# -*-Perl-*- Test Harness script for Bioperl
# $Id$

use strict;

BEGIN {
    use lib '.';
    use Bio::Root::Test;

    test_begin(-tests => 0,
               -requires_modules => [qw(IO::String
                                        LWP::UserAgent)],
               -requires_networking => 1);

    use_ok("Bio::Seq");
    use_ok("Bio::Tools::Analysis::Protein::HNN");
}

my $seq = Bio::Seq->new(-seq => 'MSADQRWRQDSQDSFGDSFDGDPPPPPPPPFGDSFGDGFSDRSRQDQRS',
                        -display_id => 'test2');
ok my $tool = Bio::Tools::Analysis::Protein::HNN->new(-seq=>$seq->primary_seq);

SKIP: {
    ok $tool->run();
    skip "Skipping tests since we got terminated by a server error", 9 if $tool->status eq 'TERMINATED_BY_ERROR';
    ok my $raw    = $tool->result('');
    ok my $parsed = $tool->result('parsed');
    is $parsed->[0]{'coil'}, '1000';
    my @res = $tool->result('Bio::SeqFeatureI');
    if (scalar @res > 0) {
        ok 1;
    }
    else {
        skip 'No results - could not connect to HNN server?', 6;
    }

    ok my $meta   = $tool->result('meta');
    ok my $seqobj = Bio::Seq->new(-primary_seq => $meta, display_id=>"a");
    for ( $tool->result('Bio::SeqFeatureI') ) {
        ok $seqobj->add_SeqFeature($_);
    }

    test_skip(-tests => 2, -requires_module => 'Bio::Seq::Meta::Array');
    is $meta->named_submeta_text('HNN_helix',1,2), '0 111';
    is $meta->seq, 'MSADQRWRQDSQDSFGDSFDGDPPPPPPPPFGDSFGDGFSDRSRQDQRS';
}