[BioRuby-cvs] bioruby ChangeLog,1.42,1.43

[Katayama Toshiaki]

Update of /home/repository/bioruby/bioruby
In directory pub.open-bio.org:/tmp/cvs-serv31387

Modified Files:
	ChangeLog 
Log Message:
* added changes on Bio::Sequence and BioRuby shell plugins


Index: ChangeLog
===================================================================
RCS file: /home/repository/bioruby/bioruby/ChangeLog,v
retrieving revision 1.42
retrieving revision 1.43
diff -C2 -d -r1.42 -r1.43
*** ChangeLog	4 Nov 2005 17:30:35 -0000	1.42
--- ChangeLog	5 Nov 2005 10:20:54 -0000	1.43
***************
*** 1,2 ****
--- 1,27 ----
+ 2005-11-05  Toshiaki Katayama <k at bioruby.org>
+ 
+ 	* lib/bio/sequence.rb
+ 
+ 	  Bio::Sequence.auto(str) method is added which auto detect the
+ 	  molecular type of the string and then returns the
+ 	  Bio::Sequence::NA or Bio::Sequence::AA object.
+ 	  
+ 	  Bio::Sequence#blast and Bio::Sequence#fasta methods are removed.
+ 
+ 	* lib/bio/shell/plugin/codon.rb
+ 
+ 	  Newly added plugin to treat codon table.
+ 	  ColoredCodonTable is ported from the codontable.rb
+ 
+ 2005-11-01  Toshiaki Katayama <k at bioruby.org>
+ 
+ 	* bin/bioruby, lib/bio/shell/
+ 
+ 	  All methods are changed to private methods to avoid adding them
+ 	  in top level binding, which caused many unexpected behaviors,
+ 	  as adviced by Koichi Sasada.
+ 
+ 	  The MIDI plugin is now able to select musical scales.
+ 	
  2005-10-23  Toshiaki Katayama <k at bioruby.org>