[BioRuby-cvs] bioruby/test/unit/bio/sequence test_dblink.rb, NONE, 1.1.2.1

[Naohisa Goto]

Update of /home/repository/bioruby/bioruby/test/unit/bio/sequence
In directory dev.open-bio.org:/tmp/cvs-serv21001/test/unit/bio/sequence

Added Files:
      Tag: BRANCH-biohackathon2008
	test_dblink.rb 
Log Message:
New class Bio::Sequence::DBLink are added to store IDs and database names
together in an object.


--- NEW FILE: test_dblink.rb ---
#
# test/unit/bio/sequence/test_dblink.rb - Unit test for Bio::Sequencce::DBLink
#
# Copyright::  Copyright (C) 2008 Naohisa Goto <ng at bioruby.org>
# License::    The Ruby License
#
#  $Id: test_dblink.rb,v 1.1.2.1 2008/06/17 15:44:22 ngoto Exp $
#

require 'pathname'
libpath = Pathname.new(File.join(File.dirname(__FILE__), ['..'] * 4, 'lib')).cleanpath.to_s
$:.unshift(libpath) unless $:.include?(libpath)

require 'test/unit'
require 'bio/sequence'
require 'bio/sequence/dblink'

module Bio
  class TestSequenceDBLink < Test::Unit::TestCase
    def setup
      @xref = Bio::Sequence::DBLink.new('EMBL', 'Z14088', 'CAA78466.1',
                                        '-', 'mRNA')
    end

    def test_database
      assert_equal('EMBL', @xref.database)
    end

    def test_id
      assert_equal('Z14088', @xref.id)
    end

    def test_secondary_ids
      assert_equal([ 'CAA78466.1', '-', 'mRNA' ],
                   @xref.secondary_ids)
    end
  end #class

  class TestSequenceDBLinkClassMethods < Test::Unit::TestCase
    def test_parse_embl_DR_line
      str = 'DR   EPD; EP07077; HS_HBG1.'
      xref = Bio::Sequence::DBLink.parse_embl_DR_line(str)
      assert_equal('EPD', xref.database)
      assert_equal('EP07077', xref.id)
      assert_equal([ 'HS_HBG1' ], xref.secondary_ids)
    end

    def test_parse_uniprot_DR_line
      str = 'DR   EMBL; Z14088; CAA78466.1; -; mRNA.'
      xref = Bio::Sequence::DBLink.parse_uniprot_DR_line(str)
      assert_equal('EMBL', xref.database)
      assert_equal('Z14088', xref.id)
      assert_equal([ 'CAA78466.1', '-', 'mRNA' ],
                   xref.secondary_ids)
      end
  end #class

end #module Bio