Sync with trunk
[bioperl-live.git] / t / SeqIO / abi.t
blob6925994a7e250b6997284933c14b092209e2d49e
1 # -*-Perl-*- Test Harness script for Bioperl
2 # $Id$
4 use strict;
6 BEGIN {
7         use lib '.';
8     use Bio::Root::Test;
9     
10     test_begin(-tests => 7,
11                            -requires_module => 'Bio::SeqIO::staden::read 1.006');
12         
13         use_ok('Bio::SeqIO');
16 my $verbose = test_debug();
18 my $io = Bio::SeqIO->new(-format => 'abi',
19                                                                  -verbose => $verbose,
20                                                                  -file => test_input_file('test.abi',),
21                                                                  -get_trace_data => 1);
22 my $seq = $io->next_seq;
23 isa_ok($seq, 'Bio::PrimarySeqI');
24 is($seq->seq, "GCNTATGACGTGGATTNCGAATTCTNNNNNCGGTAGNNGAAAATCCCCGGNCAAGNTTNNCCCTGCAAANGGAANAANNTGGCCGAGCGCTACGGGCTGATCTGGGTGTGCCTGTTTCCCCCGGCCGGGGGGAGNGATGCAGGACATCCAAGTATCCCGCCNATGGNGGGCTGAGGACGAGGACGGCTTCCATCAGATCAGTGTGCCCGGNCTTCGACATCGGCGGCAGCGCCGCGCGCCAACTGGAAGGCTTCATCGACGTGNAGCATTTTGNCTTCNTGCGCACCGCTACCTTCACCCANCCGGACAAGCGCNAANTGCNGNCCTACACCACCACNGAAACACCGACCGGNTTNAATGCCGATTACCTGAGNNGCGTGGCAAATTATTCGGNGGACNTGCCGCTGNCGGACGTGGACCCGAACTTCCAATGGCTGCGTCATTNCTAGGTGAATCTGCCTTTCACCGCCACGCTCACCATCCACTTCCCGGTGCCGGGCAAGCGGTTGGTGATNATGAATGCCGCCAGACCGGTGTCCAAGCACACCANCCGCCTGNTGGTGCCGATCGNCCGCTAATTTCGACACCCATCTGCCNGNGGGAAGACGTACATGNGTTCAACCTTGCACNTNGTTCNAAAAAAACCNTGCCATGGTGGNAANCGCAAGCGGNCCGGAAATATCNGCCGGNTTGACCCGCNTGNTTGGAAAGTGCATATTCCCCNCCGATNCNCAATTTCGAT");
25 # trace data points, only added if get_trace_data is invoked
26 is($seq->get_trace_graph( -trace => 'a' ), 8793); 
27 is($seq->get_trace_graph( -trace => 't' ), 8793); 
28 is($seq->get_trace_graph( -trace => 'g' ), 8793); 
29 is($seq->get_trace_graph( -trace => 'c' ), 8793);