BioRuby 1.3.0 is released

Hi all,

We are pleased to announce the release of BioRuby 1.3.0.

The archive is available at:

http://bioruby.org/archive/bioruby-1.3.0.tar.gz

Web page:

http://bioruby.org/

http://bioruby.open-bio.org/

API documentation:

http://bioruby.org/rdoc/

Bug report:

http://rubyforge.org/projects/bioruby/

(Updating of http://bioruby.rubyforge.org/ is still
in progress. Please wait for a moment.)

We also put RubyGems pacakge at RubyForge as always.
You can easily install by using RubyGems.
% sudo gem install bio

You can also obtain bioruby gem file from bioruby.org.

http://bioruby.org/archive/gems/bio-1.3.0.gem

Here is a brief summary of changes.

* Support for GenBank/EMBL formatted sequence output with
improvements of Bio::Sequence.
* BioSQL support is completely rewritten by using ActiveRecord.
* Bio::Blast bug fixes and improvements.
* Bio::GFF::GFF2 and Bio::GFF::GFF3 improvements.
* Bio::Locations improvements.
* New classes and modules.
* Bio::Hinv
* Bio::NCBI::REST
* Bio::PAML::Codeml
* Bio::TogoWS::REST

In addition, many changes have been made, including incompatible changes.
For more information, you can see summary of changes at

http://github.com/bioruby/bioruby/blob/e04da7a1e709195d0b3e957491e76e50af32e96d/doc/Changes-1.3.rdoc

and ChangeLog at

http://github.com/ngoto/bioruby/blob/27a31e1fa7e916ee2af09eeba992eea5a3ca6fbd/ChangeLog

In ChangeLog, the release date is described as 20 Feb 2009, which
indicates frozen date of the archive. I’m sorry I took much time
for the final check of the archive contents.

Hope you enjoy.

Naohisa Goto

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