Examples of com.clarkparsia.pellet.owlapiv3.OWLClassTreePrinter

com.clarkparsia.pellet.owlapiv3.PelletReasoner
TaxonomyPrinter for Taxonomies of OWLClasses (Taxonomy) @author Blazej Bulka

  public void testDLSafeConstants() throws OWLOntologyCreationException {
    String ns = "http://owldl.com/ontologies/dl-safe-constants.owl#";


    OWLOntology ont = loadOntology( base + "dl-safe-constants.owl" );


    PelletReasoner reasoner = PelletReasonerFactory.getInstance().createReasoner( ont );


    OWLClass DreamTeamMember = Class( ns + "DreamTeamMember" );
    OWLClass DreamTeamMember1 = Class( ns + "DreamTeamMember1" );
    OWLClass DreamTeamMember2 = Class( ns + "DreamTeamMember2" );


    OWLIndividual Alice = Individual( ns + "Alice" );
    OWLIndividual Bob = Individual( ns + "Bob" );
    OWLIndividual Charlie = Individual( ns + "Charlie" );


    for( int test = 0; test < 1; test++ ) {
      if( test != 0 ) {
              reasoner.prepareReasoner();
            }


      assertIteratorValues( reasoner.getInstances( DreamTeamMember, false ).getFlattened().iterator(),
          new Object[] { Alice, Bob, Charlie } );


      assertIteratorValues( reasoner.getInstances( DreamTeamMember1, false ).getFlattened().iterator(),
          new Object[] { Alice, Bob, Charlie } );


      assertIteratorValues( reasoner.getInstances( DreamTeamMember2, false ).getFlattened().iterator(),
          new Object[] { Alice, Bob, Charlie } );
    }
  }

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    OWLOntology ont = OWL.Ontology( transitive( p1 ),
        classAssertion( x, all( p1, C ) ), propertyAssertion( x, p1, y ),
        propertyAssertion( y, p1, z ) );


    PelletReasoner reasoner = PelletReasonerFactory.getInstance().createReasoner( ont );


    assertTrue( reasoner.isEntailed( classAssertion( y, C ) ) );
    assertTrue( reasoner.isEntailed( classAssertion( z, C ) ) );


    OWLAxiom[] axioms = new OWLAxiom[] {
        functional( p1 ), inverseFunctional( p1 ), irreflexive( p1 ), asymmetric( p1 ),
        disjointProperties( p1, p2 ), subClassOf( C, min( p1, 2 ) ),
        classAssertion( x, max( p1, 3 ) ), disjointClasses( C, min( p1, 2 ) ) };


    for( int i = 0; i < axioms.length; i++ ) {
      addAxioms( ont, axioms[i] );


      reasoner = PelletReasonerFactory.getInstance().createReasoner( ont );
      assertTrue( axioms[i].toString(), reasoner.isEntailed( classAssertion( y, C ) ) );
      assertFalse( axioms[i].toString(), reasoner.isEntailed( classAssertion( z, C ) ) );


      removeAxioms( ont, axioms[i] );
    }
  }

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  @Test
  public void testInvalidTransitivity2() throws OWLOntologyCreationException {
    OWLOntology ont = loadOntology( base + "invalidTransitivity.owl" );


    PelletReasoner reasoner = PelletReasonerFactory.getInstance().createReasoner( ont );


    KnowledgeBase kb = reasoner.getKB();
    kb.prepare();


    for( Role r : kb.getRBox().getRoles() ) {
      if( !ATermUtils.isBuiltinProperty( r.getName() ) ) {
        assertTrue( r.toString(), r.isSimple() );

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    axioms.add( propertyAssertion( a, q, c ) );


    OWLOntology ont = OWL.Ontology( axioms, ontIRI );


    PelletReasoner reasoner = PelletReasonerFactory.getInstance().createReasoner( ont );


    assertEquals( SetUtils.create( a ), reasoner.getSameIndividuals( a ).getEntities() );
    assertEquals( SetUtils.create( b, c ), reasoner.getSameIndividuals( b ).getEntities() );
    assertEquals( SetUtils.create( b, c ), reasoner.getSameIndividuals( c ).getEntities() );


    assertPropertyValues( reasoner, a, p, b, c );
    
    assertPropertyValues( reasoner, a, q, b, c );

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    axioms.add( classAssertion( i3, c ) );


    OWLOntology ont = OWL.Ontology( axioms, ontIRI );


    PelletReasoner reasoner = PelletReasonerFactory.getInstance().createReasoner( ont );


    assertTrue( !reasoner.isEntailed( sameAs( i1, i2 ) ) );
    assertTrue( !reasoner.isEntailed( sameAs( i1, i3 ) ) );
    assertEquals( SetUtils.create( i1 ), reasoner.getSameIndividuals( i1 ).getEntities() );


    assertTrue( !reasoner.isEntailed( sameAs( i2, i1 ) ) );
    assertTrue( !reasoner.isEntailed( sameAs( i2, i3 ) ) );
    assertEquals( SetUtils.create( i2 ), reasoner.getSameIndividuals( i2 ).getEntities() );


    assertTrue( !reasoner.isEntailed( sameAs( i3, i1 ) ) );
    assertTrue( !reasoner.isEntailed( sameAs( i3, i2 ) ) );
    assertEquals( SetUtils.create( i3 ), reasoner.getSameIndividuals( i3 ).getEntities() );


  }

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      }
    });
  }
  
  private static void runComparisonTest(OWLOntology ontology, ModuleExtractor modExtractor, ReasonerComparisonMethod comparisonMethod) {
    PelletReasoner unified = PelletReasonerFactory.getInstance().createNonBufferingReasoner( ontology );
    IncrementalClassifier modular = PelletIncremantalReasonerFactory.getInstance().createReasoner( ontology, modExtractor );
    
    PelletOptions.USE_CLASSIFICATION_MONITOR = PelletOptions.MonitorType.CONSOLE;
    modular.classify();
    unified.getKB().classify();
    
    comparisonMethod.compare( unified, modular );
    
    modular.dispose();
  }

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    modular.dispose();
  }
  
  private static void runComparisonUpdateTest(OWLOntology ontology, ModuleExtractor modExtractor, 
      Collection<OWLAxiom> additions, Collection<OWLAxiom> deletions, ReasonerComparisonMethod comparisonMethod) {
    PelletReasoner unified = PelletReasonerFactory.getInstance().createNonBufferingReasoner( ontology );
    IncrementalClassifier modular = PelletIncremantalReasonerFactory.getInstance().createReasoner( ontology, modExtractor );


    PelletOptions.USE_CLASSIFICATION_MONITOR = PelletOptions.MonitorType.CONSOLE;
    modular.classify();


    comparisonMethod.compare( unified, modular );
    
    OntologyUtils.addAxioms( ontology, additions );    
    OntologyUtils.removeAxioms( ontology, deletions );
    
    modular.classify();
    unified.flush();
    unified.getKB().classify();
    
    modular.timers.print();


    comparisonMethod.compare( unified, modular );

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    if( log.isLoggable( Level.FINE ) ) {
          log.fine( "Module axioms " + owlModule.getLogicalAxioms() );
        }


    // load the extracted module to a new reasoner
    PelletReasoner moduleReasoner = PelletReasonerFactory.getInstance().createReasoner( owlModule );


    // classify the module
    moduleReasoner.getKB().classify();


    if( log.isLoggable( Level.FINE ) ) {
      log.fine( "Classified module:" );


      new ClassTreePrinter().print( moduleReasoner.getKB().getTaxonomy(), new PrintWriter( System.err ) );
    }


    Taxonomy<OWLClass> moduleTaxonomy = buildClassHierarchy( moduleReasoner );


    Set<OWLClass> affectedCls = new HashSet<OWLClass>();

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    OWLAPILoader loader = (OWLAPILoader) getLoader( "OWLAPIv3" );
    
    getKB();
    
    PelletReasoner reasoner = loader.getReasoner();
    
    OWLOntology entailmentOntology = null;
    try {
      verbose( "Loading entailment file: " );
      verbose( entailmentFile );

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    OWLSubClassOfAxiom sc = factory.getOWLSubClassOfAxiom(c,
        dataSomeRestriction);


    manager.addAxiom(ontology, sc);
    
    PelletReasoner reasoner = PelletReasonerFactory.getInstance().createReasoner(ontology);


    assertTrue(reasoner.isConsistent());
    
    KnowledgeBase kb = reasoner.getKB();
    assertTrue(kb.isClass(term("http://example#c")));
    
    // check for complex class that refers to a user-defined datatype 
    ATermAppl term = reasoner.term( dataSomeRestriction );
    term = ATermUtils.normalize( term );
    assertTrue( kb.isClass( term ) );    
  }

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Related Classes of com.clarkparsia.pellet.owlapiv3.OWLClassTreePrinter

aterm.ATerm

aterm.ATermAppl

aterm.ATermList

com.clarkparsia.explanation.test.MiscExplanationTests

com.clarkparsia.explanation.test.OWLAPIExplanationTest

com.clarkparsia.modularity.IncrementalClassifier

com.clarkparsia.modularity.test.PersistenceClassificationTest

com.clarkparsia.modularity.test.PersistenceRealizationTest

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com.clarkparsia.modularity.test.TestUtils

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