1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
|
# -*-Perl-*- Test Harness script for Bioperl
# $Id$
use strict;
BEGIN {
use Bio::Root::Test;
test_begin(-tests => 12);
use_ok('Bio::Tools::Tmhmm');
}
my $infile = test_input_file('tmhmm.out');
ok my $parser = Bio::Tools::Tmhmm->new(-file=>$infile), 'new()';
my @feat;
while ( my $feat = $parser->next_result ) {
push @feat, $feat;
}
is @feat, 3, 'got 3 feat';
is $feat[0]->seq_id, 'my_sequence_id';
is $feat[0]->source_tag, 'TMHMM2.0';
is $feat[0]->primary_tag, 'transmembrane';
my $raa_test_data = [
[ 54, 76],
[116, 138],
[151, 173],
];
for (0..(scalar(@feat)-1)) {
is $feat[$_]->start, $raa_test_data->[$_]->[0];
is $feat[$_]->end, $raa_test_data->[$_]->[1];
}
|
