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# -*-Perl-*- Test Harness script for Bioperl
# $Id$
use strict;
BEGIN {
use Bio::Root::Test;
test_begin(-tests => 43);
use_ok 'Bio::Root::Root';
}
ok my $obj = Bio::Root::Root->new();
isa_ok $obj, 'Bio::Root::RootI';
throws_ok { $obj->throw('Testing throw') } qr/Testing throw/;# 'throw failed';
# test throw_not_implemented()
throws_ok { $obj->throw_not_implemented() } qr/EXCEPTION: Bio::Root::NotImplemented/;
{
package Bio::FooI;
use base qw(Bio::Root::RootI);
sub new {
my $class = shift;
my $self = {};
bless $self, ref($class) || $class;
return $self;
};
}
$obj = Bio::FooI->new();
throws_ok { $obj->throw_not_implemented() } qr/EXCEPTION /;
$obj = Bio::Root::Root->new();
# doesn't work in perl 5.00405
#my $val;
#eval {
# my ($tfh,$tfile) = $obj->tempfile();
# local * STDERR = $tfh;
# $obj->warn('Testing warn');
# close $tfh;
# open(IN, $tfile) or die("cannot open $tfile");
# $val = join("", <IN>) ;
# close IN;
# unlink $tfile;
#};
#ok $val =~ /Testing warn/;
#'verbose(0) warn did not work properly' . $val;
$obj->verbose(-1);
throws_ok { $obj->throw('Testing throw') } qr/Testing throw/;# 'verbose(-1) throw did not work properly' . $@;
lives_ok { $obj->warn('Testing warn') };
$obj->verbose(1);
throws_ok { $obj->throw('Testing throw') } qr/Testing throw/;# 'verbose(1) throw did not work properly' . $@;
# doesn't work in perl 5.00405
#undef $val;
#eval {
# my ($tfh,$tfile) = $obj->tempfile();
# local * STDERR = $tfh;
# $obj->warn('Testing warn');
# close $tfh;
# open(IN, $tfile) or die("cannot open $tfile");
# $val = join("", <IN>);
# close IN;
# unlink $tfile;
#};
#ok $val =~ /Testing warn/;# 'verbose(1) warn did not work properly' . $val;
my @stack = $obj->stack_trace();
is scalar @stack, 2;
my $verbobj = Bio::Root::Root->new(-verbose=>1,-strict=>1);
is $verbobj->verbose(), 1;
$Bio::Root::Root::DEBUG = 1;
my $seq = Bio::Root::Root->new();
is $seq->verbose, 1;
# test for bug #1343
my @vals = Bio::Root::RootI->_rearrange([qw(apples pears)],
-apples => 'up the',
-pears => 'stairs');
is shift @vals, 'up the';
is shift @vals, 'stairs';
# tests for _set_from_args()
# Let's not pollute Bio::Root::Root namespace if possible
# Create temp classes instead which inherit Bio::Root::Root, then test
{
package Bio::Foo1;
use base qw(Bio::Root::Root);
our $VERSION = '2.00';
sub new {
my $class = shift;
my $self = {};
bless $self, ref($class) || $class;
$self->_set_from_args(\@_);
return $self;
};
}
$obj = Bio::Foo1->new(-verbose => 1, t1 => 1, '--Test-2' => 2);
#ok ! $obj->can('t1'), 'arg not callable';
{
package Bio::Foo2;
use base qw(Bio::Root::Root);
sub new {
my $class = shift;
my $self = {};
bless $self, ref($class) || $class;
$self->_set_from_args(\@_, -create => 1);
return $self;
};
}
$obj = Bio::Foo2->new(-verbose => 1, t3 => 1, '--Test-4' => 2);
ok $obj->can('t3'), 'arg callable since method was created';
ok $obj->can('test_4'), 'mal-formed arg callable since method was created with good name';
for my $m (qw(t3 test_4)) {
can_ok('Bio::Foo2',$m);
ok ! Bio::Root::Root->can($m), "Methods don't pollute original Bio::Root::Root namespace";
}
{
package Bio::Foo3;
use base qw(Bio::Root::Root);
sub new {
my $class = shift;
my $self = {};
bless $self, ref($class) || $class;
$self->_set_from_args(\@_, -methods => ['verbose', 't5'], -create => 1);
return $self;
};
}
$obj = Bio::Foo3->new(-verbose => 1, t5 => 1, '--Test-6' => 2);
can_ok $obj, 't5';
ok ! $obj->can('test_6'), 'arg not in method list not created';
can_ok ('Bio::Foo3','t5');
ok ! UNIVERSAL::can('Bio::Root::Root','t5'), "Methods don't pollute original Bio::Root::Root namespace";
{
package Bio::Foo4;
use base qw(Bio::Root::Root);
sub new {
my $class = shift;
my $self = {};
bless $self, ref($class) || $class;
my %args = @_;
$self->_set_from_args(\%args, -methods => {(verbose => 'v',
test7 => 't7',
test_8 => 't8')},
-create => 1);
return $self;
};
}
# with synonyms
$obj = Bio::Foo4->new(-verbose => 1, t7 => 1, '--Test-8' => 2);
is $obj->verbose, 1, 'verbose was set correctly';
is $obj->t7, 1, 'synonym was set correctly';
is $obj->test7, 1, 'real method of synonym was set correctly';
is $obj->test_8, 2, 'mal-formed arg correctly resolved to created method';
is $obj->t8, 2, 'synonym of set method was set correctly';
for my $m (qw(t7 test7 test_8 t8)) {
can_ok 'Bio::Foo4', $m;
ok ! UNIVERSAL::can('Bio::Root::Root','t7'), "Methods don't pollute original Bio::Root::Root namespace";
}
# test basic Root::clone()
my $clone = $obj->clone;
is $clone->t7, $obj->t7, 'clone';
is $clone->test7, $obj->test7, 'clone';
is $clone->test_8, $obj->test_8, 'clone';
$clone->test_8('xyz');
isnt $clone->test_8, $obj->test_8, 'clone changed, original didn\'t';
# test Root::clone() with parameter passing, only works for methods
# (introspection via can())
my $clone2 = $obj->clone(-t7 => 'foo');
is $clone2->t7, 'foo', 'parameters passed to clone() modify object';
is $obj->t7, 1, 'original is not modified';
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