[BioRuby] BioRuby 1.4.3 released

[Naohisa GOTO]

Hi, all,

We are pleased to announce the release of BioRuby 1.4.3.
This new release fixes bugs existed in 1.4.2 and improves
portability on JRuby and Rubinius.

Tar.gz file: http://bioruby.org/archive/bioruby-1.4.3.tar.gz
Gem file:  http://bioruby.org/archive/gems/bio-1.4.3.gem

We also put RubyGems pacakge at RubyGems.org and RubyForge (*).
(* Files on RubyForge will soon be available.)

You can easily install by using RubyGems. First, check the
version number by using search command:
 % gem search --remote bio
and find “bio (1.4.3)” in the list. Then,
 % sudo gem install bio

Here is a brief summary of changes.

* Bio::KEGG::KGML bug fixes and new class Bio::KEGG::KGML::Graphics
  for storing a graphics element.
* Many failures and errors running on JRuby and Rubinius are resolved.
* Strange behavior related with “circular require” is fixed.
* Fixed: Genomenet remote BLAST does not work.
* Fixed: Bio::NucleicAcid.to_re(“s”) typo.
* Fixed: Bio::EMBL#os raises RuntimeError.
* Fixed: bin/bioruby: Failed to save object with error message
  "can’t convert Symbol into String" on Ruby 1.9.

In addition, many changes have been made, including incompatible
changes. For more information, see RELEASE_NOTES.rdoc and
ChangeLog.

Acknowledgments: Thanks to all persons reporting issues and/or
submitting patches.

Hope you enjoy.

P.S. We are having trouble when updating http://bioruby.org/
and http://bioruby.open-bio.org/ webpages now, possibly because
of file/directory permissions in open-bio.org server.

-- 
Naohisa Goto
ng at bioruby.org / ngoto at gen-info.osaka-u.ac.jp