[BioRuby-cvs] bioruby/lib/bio/io flatfile.rb,1.52,1.53

[Naohisa Goto]

Update of /home/repository/bioruby/bioruby/lib/bio/io
In directory dev.open-bio.org:/tmp/cvs-serv20269/lib/bio/io

Modified Files:
	flatfile.rb 
Log Message:
Added file format autodetection support for T-COFFEE clustal format.


Index: flatfile.rb
===================================================================
RCS file: /home/repository/bioruby/bioruby/lib/bio/io/flatfile.rb,v
retrieving revision 1.52
retrieving revision 1.53
diff -C2 -d -r1.52 -r1.53
*** flatfile.rb	14 Dec 2006 19:52:53 -0000	1.52
--- flatfile.rb	15 Dec 2006 16:54:25 -0000	1.53
***************
*** 1181,1186 ****
              /^RESIDUE +.+ +\d+\s*$/ ],
  
!           clustal = RuleRegexp[ 'Bio::ClustalW::Report',
!           /^CLUSTAL .*\(.*\).*sequence +alignment/ ],
  
            gcg_msf = RuleRegexp[ 'Bio::GCG::Msf',
--- 1181,1187 ----
              /^RESIDUE +.+ +\d+\s*$/ ],
  
!           clustal = RuleRegexp2[ 'Bio::ClustalW::Report',
!           /^CLUSTAL .*\(.*\).*sequence +alignment/,
!           /^CLUSTAL FORMAT for T-COFFEE/ ],
  
            gcg_msf = RuleRegexp[ 'Bio::GCG::Msf',