[BioRuby-cvs] bioruby/test/unit/bio/appl/genscan test_report.rb, 1.1, 1.2

[Mitsuteru C. Nakao]

Update of /home/repository/bioruby/bioruby/test/unit/bio/appl/genscan
In directory pub.open-bio.org:/tmp/cvs-serv11824/test/unit/bio/appl/genscan

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


Index: test_report.rb
===================================================================
RCS file: /home/repository/bioruby/bioruby/test/unit/bio/appl/genscan/test_report.rb,v
retrieving revision 1.1
retrieving revision 1.2
diff -C2 -d -r1.1 -r1.2
*** test_report.rb	31 Oct 2005 16:27:46 -0000	1.1
--- test_report.rb	22 Nov 2005 08:31:47 -0000	1.2
***************
*** 42,78 ****
  
      def test_genscan_version
!       assert_equal(@obj.genscan_version, '1.0')
      end
  
      def test_date_run
!       assert_equal(@obj.date_run, '30-May-103')
      end
  
      def test_time
!       assert_equal(@obj.time, "14:06:28")
      end
  
      def test_query_name
!       assert_equal(@obj.query_name, 'HUMRASH')
      end
  
      def test_length
!       assert_equal(@obj.length, 12942)
      end
  
      def test_gccontent
!       assert_equal(@obj.gccontent, 68.17)
      end
  
      def test_isochore
!       assert_equal(@obj.isochore, '4 (57 - 100 C+G%)')
      end
  
      def test_matrix
!       assert_equal(@obj.matrix, 'HumanIso.smat')
      end
  
      def test_predictions_size
!       assert_equal(@obj.predictions.size, 2)
      end
  
--- 42,78 ----
  
      def test_genscan_version
!       assert_equal('1.0', @obj.genscan_version)
      end
  
      def test_date_run
!       assert_equal('30-May-103', @obj.date_run)
      end
  
      def test_time
!       assert_equal("14:06:28", @obj.time)
      end
  
      def test_query_name
!       assert_equal('HUMRASH', @obj.query_name)
      end
  
      def test_length
!       assert_equal(12942, @obj.length)
      end
  
      def test_gccontent
!       assert_equal(68.17, @obj.gccontent)
      end
  
      def test_isochore
!       assert_equal('4 (57 - 100 C+G%)', @obj.isochore)
      end
  
      def test_matrix
!       assert_equal('HumanIso.smat', @obj.matrix)
      end
  
      def test_predictions_size
!       assert_equal(2, @obj.predictions.size)
      end
  
***************
*** 90,120 ****
  
      def test_number
!       assert_equal(@obj.first.number, 1)
      end
  
      def test_aaseq
!       assert_equal(@obj.first.aaseq.class, Bio::FastaFormat)
        seq =  "MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQHKLRKLNPPDESGPGCMSCKCVLS"
!       assert_equal(@obj.first.aaseq.seq, seq)
        definition = "HUMRASH|GENSCAN_predicted_peptide_1|189_aa"
!       assert_equal(@obj.first.aaseq.definition, definition)
      end
  
      def test_naseq
!       assert_equal(@obj.first.naseq.class, Bio::FastaFormat)
        seq = "atgacggaatataagctggtggtggtgggcgccggcggtgtgggcaagagtgcgctgaccatccagctgatccagaaccattttgtggacgaatacgaccccactatagaggattcctaccggaagcaggtggtcattgatggggagacgtgcctgttggacatcctggataccgccggccaggaggagtacagcgccatgcgggaccagtacatgcgcaccggggagggcttcctgtgtgtgtttgccatcaacaacaccaagtcttttgaggacatccaccagtacagggagcagatcaaacgggtgaaggactcggatgacgtgcccatggtgctggtggggaacaagtgtgacctggctgcacgcactgtggaatctcggcaggctcaggacctcgcccgaagctacggcatcccctacatcgagacctcggccaagacccggcagggagtggaggatgccttctacacgttggtgcgtgagatccggcagcacaagctgcggaagctgaaccctcctgatgagagtggccccggctgcatgagctgcaagtgtgtgctctcctga"
!       assert_equal(@obj.first.naseq.seq, seq)
        definition = "HUMRASH|GENSCAN_predicted_CDS_1|570_bp"
!       assert_equal(@obj.first.naseq.definition, definition)
      end
  
      def test_promoter
!       assert_equal(@obj.last.promoter.class, Bio::Genscan::Report::Exon)
!       assert_equal(@obj.last.promoter.exon_type, "Prom")
      end
  
      def test_polyA
!       assert_equal(@obj.first.polyA.class, Bio::Genscan::Report::Exon)
!       assert_equal(@obj.first.polyA.exon_type, 'PlyA')
      end
  
--- 90,120 ----
  
      def test_number
!       assert_equal(1, @obj.first.number)
      end
  
      def test_aaseq
!       assert_equal(Bio::FastaFormat, @obj.first.aaseq.class)
        seq =  "MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQHKLRKLNPPDESGPGCMSCKCVLS"
!       assert_equal(seq, @obj.first.aaseq.seq)
        definition = "HUMRASH|GENSCAN_predicted_peptide_1|189_aa"
!       assert_equal(definition, @obj.first.aaseq.definition)
      end
  
      def test_naseq
!       assert_equal(Bio::FastaFormat, @obj.first.naseq.class)
        seq = "atgacggaatataagctggtggtggtgggcgccggcggtgtgggcaagagtgcgctgaccatccagctgatccagaaccattttgtggacgaatacgaccccactatagaggattcctaccggaagcaggtggtcattgatggggagacgtgcctgttggacatcctggataccgccggccaggaggagtacagcgccatgcgggaccagtacatgcgcaccggggagggcttcctgtgtgtgtttgccatcaacaacaccaagtcttttgaggacatccaccagtacagggagcagatcaaacgggtgaaggactcggatgacgtgcccatggtgctggtggggaacaagtgtgacctggctgcacgcactgtggaatctcggcaggctcaggacctcgcccgaagctacggcatcccctacatcgagacctcggccaagacccggcagggagtggaggatgccttctacacgttggtgcgtgagatccggcagcacaagctgcggaagctgaaccctcctgatgagagtggccccggctgcatgagctgcaagtgtgtgctctcctga"
!       assert_equal(seq, @obj.first.naseq.seq)
        definition = "HUMRASH|GENSCAN_predicted_CDS_1|570_bp"
!       assert_equal(definition, @obj.first.naseq.definition)
      end
  
      def test_promoter
!       assert_equal(Bio::Genscan::Report::Exon, @obj.last.promoter.class)
!       assert_equal("Prom", @obj.last.promoter.exon_type)
      end
  
      def test_polyA
!       assert_equal(Bio::Genscan::Report::Exon, @obj.first.polyA.class)
!       assert_equal('PlyA', @obj.first.polyA.exon_type)
      end
  
***************
*** 132,192 ****
  
      def test_number
!       assert_equal(@obj.number, 1)
      end
  
      def test_exon_type
!       assert_equal(@obj.exon_type, 'Init')
      end
  
      def test_exon_type_long
!       assert_equal(@obj.exon_type_long, 'Initial exon')
      end
  
      def test_strand
!       assert_equal(@obj.strand, '+')
      end
  
      def test_first
!       assert_equal(@obj.first, 1664)
      end
  
      def test_last
!       assert_equal(@obj.last, 1774)
      end
  
      def test_range
!       assert_equal(@obj.range, 1664..1774)
      end
  
      def test_phase
!       assert_equal(@obj.phase, '0')
      end
  
      def test_acceptor_score
!       assert_equal(@obj.acceptor_score, 94)
      end
  
      def test_donor_score
!       assert_equal(@obj.donor_score, 83)
      end
  
      def test_initiation_score
!       assert_equal(@obj.initiation_score, 94)
      end
  
      def test_termination_score
!       assert_equal(@obj.termination_score, 83)
      end
  
      def test_score
!       assert_equal(@obj.score, 212)
      end
  
      def test_p_value
!       assert_equal(@obj.p_value, 0.997)
      end
  
      def test_t_score
!       assert_equal(@obj.t_score, 21.33)
      end
  
--- 132,192 ----
  
      def test_number
!       assert_equal(1, @obj.number)
      end
  
      def test_exon_type
!       assert_equal('Init', @obj.exon_type)
      end
  
      def test_exon_type_long
!       assert_equal('Initial exon',  @obj.exon_type_long)
      end
  
      def test_strand
!       assert_equal('+', @obj.strand)
      end
  
      def test_first
!       assert_equal(1664, @obj.first)
      end
  
      def test_last
!       assert_equal(1774, @obj.last)
      end
  
      def test_range
!       assert_equal(1664..1774, @obj.range)
      end
  
      def test_phase
!       assert_equal('0', @obj.phase)
      end
  
      def test_acceptor_score
!       assert_equal(94, @obj.acceptor_score)
      end
  
      def test_donor_score
!       assert_equal(83, @obj.donor_score)
      end
  
      def test_initiation_score
!       assert_equal(94, @obj.initiation_score)
      end
  
      def test_termination_score
!       assert_equal(83, @obj.termination_score)
      end
  
      def test_score
!       assert_equal(212, @obj.score)
      end
  
      def test_p_value
!       assert_equal(0.997, @obj.p_value)
      end
  
      def test_t_score
!       assert_equal(21.33, @obj.t_score)
      end