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Contents
#
# = bio/db/genbank/genpept.rb - GenPept database class
#
# Copyright:: Copyright (C) 2002-2004 Toshiaki Katayama <k@bioruby.org>
# License:: The Ruby License
#
# $Id: genpept.rb,v 1.12 2007/04/05 23:35:40 trevor Exp $
#
require 'bio/db/genbank/common'
require 'bio/db/genbank/genbank'
module Bio
class GenPept < NCBIDB
include Bio::NCBIDB::Common
# LOCUS
class Locus
def initialize(locus_line)
@entry_id = locus_line[12..27].strip
@length = locus_line[29..39].to_i
@circular = locus_line[55..62].strip # always linear
@division = locus_line[63..66].strip
@date = locus_line[68..78].strip
end
attr_accessor :entry_id, :length, :circular, :division, :date
end
def locus
@data['LOCUS'] ||= Locus.new(get('LOCUS'))
end
def entry_id; locus.entry_id; end
def length; locus.length; end
def circular; locus.circular; end
def division; locus.division; end
def date; locus.date; end
# ORIGIN
def seq
unless @data['SEQUENCE']
origin
end
Bio::Sequence::AA.new(@data['SEQUENCE'])
end
alias aaseq seq
alias aalen length
def seq_len
seq.length
end
# DBSOURCE
def dbsource
get('DBSOURCE')
end
end # GenPept
end # Bio
Version data entries
33 entries across 33 versions & 5 rubygems