

[Katayama Toshiaki]

Update of /home/repository/bioruby/bioruby/lib/bio/data
In directory pub.open-bio.org:/tmp/cvs-serv6388/lib/bio/data

Modified Files:
	na.rb 
Log Message:
* Bio::Sequence::NA#to_re for RNA sequence is fixed to act same as bioruby-0.6.2
  (the change introduced in bioruby-0.6.3 is not tested enough).


Index: na.rb
===================================================================
RCS file: /home/repository/bioruby/bioruby/lib/bio/data/na.rb,v
retrieving revision 0.12
retrieving revision 0.13
diff -C2 -d -r0.12 -r0.13
*** na.rb	8 Aug 2005 12:57:24 -0000	0.12
--- na.rb	10 Aug 2005 12:53:02 -0000	0.13
***************
*** 124,128 ****
        end
  
!       def to_re(seq)
          str = ""
          seq.to_s.downcase.each_byte do |base|
--- 124,128 ----
        end
  
!       def to_re(seq, rna = false)
          str = ""
          seq.to_s.downcase.each_byte do |base|
***************
*** 132,135 ****
--- 132,138 ----
              str += "."
            end
+         end
+         if rna
+           str.tr!("t", "u")
          end
          Regexp.new(str)