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Contents
#
# = bio/db/embl/embl_to_biosequence.rb - Bio::EMBL to Bio::Sequence adapter module
#
# Copyright:: Copyright (C) 2008
# Naohisa Goto <ng@bioruby.org>,
# License:: The Ruby License
#
# $Id:$
#
require 'bio/sequence'
require 'bio/sequence/adapter'
# Internal use only. Normal users should not use this module.
#
# Bio::EMBL to Bio::Sequence adapter module.
# It is internally used in Bio::EMBL#to_biosequence.
#
module Bio::Sequence::Adapter::EMBL
extend Bio::Sequence::Adapter
private
def_biosequence_adapter :seq
def_biosequence_adapter :id_namespace do |orig|
'EMBL'
end
def_biosequence_adapter :entry_id
def_biosequence_adapter :primary_accession do |orig|
orig.accessions[0]
end
def_biosequence_adapter :secondary_accessions do |orig|
orig.accessions[1..-1] || []
end
def_biosequence_adapter :molecule_type
def_biosequence_adapter :data_class
def_biosequence_adapter :definition, :description
def_biosequence_adapter :topology
def_biosequence_adapter :date_created
def_biosequence_adapter :date_modified
def_biosequence_adapter :release_created
def_biosequence_adapter :release_modified
def_biosequence_adapter :entry_version
def_biosequence_adapter :division
def_biosequence_adapter :sequence_version, :version
def_biosequence_adapter :keywords
def_biosequence_adapter :species
def_biosequence_adapter :classification
#--
# unsupported yet
# def_biosequence_adapter :organelle do |orig|
# orig.fetch('OG')
# end
#++
def_biosequence_adapter :references
def_biosequence_adapter :features
def_biosequence_adapter :comments, :cc
def_biosequence_adapter :dblinks
end #module Bio::Sequence::Adapter::EMBL
Version data entries
29 entries across 29 versions & 4 rubygems