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#-*-Perl-*-
# ## Bioperl Test Harness Script for Modules
# #
use strict;
use vars qw($NTESTS);
BEGIN {
use Bio::Root::Test;
$NTESTS = 111;
test_begin(-tests => $NTESTS,
-requires_modules => [qw(IPC::Run)]);
use_ok('Bio::Tools::Run::Glimmer');
use_ok('Bio::Root::IO');
use_ok('Bio::Seq');
}
my $fasta_file = test_input_file('H_pylori_J99.fasta');
my $icm_file = test_input_file('H_pylori_J99.glimmer3.icm');
my $factory = Bio::Tools::Run::Glimmer->new(-program => 'glimmer3',
-model => $icm_file);
isa_ok $factory, 'Bio::Tools::Run::Glimmer';
my $seqstream = Bio::SeqIO->new(-file => $fasta_file, -format => 'fasta');
my $seq = $seqstream->next_seq();
SKIP: {
test_skip(-requires_executable => $factory, -tests => 107);
my $glimmer3 = $factory->run($seq);
isa_ok $glimmer3, 'Bio::Tools::Glimmer';
while (my $gene = $glimmer3->next_prediction()) {
isa_ok $gene, 'Bio::SeqFeature::Generic';
}
}
1;
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