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

[Mitsuteru C. Nakao]

Update of /home/repository/bioruby/bioruby/test/unit/bio/db
In directory pub.open-bio.org:/tmp/cvs-serv16534/test/unit/bio/db

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


Index: test_prosite.rb
===================================================================
RCS file: /home/repository/bioruby/bioruby/test/unit/bio/db/test_prosite.rb,v
retrieving revision 1.1
retrieving revision 1.2
diff -C2 -d -r1.1 -r1.2
*** test_prosite.rb	27 Oct 2005 17:17:49 -0000	1.1
--- test_prosite.rb	23 Nov 2005 11:32:13 -0000	1.2
***************
*** 32,41 ****
  
      def test_delimiter
!       assert_equal(Bio::PROSITE::DELIMITER, "\n//\n")
!       assert_equal(Bio::PROSITE::RS, "\n//\n")
      end
  
      def test_tagsize
!       assert_equal(Bio::PROSITE::TAGSIZE, 5)
      end
  
--- 32,41 ----
  
      def test_delimiter
!       assert_equal("\n//\n", Bio::PROSITE::DELIMITER)
!       assert_equal("\n//\n", Bio::PROSITE::RS)
      end
  
      def test_tagsize
!       assert_equal(5, Bio::PROSITE::TAGSIZE)
      end
  
***************
*** 53,89 ****
  
      def test_name
!       assert_equal(@obj.name, "G_PROTEIN_RECEP_F1_1")
      end
  
      def test_division
        data = "PATTERN"
!       assert_equal(@obj.division, data)
      end
  
      def test_ac
        data = "PS00237"
!       assert_equal(@obj.ac, data)
      end
  
      def test_dt
!       assert_equal(@obj.dt, "APR-1990 (CREATED); NOV-1997 (DATA UPDATE); JUL-1998 (INFO UPDATE).")
      end
  
      def test_de
        data = "G-protein coupled receptors family 1 signature."
!       assert_equal(@obj.de, data)
      end
  
      def test_pa
        pattern = "[GSTALIVMFYWC]-[GSTANCPDE]-{EDPKRH}-x(2)-[LIVMNQGA]-x(2)-[LIVMFT]-[GSTANC]-[LIVMFYWSTAC]-[DENH]-R-[FYWCSH]-x(2)-[LIVM]."
!       assert_equal(@obj.pa, pattern)
      end
  
      def test_ma
!       assert_equal(@obj.ma, '')
      end
  
      def test_ru
!       assert_equal(@obj.ru, '')
      end
  
--- 53,89 ----
  
      def test_name
!       assert_equal("G_PROTEIN_RECEP_F1_1", @obj.name)
      end
  
      def test_division
        data = "PATTERN"
!       assert_equal(data, @obj.division)
      end
  
      def test_ac
        data = "PS00237"
!       assert_equal(data, @obj.ac)
      end
  
      def test_dt
!       assert_equal("APR-1990 (CREATED); NOV-1997 (DATA UPDATE); JUL-1998 (INFO UPDATE).", @obj.dt)
      end
  
      def test_de
        data = "G-protein coupled receptors family 1 signature."
!       assert_equal(data, @obj.de)
      end
  
      def test_pa
        pattern = "[GSTALIVMFYWC]-[GSTANCPDE]-{EDPKRH}-x(2)-[LIVMNQGA]-x(2)-[LIVMFT]-[GSTANC]-[LIVMFYWSTAC]-[DENH]-R-[FYWCSH]-x(2)-[LIVM]."
!       assert_equal(pattern, @obj.pa)
      end
  
      def test_ma
!       assert_equal('', @obj.ma)
      end
  
      def test_ru
!       assert_equal('', @obj.ru)
      end
  
***************
*** 91,190 ****
        data = {"FALSE_NEG"=>112, "POSITIVE"=>[1057, 1057], "PARTIAL"=>48, "FALSE_POS"=>[64, 64], "RELEASE"=>["40.7", 103373], "TOTAL"=>[1121, 1121], "UNKNOWN"=>[0, 0]}
  
!       assert_equal(@obj.nr, data)
      end
  
      def test_release
!       assert_equal(@obj.release, ['40.7', 103373])
      end
  
      def test_swissprot_release_number
!       assert_equal(@obj.swissprot_release_number, '40.7')
      end
  
      def test_swissprot_release_sequences
!       assert_equal(@obj.swissprot_release_sequences, 103373)
      end
  
      def test_total
!       assert_equal(@obj.total, [1121, 1121])
      end
  
      def test_total_hits
!       assert_equal(@obj.total_hits, 1121)
      end
  
      def test_total_sequences
!       assert_equal(@obj.total_sequences, 1121)
      end
      
      def test_positive
!       assert_equal(@obj.positive, [1057, 1057])
      end
  
      def test_positive_hits
!       assert_equal(@obj.positive_hits, 1057)
      end
  
      def test_positive_sequences
!       assert_equal(@obj.positive_sequences, 1057)
      end
      
      def test_unknown
!       assert_equal(@obj.unknown, [0, 0])
      end
  
      def test_unknown_hits
!       assert_equal(@obj.unknown_hits, 0)
      end
  
      def test_unknown_sequences
!       assert_equal(@obj.unknown_sequences, 0)
      end
  
      def test_false_pos
!       assert_equal(@obj.false_pos, [64, 64])
      end
  
      def test_false_positive_sequences
!       assert_equal(@obj.false_positive_sequences, 64)
      end
  
      def test_false_neg
!       assert_equal(@obj.false_neg, 112)
      end
  
      def test_partial
!       assert_equal(@obj.partial, 48)
      end
  
      def test_cc
!       assert_equal(@obj.cc, {"TAXO-RANGE"=>"??E?V", "MAX-REPEAT"=>"1"})
      end
  
      def test_taxon_range
!       assert_equal(@obj.taxon_range, '??E?V')
      end
  
      def test_max_repeat
!       assert_equal(@obj.max_repeat, 1)
      end
      
      def test_site
!       assert_equal(@obj.site, [0, nil])
      end
  
      def test_skip_flag
!       assert_equal(@obj.skip_flag, nil)
      end
  
      def test_dr
!       assert_equal(@obj.dr.class, Hash)
        data = ['OPSD_LIMBE', 'T']
!       assert_equal(@obj.dr["O42427"], data)
      end
  
      def test_list_xref
        flag = ''
!       assert_equal(@obj.list_xref(flag), [])
      end
  
--- 91,190 ----
        data = {"FALSE_NEG"=>112, "POSITIVE"=>[1057, 1057], "PARTIAL"=>48, "FALSE_POS"=>[64, 64], "RELEASE"=>["40.7", 103373], "TOTAL"=>[1121, 1121], "UNKNOWN"=>[0, 0]}
  
!       assert_equal(data, @obj.nr)
      end
  
      def test_release
!       assert_equal(['40.7', 103373], @obj.release)
      end
  
      def test_swissprot_release_number
!       assert_equal('40.7', @obj.swissprot_release_number)
      end
  
      def test_swissprot_release_sequences
!       assert_equal(103373, @obj.swissprot_release_sequences)
      end
  
      def test_total
!       assert_equal([1121, 1121], @obj.total)
      end
  
      def test_total_hits
!       assert_equal(1121, @obj.total_hits)
      end
  
      def test_total_sequences
!       assert_equal(1121, @obj.total_sequences)
      end
      
      def test_positive
!       assert_equal([1057, 1057], @obj.positive)
      end
  
      def test_positive_hits
!       assert_equal(1057, @obj.positive_hits)
      end
  
      def test_positive_sequences
!       assert_equal(1057, @obj.positive_sequences)
      end
      
      def test_unknown
!       assert_equal([0, 0], @obj.unknown)
      end
  
      def test_unknown_hits
!       assert_equal(0, @obj.unknown_hits)
      end
  
      def test_unknown_sequences
!       assert_equal(0, @obj.unknown_sequences)
      end
  
      def test_false_pos
!       assert_equal([64, 64], @obj.false_pos)
      end
  
      def test_false_positive_sequences
!       assert_equal(64, @obj.false_positive_sequences)
      end
  
      def test_false_neg
!       assert_equal(112, @obj.false_neg)
      end
  
      def test_partial
!       assert_equal(48, @obj.partial)
      end
  
      def test_cc
!       assert_equal({"TAXO-RANGE"=>"??E?V", "MAX-REPEAT"=>"1"}, @obj.cc)
      end
  
      def test_taxon_range
!       assert_equal('??E?V', @obj.taxon_range)
      end
  
      def test_max_repeat
!       assert_equal(1, @obj.max_repeat)
      end
      
      def test_site
!       assert_equal([0, nil], @obj.site)
      end
  
      def test_skip_flag
!       assert_equal(nil, @obj.skip_flag)
      end
  
      def test_dr
!       assert_equal(Hash, @obj.dr.class)
        data = ['OPSD_LIMBE', 'T']
!       assert_equal(data, @obj.dr["O42427"])
      end
  
      def test_list_xref
        flag = ''
!       assert_equal([], @obj.list_xref(flag))
      end
  
***************
*** 1247,1251 ****
   "P23275",
   "Q01338"]
!       assert_equal(@obj.list_truepositive, data)
      end
  
--- 1247,1251 ----
   "P23275",
   "Q01338"]
!       assert_equal(data, @obj.list_truepositive)
      end
  
***************
*** 1315,1319 ****
   "P34529",
   "Q00126"]
!       assert_equal(@obj.list_falsenegative, data)
      end
      
--- 1315,1319 ----
   "P34529",
   "Q00126"]
!       assert_equal(data, @obj.list_falsenegative)
      end
      
***************
*** 1367,1371 ****
   "Q62953",
   "Q95195"]
!       assert_equal(@obj.list_falsepositive, data)
      end
  
--- 1367,1371 ----
   "Q62953",
   "Q95195"]
!       assert_equal(data, @obj.list_falsepositive)
      end
  
***************
*** 1419,1442 ****
   "Q62953",
   "Q95195"]
!       assert_equal(@obj.list_potentialhit, data)
      end
  
      def test_list_unknown
        data = []
!       assert_equal(@obj.list_unknown, data)
      end
  
      def test_pdb_xref
        data = ["1BOJ", "1BOK", "1F88"]
!       assert_equal(@obj.pdb_xref, data)
      end
  
      def test_pdoc_xref
        data = "PDOC00210"
!       assert_equal(@obj.pdoc_xref, data)
      end
  
      def test_pa2re
!       assert_equal(@obj.pa2re, '')
      end
  
--- 1419,1442 ----
   "Q62953",
   "Q95195"]
!       assert_equal(data, @obj.list_potentialhit)
      end
  
      def test_list_unknown
        data = []
!       assert_equal(data, @obj.list_unknown)
      end
  
      def test_pdb_xref
        data = ["1BOJ", "1BOK", "1F88"]
!       assert_equal(data, @obj.pdb_xref)
      end
  
      def test_pdoc_xref
        data = "PDOC00210"
!       assert_equal(data, @obj.pdoc_xref)
      end
  
      def test_pa2re
!       assert_equal('', @obj.pa2re)
      end