Provided by: libbio-perl-perl_1.6.901-2_all bug


       Bio::Factory::ObjectFactory - Instantiates a new Bio::Root::RootI (or derived class)
       through a factory


           use Bio::Factory::ObjectFactory;

           my $factory = Bio::Factory::ObjectFactory->new(-type => 'Bio::Ontology::GOterm');
           my $term = $factory->create_object(-name => 'peroxisome',
                                              -ontology => 'Gene Factory',
                                              -identifier => 'GO:0005777');


       This object will build Bio::Root::RootI objects generically.


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AUTHOR - Hilmar Lapp

       Email hlapp at


       This is mostly copy-and-paste with subsequent adaptation from Bio::Seq::SeqFactory by
       Jason Stajich. Most credits should in fact go to him.


       The rest of the documentation details each of the object methods.  Internal methods are
       usually preceded with a _

        Title   : new
        Usage   : my $obj = Bio::Factory::ObjectFactory->new();
        Function: Builds a new Bio::Factory::ObjectFactory object
        Returns : Bio::Factory::ObjectFactory
        Args    : -type      => string, name of a L<Bio::Root::RootI> derived class.
                                There is no default.
                  -interface => string, name of the interface or class any type
                                specified needs to at least implement.
                                The default is Bio::Root::RootI.

        Title   : create_object
        Usage   : my $seq = $factory->create_object(<named parameters>);
        Function: Instantiates a new object of the previously set type.

                  This object allows us to genericize the instantiation of

                  You must have provided -type at instantiation, or have
                  called type($mytype) before you can call this method.

        Returns : an object of the type returned by type()

                  The return type is configurable using new(-type =>"..."),
                  or by calling $self->type("My::Fancy::Class").
        Args    : Initialization parameters specific to the type of
                  object we want. Check the POD of the class you set as type.

        Title   : type
        Usage   : $obj->type($newval)
        Function: Get/set the type of object to be created.

                  This may be changed at any time during the lifetime of this

        Returns : value of type (a string)
        Args    : newvalue (optional, a string)

        Title   : interface
        Usage   : $obj->interface($newval)
        Function: Get/set the interface or base class that supplied types
                  must at least implement (inherit from).
        Example :
        Returns : value of interface (a scalar)
        Args    : on set, new value (a scalar or undef, optional)

        Title   : _validate_type
        Usage   : $factory->_validate_type($object)
        Function: Called to let derived factories validate the type set
                  via type().

                  The default implementation here checks whether the supplied
                  object skeleton implements the interface set via -interface
                  upon factory instantiation.

        Example :
        Returns : TRUE if the type is to be considered valid, and FALSE otherwise.
                  Instead of returning FALSE this method may also just throw
                  an informative exception.

                  The default implementation here will throw an exception
                  if the supplied object does not inherit from the interface
                  provided by the interface() method.

        Args    : A hash reference blessed into the specified type, allowing
                  queries like isa().