[BioRuby-cvs] bioruby/test/unit/bio/db/embl test_uniprot.rb, 1.1, 1.2

[Mitsuteru C. Nakao]

Update of /home/repository/bioruby/bioruby/test/unit/bio/db/embl
In directory pub.open-bio.org:/tmp/cvs-serv16340/test/unit/bio/db/embl

Modified Files:
	test_uniprot.rb 
Log Message:
* Fixed the order of arguments of assert_equal.


Index: test_uniprot.rb
===================================================================
RCS file: /home/repository/bioruby/bioruby/test/unit/bio/db/embl/test_uniprot.rb,v
retrieving revision 1.1
retrieving revision 1.2
diff -C2 -d -r1.1 -r1.2
*** test_uniprot.rb	27 Oct 2005 09:28:43 -0000	1.1
--- test_uniprot.rb	23 Nov 2005 10:12:09 -0000	1.2
***************
*** 41,63 ****
      end
      def test_id_line_entry_name
!       assert_equal(@obj.id_line('ENTRY_NAME'), 'P53_HUMAN')
      end   
      def test_id_line_data_class
!       assert_equal(@obj.id_line('DATA_CLASS'), 'STANDARD')
      end
      def test_id_line_molecule_type
!       assert_equal(@obj.id_line('MOLECULE_TYPE'), 'PRT')
      end
      def test_id_line_sequence_length
!       assert_equal(@obj.id_line('SEQUENCE_LENGTH'), 393)
      end
  
  
      def test_ac
!       assert_equal(@obj.ac, [])
!       assert_equal(@obj.acccessions, [])
      end
      def test_accession
!       assert_equal(@obj.accession, '')
      end
  
--- 41,63 ----
      end
      def test_id_line_entry_name
!       assert_equal('P53_HUMAN', @obj.id_line('ENTRY_NAME'))
      end   
      def test_id_line_data_class
!       assert_equal('STANDARD', @obj.id_line('DATA_CLASS'))
      end
      def test_id_line_molecule_type
!       assert_equal('PRT', @obj.id_line('MOLECULE_TYPE'))
      end
      def test_id_line_sequence_length
!       assert_equal(393, @obj.id_line('SEQUENCE_LENGTH'))
      end
  
  
      def test_ac
!       assert_equal([], @obj.ac)
!       assert_equal([], @obj.acccessions)
      end
      def test_accession
!       assert_equal('', @obj.accession)
      end
  
***************
*** 67,95 ****
  
      def test_protein_name
!       assert_equal(@obj.protein_name, "Cellular tumor antigen p53")
      end
  
      def test_synonyms
!       assert_equal(@obj.synonyms, ["Tumor suppressor p53", "Phosphoprotein p53", "Antigen NY-CO-13"])
      end
  
      def test_gn
!       assert_equal(@obj.gn, [{:orfs=>[], :synonyms=>["P53"], :name=>"TP53", :loci=>[]}])
      end
      def test_gn_uniprot_parser
        gn_uniprot_data = ''
!       assert_equal(@obj.instance_eval(gn_uniprot_parser(gn_uniprot_data)), '')
      end
  #     def test_gn_old_parser
  #       gn_old_data = ''
! #       assert_equal(@obj.instance_eval(gn_old_parser(gn_old_data)), '')
  #     end
  
      def test_gene_names
!       assert_equal(@obj.gene_names, ["TP53"])
      end
  
      def test_gene_name
!       assert_equal(@obj.gene_name, 'TP53')
      end
  
--- 67,95 ----
  
      def test_protein_name
!       assert_equal("Cellular tumor antigen p53", @obj.protein_name)
      end
  
      def test_synonyms
!       assert_equal(["Tumor suppressor p53", "Phosphoprotein p53", "Antigen NY-CO-13"], @obj.synonyms)
      end
  
      def test_gn
!       assert_equal([{:orfs=>[], :synonyms=>["P53"], :name=>"TP53", :loci=>[]}], @obj.gn)
      end
      def test_gn_uniprot_parser
        gn_uniprot_data = ''
!       assert_equal('', @obj.instance_eval(gn_uniprot_parser(gn_uniprot_data)))
      end
  #     def test_gn_old_parser
  #       gn_old_data = ''
! #       assert_equal('', @obj.instance_eval(gn_old_parser(gn_old_data)))
  #     end
  
      def test_gene_names
!       assert_equal(["TP53"], @obj.gene_names)
      end
  
      def test_gene_name
!       assert_equal('TP53', @obj.gene_name)
      end
  
***************
*** 97,105 ****
        assert(@obj.os)
      end
      def test_os_access
!       assert_equal(@obj.os(1), {'name' => '', 'os' => ''})
      end
      def test_os_access2
!       assert_equal(@obj.os[1], {})
      end
  
--- 97,107 ----
        assert(@obj.os)
      end
+ 
      def test_os_access
!       assert_equal({'name' => '', 'os' => ''}, @obj.os(1))
      end
+ 
      def test_os_access2
!       assert_equal({}, @obj.os[1])
      end
  
***************
*** 107,126 ****
      def test_cc
        data = ''
!       assert_equal(@obj.instance_eval(cc_scan_alternative_products(data)), '')
        data = ''
!       assert_equal(@obj.instance_eval(cc_scan_database(data)), '')
        data = ''
!       assert_equal(@obj.instance_eval(cc_scan_mass_spectorometry(data)), '')
  
!       assert_equal(@obj.cc, [])
      end
      def test_cc_database
!       assert_equal(@obj.cc('DATABASE'), [])
      end
      def test_cc_alternative_products
!       assert_equal(@obj.cc('ALTERNATIVE PRODUCTS'), {})
      end
      def test_cc_mass_spectrometry
!       assert_equal(@obj.cc('MASS SPECTROMETRY'), [])
      end
  
--- 109,128 ----
      def test_cc
        data = ''
!       assert_equal('', @obj.instance_eval(cc_scan_alternative_products(data)))
        data = ''
!       assert_equal('', @obj.instance_eval(cc_scan_database(data)))
        data = ''
!       assert_equal('', @obj.instance_eval(cc_scan_mass_spectorometry(data)))
  
!       assert_equal([], @obj.cc)
      end
      def test_cc_database
!       assert_equal([], @obj.cc('DATABASE'))
      end
      def test_cc_alternative_products
!       assert_equal({}, @obj.cc('ALTERNATIVE PRODUCTS'))
      end
      def test_cc_mass_spectrometry
!       assert_equal([], @obj.cc('MASS SPECTROMETRY'))
      end
  
***************
*** 133,137 ****
  END
        @obj.instance_eval('@orig["CC"] = "#{data}"')
!       assert_equal(@obj.cc('INTERACTION'), '')
      end
  
--- 135,139 ----
  END
        @obj.instance_eval('@orig["CC"] = "#{data}"')
!       assert_equal('', @obj.cc('INTERACTION'))
      end
  
***************
*** 143,167 ****
        assert(@obj.ft)
        name = 'DNA_BIND'
!       assert_equal(@obj.ft(name), [])
      end
  
      def test_sq_mw
        mw = 43653
!       assert_equal(@obj.sq('mw'), mw)
!       assert_equal(@obj.sq('molecular'), mw)
!       assert_equal(@obj.sq('weight'), mw)
      end
  
      def test_sq_len
        length = 393
!       assert_equal(@obj.sq('len'), length)
!       assert_equal(@obj.sq('length'), length)
!       assert_equal(@obj.sq('AA'), length)
      end
  
      def test_seq
        seq = 'MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPPVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSDSDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALPNNTSSSPQPKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD'
!       assert_equal(@obj.seq, seq)
!       assert_equal(@obj.aaseq, seq)
      end
    end
--- 145,169 ----
        assert(@obj.ft)
        name = 'DNA_BIND'
!       assert_equal([], @obj.ft(name))
      end
  
      def test_sq_mw
        mw = 43653
!       assert_equal(mw, @obj.sq('mw'))
!       assert_equal(mw, @obj.sq('molecular'))
!       assert_equal(mw, @obj.sq('weight'))
      end
  
      def test_sq_len
        length = 393
!       assert_equal(length, @obj.sq('len'))
!       assert_equal(length, @obj.sq('length'))
!       assert_equal(length, @obj.sq('AA'))
      end
  
      def test_seq
        seq = 'MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPPVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSDSDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALPNNTSSSPQPKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD'
!       assert_equal(seq, @obj.seq)
!       assert_equal(seq, @obj.aaseq)
      end
    end