diff options
Diffstat (limited to 'lib/owl.rb')
| -rw-r--r-- | lib/owl.rb | 60 |
1 files changed, 23 insertions, 37 deletions
@@ -2,7 +2,7 @@ module OpenTox module Owl - attr_reader :uri, :model + attr_reader :uri#, :model def initialize @@ -10,36 +10,10 @@ module OpenTox @parser = Redland::Parser.new @serializer = Redland::Serializer.ntriples - # explicit typing - # this should come from http://opentox.org/data/documents/development/RDF%20files/OpenToxOntology/at_download/file (does not pass OWL-DL validation) - @parser.parse_into_model(@model,"http://opentox.org/data/documents/development/RDF%20files/OpenToxOntology/at_download/file") -=begin - @model.add @uri, RDF['type'], OWL['Ontology'] - # annotation properties - @model.add DC['source'], RDF['type'], OWL["AnnotationProperty"] - @model.add DC['identifier'], RDF['type'], OWL["AnnotationProperty"] - @model.add DC['title'], RDF['type'], OWL["AnnotationProperty"] - # object properties - @model.add OT['feature'], RDF['type'], OWL["ObjectProperty"] - @model.add OT['compound'], RDF['type'], OWL["ObjectProperty"] - @model.add OT['values'], RDF['type'], OWL["ObjectProperty"] - @model.add OT['tuple'], RDF['type'], OWL["ObjectProperty"] # added by ch - @model.add OT['parameters'], RDF['type'], OWL["ObjectProperty"] - # datatype properties - @model.add OT['value'], RDF['type'], OWL["DatatypeProperty"] - @model.add OT['paramValue'], RDF['type'], OWL["DatatypeProperty"] - @model.add OT['paramScope'], RDF['type'], OWL["DatatypeProperty"] - @model.add OT['hasSource'], RDF['type'], OWL["DatatypeProperty"] - # classes - @model.add OT['Dataset'], RDF['type'], OWL["Class"] - @model.add OT['FeatureValue'], RDF['type'], OWL["Class"] - @model.add OT['Tuple'], RDF['type'], OWL["Class"] # added by ch - @model.add OT['Feature'], RDF['type'], OWL["Class"] - @model.add OT['Compound'], RDF['type'], OWL["Class"] - @model.add OT['DataEntry'], RDF['type'], OWL["Class"] - @model.add OT['Parameter'], RDF['type'], OWL["Class"] - @model.add OT['Algorithm'], RDF['type'], OWL["Class"] -=end + # read OT Ontology + #@parser.parse_into_model(@model,"http://opentox.org/data/documents/development/RDF%20files/OpenToxOntology/at_download/file") + @parser.parse_string_into_model(@model,File.read(File.join(File.dirname(__FILE__),"opentox.owl")),'/') + #@model.add OT['ComplexValue'], RDF['type'], OWL["Class"] # added by ch end def owl_class @@ -62,7 +36,11 @@ module OpenTox end def uri=(uri) - identifier = uri + @uri = uri + me = @model.subject(RDF['type'],OT[self.owl_class]) + identifier = @model.object(me, DC['identifier']) + @model.delete me, DC['identifier'], identifier + @model.add me, DC['identifier'], uri end def to_ntriples @@ -70,8 +48,18 @@ module OpenTox end def title - #puts OT[self.owl_class] - @model.object(OT[self.owl_class], DC['title']).to_s + me = @model.subject(RDF['type'],OT[self.owl_class]) + @model.object(me, DC['title']).to_s unless me.nil? + end + + def source + me = @model.subject(RDF['type'],OT[self.owl_class]) + @model.object(me, DC['source']).to_s unless me.nil? + end + + def identifier + me = @model.subject(RDF['type'],OT[self.owl_class]) + @model.object(me, DC['identifier']).to_s unless me.nil? end def parameters=(params) @@ -87,12 +75,10 @@ module OpenTox def create_owl_statement(name,value) r = @model.create_resource dc_class = DC[name.gsub(/^[a-z]/) { |a| a.upcase }] # capitalize only the first letter + #puts "DC:" + name.gsub(/^[a-z]/) { |a| a.upcase } @model.add dc_class, RDF['type'], OWL["Class"] @model.add r, RDF['type'], dc_class @model.add r, DC[name], value - #puts r - #puts DC[name.gsub(/^[a-z]/) { |a| a.upcase }] # capitalize only the first letter - #puts DC[name] # capitalize only the first letter end def method_missing(name, *args) |