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Viewing changes to t/Tools/EMBOSS/Palindrome.t

  • Committer: Bazaar Package Importer
  • Author(s): Charles Plessy
  • Date: 2009-03-10 07:19:11 UTC
  • mfrom: (1.2.3 upstream)
  • Revision ID: james.westby@ubuntu.com-20090310071911-fukqzw54pyb1f0bd
Tags: 1.6.0-2
https://launchpad.net/bugs/324001
* Removed patch system (not used):
  - removed instuctions in debian/rules;
  - removed quilt from Build-Depends in debian/control.
* Re-enabled tests:
  - uncommented test command in debian/rules;
  - uncommented previously missing build-dependencies in debian/control.
  - Re-enabled tests and uncommented build-dependencies accordingly.
* Removed libmodule-build-perl and libtest-harness-perl from
  Build-Depends-Indep (provided by perl-modules).
* Better cleaning of empty directories using find -type d -empty -delete
  instead of rmdir in debian/rules (LP: #324001).

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Lines of Context:
t/Tools/EMBOSS/Palindrome.t
 
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# -*-Perl-*- Test Harness script for Bioperl
 
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# $Id: Palindrome.t 15112 2008-12-08 18:12:38Z sendu $
 
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use strict;
 
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BEGIN { 
 
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    use lib '.';
 
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        use Bio::Root::Test;
 
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        test_begin(-tests => 13);
 
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        use_ok('Bio::Tools::EMBOSS::Palindrome');
 
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        use_ok('Bio::Tools::GFF');
 
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}
 
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my $DEBUG = test_debug();
 
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my $parser = Bio::Tools::EMBOSS::Palindrome->new(-file => test_input_file('humts1.pal'));
 
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my $seq = $parser->next_seq;
 
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ok($seq);
 
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is($seq->display_id, 'HUMTS1');
 
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is($seq->length, 18596);
 
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my @features = $seq->get_SeqFeatures();
 
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is(scalar @features, 23);
 
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is($features[0]->feature1->start, 126);
 
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is($features[0]->feature1->end, 142);
 
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is($features[0]->feature1->strand, 1);
 
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is($features[0]->feature1->seq_id, 'HUMTS1');
 
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is($features[0]->feature2->start, 201);
 
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is($features[0]->feature2->end, 217);
 
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is($features[0]->feature2->strand, -1);
 
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if( $DEBUG ) {
 
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    my $out = Bio::Tools::GFF->new(-gff_version => 2);
 
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    $out->write_feature($features[0]);
 
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}