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# -*-Perl-*- Test Harness script for Bioperl
# $Id$
use strict;
BEGIN {
use Bio::Root::Test;
test_begin(-tests => 7);
use_ok 'Bio::SeqIO';
}
my $verbose = test_debug();
my $t_file = test_input_file('test.ace');
my $before;
{
local $/ = undef;
open my $BEFORE, '<', $t_file or die "Could not read file '$t_file': $!\n";
$before = <$BEFORE>;
close $BEFORE;
}
my $a_in = Bio::SeqIO->new( -FILE => $t_file,
-verbose => $verbose,
-FORMAT => 'ace' );
my @a_seq;
while (my $a = $a_in->next_seq) {
push @a_seq, $a;
}
is @a_seq, 3, 'number of sequence objects';
my $esc_name = $a_seq[1]->display_id;
is $esc_name, 'Name; 4% strewn with \ various / escaped characters',
"unescaping of characters, $esc_name";
is $a_seq[0]->alphabet, 'protein', 'alphabets detected';
is $a_seq[1]->alphabet, 'dna', 'alphabets detected';
my $o_file = test_output_file();
my $a_out = Bio::SeqIO->new( -FILE => ">$o_file",
-verbose => $verbose,
-FORMAT => 'ace' );
my $a_out_ok = 1;
for my $a (@a_seq) {
$a_out->write_seq($a) or $a_out_ok = 0;
}
undef($a_out); # Flush to disk
is $a_out_ok,1,'writing sequence';
my $after;
{
local $/ = undef;
open my $AFTER, '<', $o_file or die "Could not read file '$o_file': $!\n";
$after = <$AFTER>;
close $AFTER;
}
is( ($before and $after and ($before eq $after)), 1, 'test output');
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