[BioRuby-cvs] bioruby/lib/bio/data na.rb,0.18,0.19

[Katayama Toshiaki]

Update of /home/repository/bioruby/bioruby/lib/bio/data
In directory pub.open-bio.org:/tmp/cvs-serv14128/lib/bio/data

Modified Files:
	na.rb 
Log Message:
* to_re method is improved for the efficiency especially for longer sequence


Index: na.rb
===================================================================
RCS file: /home/repository/bioruby/bioruby/lib/bio/data/na.rb,v
retrieving revision 0.18
retrieving revision 0.19
diff -C2 -d -r0.18 -r0.19
*** na.rb	25 Nov 2005 15:59:29 -0000	0.18
--- na.rb	10 Dec 2005 18:14:22 -0000	0.19
***************
*** 177,188 ****
  
      def to_re(seq, rna = false)
!       str = ""
!       seq.to_s.downcase.each_byte do |base|
!         if re = NAMES[base.chr]
!           str += re
!         else
!           str += "."
!         end
!       end
        if rna
          str.tr!("t", "u")
--- 177,184 ----
  
      def to_re(seq, rna = false)
!       str = seq.to_s
!       str.gsub!(/[^atgcu]/) { |base|
!         NAMES[base] || '.'
!       }
        if rna
          str.tr!("t", "u")