[BioRuby-ja] BioRuby 1.2.0 is released

[Toshiaki Katayama]

Hi all,

I just released the BioRuby 1.2.0 at http://bioruby.org/archive/bioruby-1.2.0.tar.gz

  http://bioruby.org/
  http://bioruby.org/rdoc/
  http://rubyforge.org/projects/bioruby/
  http://raa.ruby-lang.org/project/bioruby/

I also put RubyGems pacakge at RubyForge as always.

  % sudo gem update bio

Here is a brief summary of updates snipped from the ChangeLog file.

        * BioRuby 1.2.0 released

          * BioRuby shell is improved
            * file save functionality is fixed
            * deprecated require_gem is changed to gem to suppress warnings
            * deprecated end_form_tag is rewrited to suppress warnings
            * images for Rails shell are separated to the bioruby directory
            * spinner is shown during the evaluation
            * background image in the textarea is removed for the visibility
          * Bio::Blast is fixed to parse -m 8 formatted result correctly
          * Bio::PubMed is rewrited to enhance its functionality
            * e.g. 'rettype' => 'count' and 'retmode' => 'xml' are available
          * Bio::FlatFile is improved to accept recent MEDLINE format
          * Bio::KEGG::COMPOUND is enhanced to utilize REMARK field
          * Bio::KEGG::API is fixed to skip filter when the value is Fixnum
          * A number of minor bug fixes

Hope you enjoy.

Regards,
Toshiaki Katayama
--
Human Genome Center, Institute of Medical Science, University of Tokyo
4-6-1 Shirokanedai, Minato-ku, Tokyo 108-0071, Japan
tel://+81-3-5449-5614
fax://+81-3-5449-5434
http://www.hgc.jp/ (Human Genome Center)
http://bioruby.org/ (BioRuby project)
http://das.hgc.jp/ (KEGG DAS)
http://www.genome.jp/kegg/soap/ (KEGG API)