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# -*-Perl-*- Test Harness script for Bioperl
use strict;
BEGIN {
use Bio::Root::Test;
test_begin( -tests => 12 );
use_ok('Bio::SeqIO::pir');
}
my $verbose = test_debug();
my $in = Bio::SeqIO->new(
-file => test_input_file('seqfile.pir'),
-verbose => $verbose,
-format => 'pir'
);
ok( defined $in, 'new instance is defined ' );
isa_ok( $in, 'Bio::SeqIO' );
my $out = Bio::SeqIO->new(
-format => 'pir',
-fh => \*STDOUT
);
while ( my $seq = $in->next_seq() ) {
ok( $seq->length > 1, 'checked length' );
$out->write_seq($seq) if $verbose > 0;
}
# Empty description line
$in = Bio::SeqIO->new(
-file => test_input_file('seqfile-no-desc.pir'),
-verbose => $verbose,
-format => 'pir'
);
my $seq = $in->next_seq();
ok( $seq->seq =~ /^MGD/, 'Correct start' );
$seq = $in->next_seq();
ok( $seq->seq =~ /^GDV/, 'Correct start' );
$seq = $in->next_seq();
ok( $seq->seq =~ /^GDV/, 'Correct start' );
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