go::model::treeiterator(3pm) [debian man page]

GO::Model::TreeIterator(3pm)				User Contributed Perl Documentation			      GO::Model::TreeIterator(3pm)

NAME

	 GO::Model::GraphIterator - wraps GO::Model::GraphIterator

SYNOPSIS

DESCRIPTION

       This is a hack.	It wraps GO::Model::GraphIterator and provides a tree like iteration, rather than a graph-like iteration.

       This is done by giving TreeIterator a template array.

       The array looks like this :

       [ [3674, 'isa', 3673], [9277, 'isa', 5618] ]

       3674 is selected iff it is the child of 3673.  9277 is selected iff it is the child of 5618.

   order
	 Usage	 - $graphiter->order("breadth");
	 Returns - string
	 Args	 - string

       gets/sets traversal order; breadth or depth; default is depth

   direction
	 Usage	 - $graphiter->direction("up");
	 Returns - string
	 Args	 - string

       gets/sets direction; default is "down"

   reset_cursor
	 Usage	 -
	 Returns - GO::Model::Term
	 Args	 -

   next_node
	 Usage	 -
	 Returns - GO::Model::Term
	 Args	 -

   set_bootstrap_mode
	 Usage	 -
	 Returns -
	 Args	 -

   get_bootstrap_mode
	 Usage	 -
	 Returns -
	 Args	 -

   get_current_path
	 Usage	 -
	 Returns - array ref
	 Args	 - none

   next_node_instance
	 Usage	 -
	 Returns - GO::Model::GraphNodeInstance
	 Args	 -

perl v5.14.2							    2013-02-07					      GO::Model::TreeIterator(3pm)

GO::ObjFactory(3pm)					User Contributed Perl Documentation				       GO::ObjFactory(3pm)

NAME

	 GO::ObjFactory     - GO Object Factory

SYNOPSIS

       You should not use this method directly

DESCRIPTION

       You only need to be aware of this class if you are generating new objects. You should not directly create objects like this:

	 $term = GO::Model::Term->new($h);

       Instead you should create them like this:

	 $fac = GO::ObjFactory->new();
	 $term = $fac->create_term_obj($h);

       Usually you do not need to instantiate a factory, as all objects created with a factory carry around a reference to that factory, so you
       can do this:

	 # $graph object was previously created via a factory
	 $term = $graph->create_term_obj($h);

       If you are only using the go-perl module, then factories do not buy you much. However, if you are also using go-db-perl and GO::AppHandle,
       then factories can be useful - all objects generated from the database will be attached to an AppHandle which means that "lazy loading" can
       be used. See GO::AppHandle in go-db-perl for details

   create_term_obj
	 Usage	 - $term = $apph->create_term_obj;
	 Returns - L<GO::Model::Term>
	 Args	 -

   create_relationship_obj
	 Usage	 - $relationship = $apph->create_relationship_obj;
	 Returns - L<GO::Model::Relationship>
	 Args	 -

   create_xref_obj
	 Usage	 - $xref = $apph->create_xref_obj;
	 Returns - L<GO::Model::Xref>
	 Args	 -

   create_evidence_obj
	 Usage	 - $evidence = $apph->create_evidence_obj;
	 Returns - L<GO::Model::Evidence>
	 Args	 -

   create_seq_obj
	 Usage	 - $seq = $apph->create_seq_obj;
	 Returns - L<GO::Model::Seq>
	 Args	 -

   create_db_obj
	 Usage	 - $db = $apph->create_db_obj;
	 Returns - L<GO::Model::DB>
	 Args	 -

   create_association_obj
	 Usage	 - $association = $apph->create_association_obj;
	 Returns - L<GO::Model::Association>
	 Args	 -

   create_gene_product_obj
	 Usage	 - $gene_product = $apph->create_gene_product_obj;
	 Synonym - create_product_obj
	 Returns - L<GO::Model::GeneProduct>
	 Args	 -

   create_species_obj
	 Usage	 - $species = $apph->create_species_obj;
	 Returns - L<GO::Model::Species>
	 Args	 -

   create_graph_obj
	 Usage	 - $graph = $apph->create_graph_obj;
	 Returns - L<GO::Model::Graph>
	 Args	 -

perl v5.14.2							    2010-05-12						       GO::ObjFactory(3pm)