[BioRuby-cvs] bioruby ChangeLog,1.65,1.66

[Naohisa Goto]

Update of /home/repository/bioruby/bioruby
In directory dev.open-bio.org:/tmp/cvs-serv20210

Modified Files:
	ChangeLog 
Log Message:
documents are added


Index: ChangeLog
===================================================================
RCS file: /home/repository/bioruby/bioruby/ChangeLog,v
retrieving revision 1.65
retrieving revision 1.66
diff -C2 -d -r1.65 -r1.66
*** ChangeLog	10 Jul 2007 10:44:47 -0000	1.65
--- ChangeLog	16 Jul 2007 12:44:04 -0000	1.66
***************
*** 1,2 ****
--- 1,32 ----
+ 2007-07-16  Naohisa Goto <ng at bioruby.org>
+ 
+ 	* lib/bio/mafft/report.rb
+ 
+ 	For generic multi-fasta formatted sequence alignment,
+ 	Bio::Alignment::MultiFastaFormat is newly added based on
+ 	Bio::MAFFT::Report class, and Bio::MAFFT::Report is
+ 	changed to inherit the new class.
+ 	Tests are added in test/unit/bio/appl/mafft/test_report.rb.
+ 
+ 	* lib/bio/alignment.rb
+ 
+ 	New modules and classes Bio::Alignment::FactoryTemplate::* are added.
+ 	They are used by following three new classes.
+ 	
+ 	* lib/bio/appl/muscle.rb
+ 	* lib/bio/appl/probcons.rb
+ 	* lib/bio/appl/tcoffee.rb
+ 
+ 	New classess Bio::Muscle, Bio::Probcons, and Bio::Tcoffee are added
+ 	for MUSCLE, ProbCons, and T-Coffee multiple alignment programs.
+ 	Contributed by Jeffrey Blakeslee and colleagues.
+ 
+ 	* lib/bio/appl/clustalw.rb
+ 	* lib/bio/appl/mafft.rb
+ 
+ 	Interfaces of Bio::ClustalW and Bio::MAFFT are added/modified
+ 	to follow Bio::Alignment::FactoryTemplate (but not yet changed to
+ 	use it).
+ 
  2007-07-09  Naohisa Goto <ng at bioruby.org>