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# -*-Perl-*- Test Harness script for Bioperl
# $Id: ace.t 15112 2008-12-08 18:12:38Z sendu $
use strict;
BEGIN {
use lib '.';
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;
local *BEFORE;
open BEFORE, $t_file;
$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;
foreach 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;
local *AFTER;
open AFTER, $o_file;
$after = <AFTER>;
close AFTER;
}
is( ($before and $after and ($before eq $after)),1,
'test output');
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