[BioRuby-cvs] bioruby/lib/bio/data na.rb,0.19,0.20

[Katayama Toshiaki]

Update of /home/repository/bioruby/bioruby/lib/bio/data
In directory pub.open-bio.org:/tmp/cvs-serv9682/lib/bio/data

Modified Files:
	na.rb 
Log Message:
* to_re method is fixed to convert input sequence to downcase and not to
  change original sequence itself.


Index: na.rb
===================================================================
RCS file: /home/repository/bioruby/bioruby/lib/bio/data/na.rb,v
retrieving revision 0.19
retrieving revision 0.20
diff -C2 -d -r0.19 -r0.20
*** na.rb	10 Dec 2005 18:14:22 -0000	0.19
--- na.rb	8 Feb 2006 12:15:42 -0000	0.20
***************
*** 4,8 ****
  # Copyright::	Copyright (C) 2001, 2005
  #		Toshiaki Katayama <k at bioruby.org>
! # License::	LGPL
  #
  # $Id$
--- 4,8 ----
  # Copyright::	Copyright (C) 2001, 2005
  #		Toshiaki Katayama <k at bioruby.org>
! # License::	Ruby's
  #
  # $Id$
***************
*** 39,60 ****
  #   p Bio::NucleicAcid.weight('atgc')
  #
- #--
- #
- #  This library is free software; you can redistribute it and/or
- #  modify it under the terms of the GNU Lesser General Public
- #  License as published by the Free Software Foundation; either
- #  version 2 of the License, or (at your option) any later version.
- #
- #  This library is distributed in the hope that it will be useful,
- #  but WITHOUT ANY WARRANTY; without even the implied warranty of
- #  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
- #  Lesser General Public License for more details.
- #
- #  You should have received a copy of the GNU Lesser General Public
- #  License along with this library; if not, write to the Free Software
- #  Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307  USA
- #
- #++
- #
  
  module Bio
--- 39,42 ----
***************
*** 177,181 ****
  
      def to_re(seq, rna = false)
!       str = seq.to_s
        str.gsub!(/[^atgcu]/) { |base|
          NAMES[base] || '.'
--- 159,163 ----
  
      def to_re(seq, rna = false)
!       str = seq.to_s.downcase
        str.gsub!(/[^atgcu]/) { |base|
          NAMES[base] || '.'