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

use strict;

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

    test_begin( -tests => 17 );

    use_ok('Bio::Restriction::IO');
}

#
# default enz set
#
ok my $in    = Bio::Restriction::IO->new();
ok my $renzs = $in->read;
is $renzs->each_enzyme, 532;

ok my $e = $renzs->get_enzyme('AccI');
is $e->name, 'AccI';

my $outfile = test_output_file();
ok my $out = Bio::Restriction::IO->new( -format => 'base', -file => ">$outfile" );
TODO: {
    local $TODO = "writing to a file doesn't seem to work? prints to STDOUT!";

    #$out->write($renzs);
    # ok -s $outfile;
    #map {print $_->name, "\t", $_->site, "\t", $_->overhang, "\n"} $renzs->each_enzyme;
}

#
# withrefm, 31
#

ok $in = Bio::Restriction::IO->new(
    -format  => 'withrefm',
    -verbose => 0,
    -file    => test_input_file('rebase.withrefm')
);
ok $renzs = $in->read;
is $renzs->each_enzyme, 11;

#
# itype2, 8
#
#enzyme name [tab] prototype [tab] recognition sequence with cleavage site
#  [tab] methylation site and type [tab] commercial source [tab] references

ok $in = Bio::Restriction::IO->new(
    -format  => 'itype2',
    -verbose => 0,
    -file    => test_input_file('rebase.itype2')
);

ok $renzs = $in->read;
is $renzs->each_enzyme, 16;

ok $out = Bio::Restriction::IO->new( -format => 'base' );

SKIP: {
    test_skip(
        -tests               => 3,
        -requires_module     => 'LWP::UserAgent',
        -requires_networking => 1
    );

    eval {$in = Bio::Restriction::IO->new(-format  => 'prototype',
                                          -current => 1); };
    skip "Couldn't connect to REBASE with Bio::Restriction::IO. Skipping those tests", 3 if $@;

    ok $in = Bio::Restriction::IO->new(
        -format  => 'prototype',
        -current => 1
    );

    ok my $coll = $in->read;
    cmp_ok $coll->each_enzyme, '>=', 307;
}