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Size: 870 Bytes
Versions: 29
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Contents
#
# = bio/shell/plugin/obda.rb - plugin for OBDA
#
# Copyright:: Copyright (C) 2005
# Toshiaki Katayama <k@bioruby.org>
# License:: The Ruby License
#
# $Id: obda.rb,v 1.10 2007/04/05 23:45:11 trevor Exp $
#
module Bio::Shell
private
def obda
@obda ||= Bio::Registry.new
end
def obdaentry(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?
yield entry
else
return entry
end
end
def obdadbs
result = obda.databases.map {|db| db.database}
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)
return result
end
end
Version data entries
29 entries across 29 versions & 6 rubygems