/ 
OWL-Simple-0.4
River stage one • 1 direct dependent • 1 total dependent
/ OWL::Simple::Parser

NAME

OWL::Simple::Parser

SYNOPSIS

use OWL::Simple::Parser;
	use Log::Log4perl qw(:easy);
Log::Log4perl->easy_init( { level => $INFO, layout => '%-5p - %m%n' } );

# load Experimental Factor Ontology
my $parser = OWL::Simple::Parser->new(  owlfile => 'efo.owl',
										synonym_tag => 'alternative_term' );

# parse file
$parser->parse();

INFO "Loaded "
  . $parser->class_count()
  . " classes and "
  . $parser->synonyms_count()
  . " synonyms";

# iterate through all the classes
# for each class print the id, label and synonyms
for my $OWLClass ( @{ $parser->termlist } ) {
	INFO $OWLClass->id . ' ' . $OWLClass->label;
	for my $syn (@{ $OWLClass->synonyms }){
		INFO "\tsynonym - $syn";
	}
}

DESCRIPTION

A simple OWL parser loading accessions, labels and synonyms and exposes them as a collection of OWL::Simple::Class objects.

In the constructor specify the owlfile to be loaded and an optional synonym_tag used in the ontology (example FULL_SYN for NCI Thesaurus).

METHODS

class_count()

Number of classes loaded by the parser.

synonyms_count()

Number of synonyms loaded by the parser.

term_list

Returns an array with all the OWL::Simple::Class objects

AUTHOR

Tomasz Adamusiak 2010

COPYRIGHT AND LICENSE

Copyright (c) 2010 European Bioinformatics Institute. All Rights Reserved.

This module is free software; you can redistribute it and/or modify it under GPLv3.

This software is provided "as is" without warranty of any kind.