# -*-Perl-*- Test Harness script for Bioperl
# $Id: SearchIO_HitTableWriter.t 14995 2008-11-16 06:20:00Z cjfields $
use strict;
BEGIN {
use lib '.';
use Bio::Root::Test;
test_begin(-tests => 8);
use_ok('Bio::SearchIO');
use_ok('Bio::SearchIO::Writer::HitTableWriter');
}
my ($searchio, $result, $hit, $hsp);
$searchio = Bio::SearchIO->new('-format' => 'blast',
'-file' => test_input_file('HUMBETGLOA.tblastx'));
$result = $searchio->next_result;
isa_ok($result,'Bio::Search::Result::ResultI');
$hit = $result->next_hit;
is($hit->accession, 'AE000479');
is($hit->bits, 33.6);
$hsp = $hit->next_hsp;
is($hit->hsp->bits,$hsp->bits);
isa_ok($hsp->get_aln,'Bio::Align::AlignI');
my $writer = Bio::SearchIO::Writer::HitTableWriter->new(
-columns => [qw(query_name
query_length
hit_name
hit_length
bits
score
frac_identical_query
expect
)] );
my $outfile = test_output_file();
my $out = Bio::SearchIO->new(-writer => $writer,
-file => ">$outfile");
$out->write_result($result, 1);
ok(-s $outfile);
# tests checking file output?