[BioRuby-cvs] bioruby/lib/bio/shell/plugin obda.rb,1.4,1.5

[Katayama Toshiaki]

Update of /home/repository/bioruby/bioruby/lib/bio/shell/plugin
In directory pub.open-bio.org:/tmp/cvs-serv8554/bio/shell/plugin

Modified Files:
	obda.rb 
Log Message:
* obdadbs, bioflat methods are added


Index: obda.rb
===================================================================
RCS file: /home/repository/bioruby/bioruby/lib/bio/shell/plugin/obda.rb,v
retrieving revision 1.4
retrieving revision 1.5
diff -C2 -d -r1.4 -r1.5
*** obda.rb	24 Nov 2005 19:32:49 -0000	1.4
--- obda.rb	28 Nov 2005 02:09:52 -0000	1.5
***************
*** 42,45 ****
--- 42,49 ----
    def obda_get_entry(dbname, entry_id)
      db = obda.get_database(dbname)
+     unless db
+       warn "Error: No such database (#{dbname})"
+       return
+     end
      entry = db.get_by_id(entry_id)
      if block_given?
***************
*** 51,55 ****
    end
  
! end
  
  
--- 55,71 ----
    end
  
!   def obdadbs
!     result = obda.databases.map {|db| db.database}
!     display result
!     return result
!   end
  
+   def biofetch(db, id, style = 'raw', format = 'default')
+     serv = Bio::Fetch.new("http://www.ebi.ac.uk/cgi-bin/dbfetch")
+     result = serv.fetch(db, id, style, format)
+     display result
+     return result
+   end
+ 
+ end