incremental development for sameAs reasoning
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stellamit
parent
cd8daf7f55
commit
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3 changed files with 1026 additions and 259 deletions
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@ -18,7 +18,7 @@ import com.hp.hpl.jena.rdf.model.Resource;
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import edu.cornell.mannlib.vitro.testing.AbstractTestClass;
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import edu.cornell.mannlib.vitro.testing.AbstractTestClass;
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import edu.cornell.mannlib.vitro.webapp.utils.threads.VitroBackgroundThread;
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import edu.cornell.mannlib.vitro.webapp.utils.threads.VitroBackgroundThread;
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public class SimpleReasonerPropertyTest extends AbstractTestClass {
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public class SimpleReasonerInversePropertyTest extends AbstractTestClass {
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long delay = 50;
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long delay = 50;
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@ -439,8 +439,6 @@ public class SimpleReasonerPropertyTest extends AbstractTestClass {
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SimpleReasoner simpleReasoner = new SimpleReasoner(tBox, aBox, inf);
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SimpleReasoner simpleReasoner = new SimpleReasoner(tBox, aBox, inf);
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aBox.register(simpleReasoner);
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aBox.register(simpleReasoner);
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SimpleReasonerTBoxListener simpleReasonerTBoxListener = getTBoxListener(simpleReasoner);
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tBox.register(simpleReasonerTBoxListener);
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// Individuals a, b, c and d
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// Individuals a, b, c and d
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Resource a = aBox.createResource("http://test.vivo/a");
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Resource a = aBox.createResource("http://test.vivo/a");
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Resource b = aBox.createResource("http://test.vivo/b");
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Resource b = aBox.createResource("http://test.vivo/b");
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@ -460,8 +458,6 @@ public class SimpleReasonerPropertyTest extends AbstractTestClass {
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// Verify inferences
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// Verify inferences
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Assert.assertTrue(inf.contains(b,Q,a));
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Assert.assertTrue(inf.contains(b,Q,a));
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Assert.assertTrue(inf.contains(d,Y,c));
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Assert.assertTrue(inf.contains(d,Y,c));
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simpleReasonerTBoxListener.setStopRequested();
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}
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}
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//==================================== Utility methods ====================
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//==================================== Utility methods ====================
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@ -0,0 +1,430 @@
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/* $This file is distributed under the terms of the license in /doc/license.txt$ */
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package edu.cornell.mannlib.vitro.webapp.reasoner;
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import org.apache.log4j.Level;
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import org.junit.Assert;
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import org.junit.Before;
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import org.junit.Test;
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import org.mindswap.pellet.jena.PelletReasonerFactory;
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import com.hp.hpl.jena.ontology.OntClass;
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import com.hp.hpl.jena.ontology.OntModel;
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import com.hp.hpl.jena.ontology.OntModelSpec;
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import com.hp.hpl.jena.ontology.OntProperty;
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import com.hp.hpl.jena.rdf.model.Literal;
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import com.hp.hpl.jena.rdf.model.Model;
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import com.hp.hpl.jena.rdf.model.ModelFactory;
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import com.hp.hpl.jena.rdf.model.Resource;
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import com.hp.hpl.jena.vocabulary.OWL;
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import com.hp.hpl.jena.vocabulary.RDF;
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import edu.cornell.mannlib.vitro.testing.AbstractTestClass;
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import edu.cornell.mannlib.vitro.webapp.utils.threads.VitroBackgroundThread;
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public class SimpleReasonerSameAsTest extends AbstractTestClass {
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long delay = 50;
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@Before
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public void suppressErrorOutput() {
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suppressSyserr();
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//Turn off log messages to console
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setLoggerLevel(SimpleReasoner.class, Level.OFF);
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setLoggerLevel(SimpleReasonerTBoxListener.class, Level.OFF);
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}
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/*
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* basic scenario of adding an abox sameAs assertion
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//*/
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@Test
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public void addSameAsABoxAssertion1() {
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OntModel tBox = ModelFactory.createOntologyModel(PelletReasonerFactory.THE_SPEC);
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OntProperty P = tBox.createObjectProperty("http://test.vivo/P");
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P.setLabel("property P", "en-US");
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OntProperty Q = tBox.createObjectProperty("http://test.vivo/Q");
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Q.setLabel("property Q", "en-US");
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OntProperty S = tBox.createDatatypeProperty("http://test.vivo/");
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S.setLabel("property S", "en-US");
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OntProperty T = tBox.createDatatypeProperty("http://test.vivo/");
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T.setLabel("property T", "en-US");
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Literal literal1 = tBox.createLiteral("Literal value 1");
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Literal literal2 = tBox.createLiteral("Literal value 2");
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// this is the model to receive inferences
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Model inf = ModelFactory.createDefaultModel();
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// create an ABox and register the SimpleReasoner listener with it
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OntModel aBox = ModelFactory.createOntologyModel(OntModelSpec.OWL_MEM);
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aBox.register(new SimpleReasoner(tBox, aBox, inf));
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// Individuals a, b, c and d
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Resource a = aBox.createResource("http://test.vivo/a");
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Resource b = aBox.createResource("http://test.vivo/b");
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Resource c = aBox.createResource("http://test.vivo/c");
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Resource d = aBox.createResource("http://test.vivo/d");
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aBox.add(a,P,c);
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aBox.add(a,S,literal1);
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aBox.add(b,Q,d);
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aBox.add(b,T,literal2);
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aBox.add(a,OWL.sameAs,b);
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Assert.assertTrue(inf.contains(b,OWL.sameAs,a));
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Assert.assertTrue(inf.contains(b,P,c));
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Assert.assertTrue(inf.contains(b,S,literal1));
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Assert.assertTrue(inf.contains(a,Q,d));
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Assert.assertTrue(inf.contains(a,T,literal2));
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Assert.assertFalse(aBox.contains(b,OWL.sameAs,a));
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Assert.assertFalse(aBox.contains(b,P,c));
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Assert.assertFalse(aBox.contains(b,S,literal1));
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Assert.assertFalse(aBox.contains(a,Q,d));
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Assert.assertFalse(aBox.contains(a,T,literal2));
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}
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/*
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* basic scenario of removing an abox sameAs assertion
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*/
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@Test
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public void removeSameAsABoxAssertion1() {
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OntModel tBox = ModelFactory.createOntologyModel(PelletReasonerFactory.THE_SPEC);
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OntProperty P = tBox.createObjectProperty("http://test.vivo/P");
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P.setLabel("property P", "en-US");
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OntProperty Q = tBox.createObjectProperty("http://test.vivo/Q");
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Q.setLabel("property Q", "en-US");
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OntProperty S = tBox.createDatatypeProperty("http://test.vivo/");
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S.setLabel("property S", "en-US");
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OntProperty T = tBox.createDatatypeProperty("http://test.vivo/");
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T.setLabel("property T", "en-US");
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Literal literal1 = tBox.createLiteral("Literal value 1");
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Literal literal2 = tBox.createLiteral("Literal value 2");
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// this is the model to receive inferences
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Model inf = ModelFactory.createDefaultModel();
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// create an ABox and register the SimpleReasoner listener with it
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OntModel aBox = ModelFactory.createOntologyModel(OntModelSpec.OWL_MEM);
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aBox.register(new SimpleReasoner(tBox, aBox, inf));
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// Individuals a, b, c and d
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Resource a = aBox.createResource("http://test.vivo/a");
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Resource b = aBox.createResource("http://test.vivo/b");
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Resource c = aBox.createResource("http://test.vivo/c");
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Resource d = aBox.createResource("http://test.vivo/d");
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aBox.add(a,P,c);
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aBox.add(a,S,literal1);
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aBox.add(b,Q,d);
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aBox.add(b,T,literal2);
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aBox.add(a,OWL.sameAs,b);
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Assert.assertTrue(inf.contains(b,OWL.sameAs,a));
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Assert.assertTrue(inf.contains(b,P,c));
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Assert.assertTrue(inf.contains(b,S,literal1));
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Assert.assertTrue(inf.contains(a,Q,d));
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Assert.assertTrue(inf.contains(a,T,literal2));
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aBox.remove(a,OWL.sameAs,b);
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Assert.assertFalse(inf.contains(b,OWL.sameAs,a));
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Assert.assertFalse(inf.contains(b,P,c));
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Assert.assertFalse(inf.contains(b,S,literal1));
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Assert.assertFalse(inf.contains(a,Q,d));
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Assert.assertFalse(inf.contains(a,T,literal2));
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}
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/*
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* basic scenario of adding an abox assertion for
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* an individual is sameAs another.
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*/
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@Test
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public void addABoxAssertion1() {
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OntModel tBox = ModelFactory.createOntologyModel(PelletReasonerFactory.THE_SPEC);
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OntProperty P = tBox.createObjectProperty("http://test.vivo/P");
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P.setLabel("property P", "en-US");
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OntProperty Q = tBox.createObjectProperty("http://test.vivo/Q");
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Q.setLabel("property Q", "en-US");
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OntProperty S = tBox.createDatatypeProperty("http://test.vivo/");
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S.setLabel("property S", "en-US");
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OntProperty T = tBox.createDatatypeProperty("http://test.vivo/");
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T.setLabel("property T", "en-US");
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Literal literal1 = tBox.createLiteral("Literal value 1");
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Literal literal2 = tBox.createLiteral("Literal value 2");
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// this is the model to receive inferences
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Model inf = ModelFactory.createDefaultModel();
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// create an ABox and register the SimpleReasoner listener with it
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OntModel aBox = ModelFactory.createOntologyModel(OntModelSpec.OWL_MEM);
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aBox.register(new SimpleReasoner(tBox, aBox, inf));
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// Individuals a, b, c and d
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Resource a = aBox.createResource("http://test.vivo/a");
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Resource b = aBox.createResource("http://test.vivo/b");
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Resource c = aBox.createResource("http://test.vivo/c");
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Resource d = aBox.createResource("http://test.vivo/d");
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aBox.add(a,OWL.sameAs,b);
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Assert.assertTrue(inf.contains(b,OWL.sameAs,a));
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aBox.add(a,P,c);
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aBox.add(a,S,literal1);
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aBox.add(b,Q,d);
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aBox.add(b,T,literal2);
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Assert.assertTrue(inf.contains(b,P,c));
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Assert.assertTrue(inf.contains(b,S,literal1));
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Assert.assertTrue(inf.contains(a,Q,d));
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Assert.assertTrue(inf.contains(a,T,literal2));
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}
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/*
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* adding abox assertion for individuals that are sameAs
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* each other.
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*/
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@Test
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public void addABoxAssertion2() {
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OntModel tBox = ModelFactory.createOntologyModel(PelletReasonerFactory.THE_SPEC);
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OntClass classA = tBox.createClass("http://test.vivo/A");
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classA.setLabel("class A", "en-US");
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OntClass classB = tBox.createClass("http://test.vivo/B");
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classB.setLabel("class B", "en-US");
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classA.addSubClass(classB);
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OntProperty desc = tBox.createDatatypeProperty("http://test.vivo/desc");
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desc.setLabel("property desc", "en-US");
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Literal desc1 = tBox.createLiteral("individual 1");
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Literal desc2 = tBox.createLiteral("individual 2");
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// this is the model to receive inferences
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Model inf = ModelFactory.createDefaultModel();
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// create an ABox and register the SimpleReasoner listener with it
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OntModel aBox = ModelFactory.createOntologyModel(OntModelSpec.OWL_MEM);
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aBox.register(new SimpleReasoner(tBox, aBox, inf));
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// Individuals a and b
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Resource a = aBox.createResource("http://test.vivo/a");
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Resource b = aBox.createResource("http://test.vivo/b");
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aBox.add(a,desc,desc1);
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aBox.add(b,desc,desc2);
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aBox.add(a,OWL.sameAs,b);
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aBox.add(a, RDF.type, classB);
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Assert.assertTrue(inf.contains(a,desc,desc2));
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Assert.assertTrue(inf.contains(a,RDF.type,classA));
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Assert.assertTrue(inf.contains(b,desc,desc1));
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Assert.assertTrue(inf.contains(b,OWL.sameAs,a));
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Assert.assertTrue(inf.contains(b,RDF.type,classB));
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Assert.assertTrue(inf.contains(b,RDF.type,classA));
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}
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/*
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* basic scenario of removing an abox assertion for
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* an individual is sameAs another.
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*/
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@Test
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public void removeABoxAssertion1() {
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OntModel tBox = ModelFactory.createOntologyModel(PelletReasonerFactory.THE_SPEC);
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OntProperty P = tBox.createObjectProperty("http://test.vivo/P");
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P.setLabel("property P", "en-US");
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OntProperty Q = tBox.createObjectProperty("http://test.vivo/Q");
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Q.setLabel("property Q", "en-US");
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OntProperty S = tBox.createDatatypeProperty("http://test.vivo/");
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S.setLabel("property S", "en-US");
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OntProperty T = tBox.createDatatypeProperty("http://test.vivo/");
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T.setLabel("property T", "en-US");
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Literal literal1 = tBox.createLiteral("Literal value 1");
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Literal literal2 = tBox.createLiteral("Literal value 2");
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// this is the model to receive inferences
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Model inf = ModelFactory.createDefaultModel();
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// create an ABox and register the SimpleReasoner listener with it
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OntModel aBox = ModelFactory.createOntologyModel(OntModelSpec.OWL_MEM);
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aBox.register(new SimpleReasoner(tBox, aBox, inf));
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// Individuals a, b, c and d
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Resource a = aBox.createResource("http://test.vivo/a");
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Resource b = aBox.createResource("http://test.vivo/b");
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Resource c = aBox.createResource("http://test.vivo/c");
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Resource d = aBox.createResource("http://test.vivo/d");
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aBox.add(a,P,c);
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aBox.add(a,S,literal1);
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aBox.add(b,Q,d);
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aBox.add(b,T,literal2);
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aBox.add(a,OWL.sameAs,b);
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aBox.remove(a,P,c);
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aBox.remove(a,S,literal1);
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Assert.assertFalse(inf.contains(b,P,c));
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Assert.assertFalse(inf.contains(b,S,literal1));
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}
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/*
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* adding an inverseOf assertion for individuals who are sameAs
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* each other.
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*/
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@Test
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public void addTBoxInverseAssertion1() throws InterruptedException {
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// Create TBox, ABox and Inference models and register
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// the ABox reasoner listeners with the ABox and TBox
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// Pellet will compute TBox inferences
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OntModel tBox = ModelFactory.createOntologyModel(PelletReasonerFactory.THE_SPEC);
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OntProperty P = tBox.createOntProperty("http://test.vivo/P");
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P.setLabel("property P", "en-US");
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OntProperty Q = tBox.createOntProperty("http://test.vivo/Q");
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Q.setLabel("property Q", "en-US");
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OntModel aBox = ModelFactory.createOntologyModel(OntModelSpec.OWL_MEM);
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Model inf = ModelFactory.createDefaultModel();
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||||||
|
|
||||||
|
SimpleReasoner simpleReasoner = new SimpleReasoner(tBox, aBox, inf);
|
||||||
|
aBox.register(simpleReasoner);
|
||||||
|
SimpleReasonerTBoxListener simpleReasonerTBoxListener = getTBoxListener(simpleReasoner);
|
||||||
|
tBox.register(simpleReasonerTBoxListener);
|
||||||
|
|
||||||
|
// Individuals a and b
|
||||||
|
Resource a = aBox.createResource("http://test.vivo/a");
|
||||||
|
Resource b = aBox.createResource("http://test.vivo/b");
|
||||||
|
|
||||||
|
// abox statements
|
||||||
|
aBox.add(a,P,b);
|
||||||
|
aBox.add(a, OWL.sameAs,b);
|
||||||
|
|
||||||
|
// Assert P and Q as inverses and wait for SimpleReasoner TBox
|
||||||
|
// thread to end
|
||||||
|
|
||||||
|
Q.addInverseOf(P);
|
||||||
|
|
||||||
|
tBox.rebind();
|
||||||
|
tBox.prepare();
|
||||||
|
|
||||||
|
while (!VitroBackgroundThread.getLivingThreads().isEmpty()) {
|
||||||
|
Thread.sleep(delay);
|
||||||
|
}
|
||||||
|
|
||||||
|
// Verify inferences
|
||||||
|
Assert.assertTrue(inf.contains(b,Q,a));
|
||||||
|
Assert.assertTrue(inf.contains(b,OWL.sameAs,a));
|
||||||
|
Assert.assertTrue(inf.contains(b,P,b));
|
||||||
|
Assert.assertTrue(inf.contains(a,Q,a));
|
||||||
|
simpleReasonerTBoxListener.setStopRequested();
|
||||||
|
}
|
||||||
|
|
||||||
|
/*
|
||||||
|
* Basic scenario around recomputing the ABox inferences
|
||||||
|
*/
|
||||||
|
@Test
|
||||||
|
public void recomputeABox1() throws InterruptedException {
|
||||||
|
|
||||||
|
OntModel tBox = ModelFactory.createOntologyModel(PelletReasonerFactory.THE_SPEC);
|
||||||
|
|
||||||
|
OntProperty P = tBox.createObjectProperty("http://test.vivo/P");
|
||||||
|
P.setLabel("property P", "en-US");
|
||||||
|
|
||||||
|
OntProperty Q = tBox.createObjectProperty("http://test.vivo/Q");
|
||||||
|
Q.setLabel("property Q", "en-US");
|
||||||
|
|
||||||
|
OntProperty S = tBox.createDatatypeProperty("http://test.vivo/");
|
||||||
|
S.setLabel("property S", "en-US");
|
||||||
|
|
||||||
|
OntProperty T = tBox.createDatatypeProperty("http://test.vivo/");
|
||||||
|
T.setLabel("property T", "en-US");
|
||||||
|
|
||||||
|
Literal literal1 = tBox.createLiteral("Literal value 1");
|
||||||
|
Literal literal2 = tBox.createLiteral("Literal value 2");
|
||||||
|
|
||||||
|
// this is the model to receive inferences
|
||||||
|
Model inf = ModelFactory.createDefaultModel();
|
||||||
|
|
||||||
|
// create an ABox and register the SimpleReasoner listener with it
|
||||||
|
OntModel aBox = ModelFactory.createOntologyModel(OntModelSpec.OWL_MEM);
|
||||||
|
SimpleReasoner simpleReasoner = new SimpleReasoner(tBox, aBox, inf);
|
||||||
|
aBox.register(simpleReasoner);
|
||||||
|
|
||||||
|
// Individuals a, b, c and d
|
||||||
|
Resource a = aBox.createResource("http://test.vivo/a");
|
||||||
|
Resource b = aBox.createResource("http://test.vivo/b");
|
||||||
|
Resource c = aBox.createResource("http://test.vivo/c");
|
||||||
|
Resource d = aBox.createResource("http://test.vivo/d");
|
||||||
|
|
||||||
|
aBox.add(a,P,c);
|
||||||
|
aBox.add(a,S,literal1);
|
||||||
|
aBox.add(b,Q,d);
|
||||||
|
aBox.add(b,T,literal2);
|
||||||
|
aBox.add(a,OWL.sameAs,b);
|
||||||
|
|
||||||
|
simpleReasoner.recompute();
|
||||||
|
|
||||||
|
while (simpleReasoner.isRecomputing()) {
|
||||||
|
Thread.sleep(delay);
|
||||||
|
}
|
||||||
|
|
||||||
|
// Verify inferences
|
||||||
|
Assert.assertTrue(inf.contains(b,OWL.sameAs,a));
|
||||||
|
Assert.assertTrue(inf.contains(b,P,c));
|
||||||
|
Assert.assertTrue(inf.contains(b,S,literal1));
|
||||||
|
Assert.assertTrue(inf.contains(a,Q,d));
|
||||||
|
Assert.assertTrue(inf.contains(a,T,literal2));
|
||||||
|
}
|
||||||
|
|
||||||
|
//==================================== Utility methods ====================
|
||||||
|
SimpleReasonerTBoxListener getTBoxListener(SimpleReasoner simpleReasoner) {
|
||||||
|
return new SimpleReasonerTBoxListener(simpleReasoner, new Exception().getStackTrace()[1].getMethodName());
|
||||||
|
}
|
||||||
|
|
||||||
|
// To help in debugging the unit test
|
||||||
|
void printModel(Model model, String modelName) {
|
||||||
|
|
||||||
|
System.out.println("\nThe " + modelName + " model has " + model.size() + " statements:");
|
||||||
|
System.out.println("---------------------------------------------------------------------");
|
||||||
|
model.write(System.out);
|
||||||
|
}
|
||||||
|
|
||||||
|
// To help in debugging the unit test
|
||||||
|
void printModel(OntModel ontModel, String modelName) {
|
||||||
|
|
||||||
|
System.out.println("\nThe " + modelName + " model has " + ontModel.size() + " statements:");
|
||||||
|
System.out.println("---------------------------------------------------------------------");
|
||||||
|
ontModel.writeAll(System.out,"N3",null);
|
||||||
|
|
||||||
|
}
|
||||||
|
}
|
||||||
Loading…
Add table
Reference in a new issue