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[DL-Learner SVN] SF.net SVN: dl-learner:[3611] trunk/components-core/src
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From: <sha...@us...> - 2012-03-15 02:34:14
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Revision: 3611
http://dl-learner.svn.sourceforge.net/dl-learner/?rev=3611&view=rev
Author: shadowtm
Date: 2012-03-15 02:34:07 +0000 (Thu, 15 Mar 2012)
Log Message:
-----------
Added support of the OWLAPIOntology to implement the OWLOntologyKnowledgeSource interface to provide thread safe access to its underlying ontology.
Also added a convenience class in support of this which can convert an OWL Ontology to a byte array and back again. Using this we can ensure disconnection occurs from OWL Ontology Managers.
Modified Paths:
--------------
trunk/components-core/src/main/java/org/dllearner/kb/OWLAPIOntology.java
trunk/components-core/src/main/java/org/dllearner/reasoning/OWLAPIReasoner.java
trunk/components-core/src/main/java/org/dllearner/reasoning/PelletReasoner.java
trunk/components-core/src/main/java/org/dllearner/reasoning/ProtegeReasoner.java
trunk/components-core/src/main/java/org/dllearner/reasoning/fuzzydll/FuzzyOWLAPIReasoner.java
Added Paths:
-----------
trunk/components-core/src/main/java/org/dllearner/utilities/owl/OntologyToByteConverter.java
trunk/components-core/src/main/java/org/dllearner/utilities/owl/SimpleOntologyToByteConverter.java
trunk/components-core/src/test/java/org/dllearner/kb/
trunk/components-core/src/test/java/org/dllearner/kb/OWLAPIOntologyTest.java
trunk/components-core/src/test/java/org/dllearner/utilities/
trunk/components-core/src/test/java/org/dllearner/utilities/owl/
trunk/components-core/src/test/java/org/dllearner/utilities/owl/OntologyToByteConverterTest.java
trunk/components-core/src/test/java/org/dllearner/utilities/owl/SimpleOntologyToByteConverterTest.java
trunk/components-core/src/test/resources/org/
trunk/components-core/src/test/resources/org/dllearner/
trunk/components-core/src/test/resources/org/dllearner/kb/
trunk/components-core/src/test/resources/org/dllearner/kb/owl-api-ontology-data.owl
trunk/components-core/src/test/resources/org/dllearner/utilities/
trunk/components-core/src/test/resources/org/dllearner/utilities/owl/
trunk/components-core/src/test/resources/org/dllearner/utilities/owl/byte-conversion-data.owl
Modified: trunk/components-core/src/main/java/org/dllearner/kb/OWLAPIOntology.java
===================================================================
--- trunk/components-core/src/main/java/org/dllearner/kb/OWLAPIOntology.java 2012-03-14 17:27:16 UTC (rev 3610)
+++ trunk/components-core/src/main/java/org/dllearner/kb/OWLAPIOntology.java 2012-03-15 02:34:07 UTC (rev 3611)
@@ -21,57 +21,45 @@
import java.io.File;
import java.net.URI;
-import java.util.Iterator;
-import java.util.Set;
import org.dllearner.core.AbstractKnowledgeSource;
import org.dllearner.core.OntologyFormat;
import org.dllearner.core.options.ConfigEntry;
import org.dllearner.core.options.InvalidConfigOptionValueException;
import org.dllearner.core.owl.KB;
-import org.semanticweb.owlapi.model.OWLClass;
-import org.semanticweb.owlapi.model.OWLDataProperty;
-import org.semanticweb.owlapi.model.OWLNamedIndividual;
-import org.semanticweb.owlapi.model.OWLObjectProperty;
-import org.semanticweb.owlapi.model.OWLOntology;
+import org.dllearner.utilities.owl.OntologyToByteConverter;
+import org.dllearner.utilities.owl.SimpleOntologyToByteConverter;
+import org.semanticweb.owlapi.model.*;
-public class OWLAPIOntology extends AbstractKnowledgeSource {
+/**
+ * This class provides a wrapper around a single OWL Ontology. However, due to threading issues it is not safe
+ * to allow access to ontologies created with an Ontology Manager which we do not control.
+ */
+public class OWLAPIOntology extends AbstractKnowledgeSource implements OWLOntologyKnowledgeSource{
- private OWLOntology ontology;
- private Set<OWLOntology> ontologies;
- private Set<OWLClass> classes;
- private Set<OWLObjectProperty> prop;
- private Set<OWLDataProperty> dataProp;
- private Set<OWLNamedIndividual> individuals;
+ private byte[] ontologyBytes;
+ private OntologyToByteConverter converter = new SimpleOntologyToByteConverter();
+
- public OWLAPIOntology() {
- this(null);
- }
+ public OWLAPIOntology(OWLOntology onto) {
+ ontologyBytes = converter.convert(onto);
+ }
- public OWLAPIOntology(OWLOntology onto)
- {
- this.ontology = onto;
- classes = ontology.getClassesInSignature();
- prop = ontology.getObjectPropertiesInSignature();
- dataProp = ontology.getDataPropertiesInSignature();
- individuals = ontology.getIndividualsInSignature();
- }
-
public static String getName() {
return "OWL API Ontology";
}
-
- @Override
+
+ @Override
+ public OWLOntology createOWLOntology(OWLOntologyManager manager) {
+ return converter.convert(ontologyBytes, manager);
+ }
+
+ @Override
public <T> void applyConfigEntry(ConfigEntry<T> entry) throws InvalidConfigOptionValueException
{
}
- public OWLOntology getOWLOntolgy()
- {
- return ontology;
- }
-
@Override
public KB toKB()
{
@@ -95,45 +83,22 @@
{
return null;
}
-
- public void setOWLOntologies(Set<OWLOntology> onto) {
- ontologies = onto;
- System.out.println("ONTO: " + ontologies);
- Iterator<OWLOntology> it = ontologies.iterator();
- while(it.hasNext()) {
- OWLOntology ont = it.next();
- if(ont.getClassesInSignature() != null) {
- classes.addAll(ont.getClassesInSignature());
- }
- if(ont.getObjectPropertiesInSignature() != null) {
- prop.addAll(ont.getObjectPropertiesInSignature());
- }
- if(ont.getDataPropertiesInSignature() != null) {
- dataProp.addAll(ont.getDataPropertiesInSignature());
- }
- if(ont.getIndividualsInSignature() != null) {
- individuals.addAll(ont.getIndividualsInSignature());
- }
- }
- }
-
- public Set<OWLOntology> getOWLOnntologies() {
- return ontologies;
- }
-
- public Set<OWLClass> getOWLClasses() {
- return classes;
- }
-
- public Set<OWLObjectProperty> getOWLObjectProperies() {
- return prop;
- }
-
- public Set<OWLDataProperty> getOWLDataProperies() {
- return dataProp;
- }
-
- public Set<OWLNamedIndividual> getOWLIndividuals() {
- return individuals;
- }
+
+ /**
+ * Get the OntologyToByteConverter associated with this object.
+ *
+ * @return The OntologyToByteConverter associated with this object.
+ */
+ public OntologyToByteConverter getConverter() {
+ return converter;
+ }
+
+ /**
+ * Set the OntologyToByteConverter associated with this object.
+ *
+ * @param converter the OntologyToByteConverter to associate with this object.
+ */
+ public void setConverter(OntologyToByteConverter converter) {
+ this.converter = converter;
+ }
}
Modified: trunk/components-core/src/main/java/org/dllearner/reasoning/OWLAPIReasoner.java
===================================================================
--- trunk/components-core/src/main/java/org/dllearner/reasoning/OWLAPIReasoner.java 2012-03-14 17:27:16 UTC (rev 3610)
+++ trunk/components-core/src/main/java/org/dllearner/reasoning/OWLAPIReasoner.java 2012-03-15 02:34:07 UTC (rev 3611)
@@ -161,11 +161,7 @@
if (source instanceof OWLFile || source instanceof SparqlKnowledgeSource || source instanceof SparqlSimpleExtractor || source instanceof OWLAPIOntology) {
- if (source instanceof OWLAPIOntology) {
- ontology = ((OWLAPIOntology) source).getOWLOntolgy();
- manager = ontology.getOWLOntologyManager();
- owlAPIOntologies.add(ontology);
- } else if (source instanceof SparqlKnowledgeSource) {
+ if (source instanceof SparqlKnowledgeSource) {
ontology = ((SparqlKnowledgeSource) source).getOWLAPIOntology();
manager = ontology.getOWLOntologyManager();
owlAPIOntologies.add(ontology);
Modified: trunk/components-core/src/main/java/org/dllearner/reasoning/PelletReasoner.java
===================================================================
--- trunk/components-core/src/main/java/org/dllearner/reasoning/PelletReasoner.java 2012-03-14 17:27:16 UTC (rev 3610)
+++ trunk/components-core/src/main/java/org/dllearner/reasoning/PelletReasoner.java 2012-03-15 02:34:07 UTC (rev 3611)
@@ -22,7 +22,6 @@
import java.io.File;
import java.net.URI;
import java.net.URISyntaxException;
-import java.net.URL;
import java.util.Collection;
import java.util.Collections;
import java.util.Comparator;
@@ -78,6 +77,7 @@
import org.dllearner.core.owl.UntypedConstant;
import org.dllearner.kb.OWLAPIOntology;
import org.dllearner.kb.OWLFile;
+import org.dllearner.kb.OWLOntologyKnowledgeSource;
import org.dllearner.kb.sparql.SparqlKnowledgeSource;
import org.dllearner.utilities.Helper;
import org.dllearner.utilities.owl.ConceptComparator;
@@ -200,35 +200,30 @@
for (AbstractKnowledgeSource source : sources) {
+ if (source instanceof OWLOntologyKnowledgeSource) {
+ ontology = ((OWLOntologyKnowledgeSource) source).createOWLOntology(manager);
+ owlAPIOntologies.add(ontology);
+ }
+
if (source instanceof OWLFile
|| source instanceof SparqlKnowledgeSource
|| source instanceof OWLAPIOntology) {
- URL url = null;
- if (source instanceof OWLFile) {
- url = ((OWLFile) source).getURL();
- }
-// try {
+ if (source instanceof SparqlKnowledgeSource) {
+ ontology = ((SparqlKnowledgeSource) source)
+ .getOWLAPIOntology();
+ manager = ontology.getOWLOntologyManager();
+ owlAPIOntologies.add(ontology);
+ }
- if (source instanceof OWLAPIOntology) {
- ontology = ((OWLAPIOntology) source).getOWLOntolgy();
- manager = ontology.getOWLOntologyManager();
- } else if (source instanceof SparqlKnowledgeSource) {
- ontology = ((SparqlKnowledgeSource) source)
- .getOWLAPIOntology();
- manager = ontology.getOWLOntologyManager();
- } else {
- ontology = manager.loadOntologyFromOntologyDocument(IRI.create(url));
- }
-
- owlAPIOntologies.add(ontology);
- // imports includes the ontology itself
- Set<OWLOntology> imports = manager
- .getImportsClosure(ontology);
- allImports.addAll(imports);
- loadedOntologies.addAll(imports);
- // System.out.println(imports);
- classes.addAll(ontology.getClassesInSignature(true));
+ // imports includes the ontology itself
+ Set<OWLOntology> imports = manager
+ .getImportsClosure(ontology);
+ allImports.addAll(imports);
+ loadedOntologies.addAll(imports);
+
+ // System.out.println(imports);
+ classes.addAll(ontology.getClassesInSignature(true));
owlObjectProperties.addAll(ontology.getObjectPropertiesInSignature(true));
owlDatatypeProperties.addAll(ontology.getDataPropertiesInSignature(true));
owlIndividuals.addAll(ontology.getIndividualsInSignature(true));
@@ -474,42 +469,26 @@
for (AbstractKnowledgeSource source : sources) {
+ if (source instanceof OWLOntologyKnowledgeSource) {
+ ontology = ((OWLOntologyKnowledgeSource) source).createOWLOntology(manager);
+ owlAPIOntologies.add(ontology);
+ }
if (source instanceof OWLFile
|| source instanceof SparqlKnowledgeSource
|| source instanceof OWLAPIOntology) {
- URL url = null;
- if (source instanceof OWLFile) {
- url = ((OWLFile) source).getURL();
- }
-// try {
+ if (source instanceof SparqlKnowledgeSource) {
+ ontology = ((SparqlKnowledgeSource) source).getOWLAPIOntology();
+ manager = ontology.getOWLOntologyManager();
+ owlAPIOntologies.add(ontology);
+ }
- if (source instanceof OWLAPIOntology) {
- ontology = ((OWLAPIOntology) source).getOWLOntolgy();
- manager = ontology.getOWLOntologyManager();
- } else if (source instanceof SparqlKnowledgeSource) {
- ontology = ((SparqlKnowledgeSource) source).getOWLAPIOntology();
- manager = ontology.getOWLOntologyManager();
- } else {
- try {
- ontology = manager.loadOntologyFromOntologyDocument(IRI.create(url
- .toURI()));
- } catch (OWLOntologyCreationException e) {
- // TODO Auto-generated catch block
- e.printStackTrace();
- } catch (URISyntaxException e) {
- // TODO Auto-generated catch block
- e.printStackTrace();
- }
- }
-
- owlAPIOntologies.add(ontology);
- // imports includes the ontology itself
- Set<OWLOntology> imports = manager
- .getImportsClosure(ontology);
- allImports.addAll(imports);
- loadedOntologies.addAll(imports);
- // System.out.println(imports);
+ // imports includes the ontology itself
+ Set<OWLOntology> imports = manager
+ .getImportsClosure(ontology);
+ allImports.addAll(imports);
+ loadedOntologies.addAll(imports);
+ // System.out.println(imports);
classes.addAll(ontology.getClassesInSignature(true));
owlObjectProperties.addAll(ontology.getObjectPropertiesInSignature(true));
owlDatatypeProperties.addAll(ontology.getDataPropertiesInSignature(true));
Modified: trunk/components-core/src/main/java/org/dllearner/reasoning/ProtegeReasoner.java
===================================================================
--- trunk/components-core/src/main/java/org/dllearner/reasoning/ProtegeReasoner.java 2012-03-14 17:27:16 UTC (rev 3610)
+++ trunk/components-core/src/main/java/org/dllearner/reasoning/ProtegeReasoner.java 2012-03-15 02:34:07 UTC (rev 3611)
@@ -20,8 +20,6 @@
package org.dllearner.reasoning;
import java.io.File;
-import java.net.URISyntaxException;
-import java.net.URL;
import java.util.Collection;
import java.util.Collections;
import java.util.Comparator;
@@ -73,6 +71,7 @@
import org.dllearner.core.owl.UntypedConstant;
import org.dllearner.kb.OWLAPIOntology;
import org.dllearner.kb.OWLFile;
+import org.dllearner.kb.OWLOntologyKnowledgeSource;
import org.dllearner.kb.sparql.SparqlKnowledgeSource;
import org.dllearner.utilities.Helper;
import org.dllearner.utilities.owl.ConceptComparator;
@@ -250,36 +249,22 @@
for (AbstractKnowledgeSource source : sources) {
+ if (source instanceof OWLOntologyKnowledgeSource) {
+ ontology = ((OWLOntologyKnowledgeSource) source).createOWLOntology(manager);
+ owlAPIOntologies.add(ontology);
+ }
+
if (source instanceof OWLFile
|| source instanceof SparqlKnowledgeSource
|| source instanceof OWLAPIOntology) {
- URL url = null;
- if (source instanceof OWLFile) {
- url = ((OWLFile) source).getURL();
- }
-// try {
+ if (source instanceof SparqlKnowledgeSource) {
+ ontology = ((SparqlKnowledgeSource) source).getOWLAPIOntology();
+ manager = ontology.getOWLOntologyManager();
+ owlAPIOntologies.add(ontology);
+ }
- if (source instanceof OWLAPIOntology) {
- ontology = ((OWLAPIOntology) source).getOWLOntolgy();
- } else if (source instanceof SparqlKnowledgeSource) {
- ontology = ((SparqlKnowledgeSource) source).getOWLAPIOntology();
- manager = ontology.getOWLOntologyManager();
- } else {
- try {
- ontology = manager.loadOntologyFromOntologyDocument(IRI.create(url
- .toURI()));
- } catch (OWLOntologyCreationException e) {
- // TODO Auto-generated catch block
- e.printStackTrace();
- } catch (URISyntaxException e) {
- // TODO Auto-generated catch block
- e.printStackTrace();
- }
- }
-
- owlAPIOntologies.add(ontology);
- classes.addAll(ontology.getClassesInSignature(true));
+ classes.addAll(ontology.getClassesInSignature(true));
owlObjectProperties.addAll(ontology.getObjectPropertiesInSignature(true));
owlDatatypeProperties.addAll(ontology.getDataPropertiesInSignature(true));
owlIndividuals.addAll(ontology.getIndividualsInSignature(true));
Modified: trunk/components-core/src/main/java/org/dllearner/reasoning/fuzzydll/FuzzyOWLAPIReasoner.java
===================================================================
--- trunk/components-core/src/main/java/org/dllearner/reasoning/fuzzydll/FuzzyOWLAPIReasoner.java 2012-03-14 17:27:16 UTC (rev 3610)
+++ trunk/components-core/src/main/java/org/dllearner/reasoning/fuzzydll/FuzzyOWLAPIReasoner.java 2012-03-15 02:34:07 UTC (rev 3611)
@@ -22,7 +22,6 @@
import java.io.File;
import java.net.MalformedURLException;
import java.net.URI;
-import java.net.URISyntaxException;
import java.net.URL;
import java.util.Collection;
import java.util.Collections;
@@ -66,6 +65,7 @@
import org.dllearner.core.owl.fuzzydll.FuzzyIndividual;
import org.dllearner.kb.OWLAPIOntology;
import org.dllearner.kb.OWLFile;
+import org.dllearner.kb.OWLOntologyKnowledgeSource;
import org.dllearner.kb.sparql.SparqlKnowledgeSource;
import org.dllearner.reasoning.ReasonerType;
import org.dllearner.utilities.owl.ConceptComparator;
@@ -74,7 +74,6 @@
import org.dllearner.utilities.owl.OWLAPIConverter;
import org.dllearner.utilities.owl.OWLAPIDescriptionConvertVisitor;
import org.dllearner.utilities.owl.RoleComparator;
-import org.semanticweb.HermiT.Reasoner.ReasonerFactory;
import org.semanticweb.owlapi.apibinding.OWLManager;
import org.semanticweb.owlapi.model.AddAxiom;
import org.semanticweb.owlapi.model.IRI;
@@ -246,53 +245,43 @@
prefixes = new TreeMap<String,String>();
for(AbstractKnowledgeSource source : sources) {
-
+
+ if (source instanceof OWLOntologyKnowledgeSource) {
+ ontology = ((OWLOntologyKnowledgeSource) source).createOWLOntology(manager);
+ owlAPIOntologies.add(ontology);
+ }
+
if(source instanceof OWLFile || source instanceof SparqlKnowledgeSource || source instanceof OWLAPIOntology) {
- URL url=null;
- if(source instanceof OWLFile){
- url = ((OWLFile)source).getURL();
- }
- try {
-
- if(source instanceof OWLAPIOntology) {
- ontology = ((OWLAPIOntology)source).getOWLOntolgy();
- } else if (source instanceof SparqlKnowledgeSource) {
- ontology = ((SparqlKnowledgeSource)source).getOWLAPIOntology();
- manager = ontology.getOWLOntologyManager();
- } else {
- ontology = manager.loadOntologyFromOntologyDocument(IRI.create(url.toURI()));
- }
-
- owlAPIOntologies.add(ontology);
- // imports includes the ontology itself
- Set<OWLOntology> imports = manager.getImportsClosure(ontology);
- allImports.addAll(imports);
+ if (source instanceof SparqlKnowledgeSource) {
+ ontology = ((SparqlKnowledgeSource) source).getOWLAPIOntology();
+ manager = ontology.getOWLOntologyManager();
+ owlAPIOntologies.add(ontology);
+ }
+
+ // imports includes the ontology itself
+ Set<OWLOntology> imports = manager.getImportsClosure(ontology);
+ allImports.addAll(imports);
// System.out.println(imports);
- for(OWLOntology ont : imports) {
- classes.addAll(ont.getClassesInSignature());
- owlObjectProperties.addAll(ont.getObjectPropertiesInSignature());
- owlDatatypeProperties.addAll(ont.getDataPropertiesInSignature());
- owlIndividuals.addAll(ont.getIndividualsInSignature());
- }
-
- // if several knowledge sources are included, then we can only
- // guarantee that the base URI is from one of those sources (there
- // can't be more than one); but we will take care that all prefixes are
- // correctly imported
- OWLOntologyFormat format = manager.getOntologyFormat(ontology);
- if(format instanceof PrefixOWLOntologyFormat) {
- prefixes.putAll(((PrefixOWLOntologyFormat)format).getPrefixName2PrefixMap());
- baseURI = ((PrefixOWLOntologyFormat) format).getDefaultPrefix();
- prefixes.remove("");
- }
-
- } catch (OWLOntologyCreationException e) {
- e.printStackTrace();
- } catch (URISyntaxException e) {
- e.printStackTrace();
- }
- // all other sources are converted to KB and then to an
+ for (OWLOntology ont : imports) {
+ classes.addAll(ont.getClassesInSignature());
+ owlObjectProperties.addAll(ont.getObjectPropertiesInSignature());
+ owlDatatypeProperties.addAll(ont.getDataPropertiesInSignature());
+ owlIndividuals.addAll(ont.getIndividualsInSignature());
+ }
+
+ // if several knowledge sources are included, then we can only
+ // guarantee that the base URI is from one of those sources (there
+ // can't be more than one); but we will take care that all prefixes are
+ // correctly imported
+ OWLOntologyFormat format = manager.getOntologyFormat(ontology);
+ if (format instanceof PrefixOWLOntologyFormat) {
+ prefixes.putAll(((PrefixOWLOntologyFormat) format).getPrefixName2PrefixMap());
+ baseURI = ((PrefixOWLOntologyFormat) format).getDefaultPrefix();
+ prefixes.remove("");
+ }
+
+ // all other sources are converted to KB and then to an
// OWL API ontology
} else {
KB kb = source.toKB();
Added: trunk/components-core/src/main/java/org/dllearner/utilities/owl/OntologyToByteConverter.java
===================================================================
--- trunk/components-core/src/main/java/org/dllearner/utilities/owl/OntologyToByteConverter.java (rev 0)
+++ trunk/components-core/src/main/java/org/dllearner/utilities/owl/OntologyToByteConverter.java 2012-03-15 02:34:07 UTC (rev 3611)
@@ -0,0 +1,37 @@
+package org.dllearner.utilities.owl;
+
+import org.semanticweb.owlapi.model.OWLOntology;
+import org.semanticweb.owlapi.model.OWLOntologyManager;
+
+/**
+ * Created by IntelliJ IDEA.
+ * User: Chris Shellenbarger
+ * Date: 3/14/12
+ * Time: 7:30 PM
+ * <p/>
+ * Interface to allow the conversion of an OWL Ontology into a byte array and back.
+ * <p/>
+ * The purpose of the interface is to allow the association of an OWLOntology object with a specified OWLOntologyManager.
+ * <p/>
+ * If someone hands us an OWLOntology, we may not want to use the associated OWLOntologyManager. Rather, we can serialize it out
+ * to a byte array and then read it back in with a different OWLOntologyManager.
+ */
+public interface OntologyToByteConverter {
+
+ /**
+ * Convert the ontology into a byte array.
+ *
+ * @param ontology The ontology to convert to a byte array.
+ * @return The byte array representing the ontology
+ */
+ byte[] convert(OWLOntology ontology);
+
+ /**
+ * Convert bytes into an Ontology registered with manager.
+ *
+ * @param bytes The bytes to convert to an OWLOntology
+ * @param manager The Ontology Manager to load the ontology with.
+ * @return The ontology derived from bytes.
+ */
+ OWLOntology convert(byte[] bytes, OWLOntologyManager manager);
+}
Added: trunk/components-core/src/main/java/org/dllearner/utilities/owl/SimpleOntologyToByteConverter.java
===================================================================
--- trunk/components-core/src/main/java/org/dllearner/utilities/owl/SimpleOntologyToByteConverter.java (rev 0)
+++ trunk/components-core/src/main/java/org/dllearner/utilities/owl/SimpleOntologyToByteConverter.java 2012-03-15 02:34:07 UTC (rev 3611)
@@ -0,0 +1,55 @@
+package org.dllearner.utilities.owl;
+
+import org.semanticweb.owlapi.model.OWLOntology;
+import org.semanticweb.owlapi.model.OWLOntologyCreationException;
+import org.semanticweb.owlapi.model.OWLOntologyManager;
+import org.semanticweb.owlapi.model.OWLOntologyStorageException;
+
+import java.io.ByteArrayInputStream;
+import java.io.ByteArrayOutputStream;
+import java.io.IOException;
+
+/**
+ * Created by IntelliJ IDEA.
+ * User: Chris Shellenbarger
+ * Date: 3/13/12
+ * Time: 6:24 PM
+ *
+ * A Byte Array based implementation of the OntologyToByteConverter interface.
+ */
+public class SimpleOntologyToByteConverter implements OntologyToByteConverter {
+
+ @Override
+ public byte[] convert(OWLOntology ontology) {
+
+ ByteArrayOutputStream baos = new ByteArrayOutputStream();
+
+ OWLOntologyManager manager = ontology.getOWLOntologyManager();
+ try {
+ manager.saveOntology(ontology,baos);
+ baos.close();
+ } catch (OWLOntologyStorageException e) {
+ throw new RuntimeException(e);
+ } catch (IOException e) {
+ throw new RuntimeException(e);
+ }
+
+ return baos.toByteArray();
+ }
+
+ @Override
+ public OWLOntology convert(byte[] bytes, OWLOntologyManager manager) {
+
+ ByteArrayInputStream bais = new ByteArrayInputStream(bytes);
+
+ try {
+ OWLOntology ontology = manager.loadOntologyFromOntologyDocument(bais);
+ bais.close();
+ return ontology;
+ } catch (OWLOntologyCreationException e) {
+ throw new RuntimeException(e);
+ } catch (IOException e) {
+ throw new RuntimeException(e);
+ }
+ }
+}
Added: trunk/components-core/src/test/java/org/dllearner/kb/OWLAPIOntologyTest.java
===================================================================
--- trunk/components-core/src/test/java/org/dllearner/kb/OWLAPIOntologyTest.java (rev 0)
+++ trunk/components-core/src/test/java/org/dllearner/kb/OWLAPIOntologyTest.java 2012-03-15 02:34:07 UTC (rev 3611)
@@ -0,0 +1,47 @@
+package org.dllearner.kb;
+
+import org.junit.Test;
+import org.semanticweb.owlapi.apibinding.OWLManager;
+import org.semanticweb.owlapi.model.OWLOntology;
+import org.semanticweb.owlapi.model.OWLOntologyCreationException;
+import org.semanticweb.owlapi.model.OWLOntologyManager;
+import org.springframework.core.io.ClassPathResource;
+import org.springframework.core.io.Resource;
+import uk.ac.manchester.cs.owl.owlapi.OWLDataFactoryImpl;
+
+import java.io.IOException;
+
+import static org.junit.Assert.*;
+
+/**
+ * Created by IntelliJ IDEA.
+ * User: Chris Shellenbarger
+ * Date: 3/14/12
+ * Time: 7:57 PM
+ */
+public class OWLAPIOntologyTest {
+
+ private OWLOntology createOntology() throws OWLOntologyCreationException, IOException {
+ // Set up the ontology here and hide its manager - the test needs to use a different ontology manager on reconstitution
+ OWLOntologyManager manager = OWLManager.createOWLOntologyManager(new OWLDataFactoryImpl());
+ Resource owlFile = new ClassPathResource("/org/dllearner/kb/owl-api-ontology-data.owl");
+ return manager.loadOntologyFromOntologyDocument(owlFile.getInputStream());
+ }
+
+
+ @Test
+ public void testMethods() throws Exception {
+ OWLOntology ontology = createOntology();
+ assertNotNull(ontology);
+
+ OWLAPIOntology testSubject = new OWLAPIOntology(ontology);
+
+ OWLOntology result = testSubject.createOWLOntology(OWLManager.createOWLOntologyManager(new OWLDataFactoryImpl()));
+
+ assertNotNull(result);
+ assertNotSame(ontology,result);
+
+ // Basic Equality Check - for some reason axiom count is different - the result looks more complete than the original.
+ assertEquals(ontology.getIndividualsInSignature().size(), result.getIndividualsInSignature().size());
+ }
+}
Added: trunk/components-core/src/test/java/org/dllearner/utilities/owl/OntologyToByteConverterTest.java
===================================================================
--- trunk/components-core/src/test/java/org/dllearner/utilities/owl/OntologyToByteConverterTest.java (rev 0)
+++ trunk/components-core/src/test/java/org/dllearner/utilities/owl/OntologyToByteConverterTest.java 2012-03-15 02:34:07 UTC (rev 3611)
@@ -0,0 +1,56 @@
+package org.dllearner.utilities.owl;
+
+import org.junit.Test;
+import org.semanticweb.owlapi.apibinding.OWLManager;
+import org.semanticweb.owlapi.model.OWLOntology;
+import org.semanticweb.owlapi.model.OWLOntologyCreationException;
+import org.semanticweb.owlapi.model.OWLOntologyManager;
+import org.springframework.core.io.ClassPathResource;
+import org.springframework.core.io.Resource;
+import uk.ac.manchester.cs.owl.owlapi.OWLDataFactoryImpl;
+
+import java.io.IOException;
+
+import static org.junit.Assert.assertEquals;
+import static org.junit.Assert.assertNotNull;
+import static org.junit.Assert.assertTrue;
+
+/**
+ * Created by IntelliJ IDEA.
+ * User: Chris Shellenbarger
+ * Date: 3/14/12
+ * Time: 7:29 PM
+ *
+ * Test the interface level apis for the ontology to byte converter.
+ */
+public abstract class OntologyToByteConverterTest {
+
+ public abstract OntologyToByteConverter getInstance();
+
+ private OWLOntology createOntology() throws OWLOntologyCreationException, IOException {
+ // Set up the ontology here and hide its manager - the test needs to use a different ontology manager on reconstitution
+ OWLOntologyManager manager = OWLManager.createOWLOntologyManager(new OWLDataFactoryImpl());
+ Resource owlFile = new ClassPathResource("/org/dllearner/utilities/owl/byte-conversion-data.owl");
+ return manager.loadOntologyFromOntologyDocument(owlFile.getInputStream());
+ }
+
+ @Test
+ public void testConversion() throws Exception {
+ OntologyToByteConverter converter = getInstance();
+ OWLOntology ontology = createOntology();
+ assertNotNull(ontology);
+
+ byte[] bytes = converter.convert(ontology);
+
+ assertNotNull(bytes);
+ assertTrue(bytes.length > 0);
+
+ // Use a new manager so that the IRIs don't get messed up
+ OWLOntologyManager newManager = OWLManager.createOWLOntologyManager(new OWLDataFactoryImpl());
+ OWLOntology result = converter.convert(bytes, newManager);
+ assertNotNull(result);
+
+ // Basic Equality Check - for some reason axiom count is different - the result looks more complete than the original.
+ assertEquals(ontology.getIndividualsInSignature().size(), result.getIndividualsInSignature().size());
+ }
+}
Added: trunk/components-core/src/test/java/org/dllearner/utilities/owl/SimpleOntologyToByteConverterTest.java
===================================================================
--- trunk/components-core/src/test/java/org/dllearner/utilities/owl/SimpleOntologyToByteConverterTest.java (rev 0)
+++ trunk/components-core/src/test/java/org/dllearner/utilities/owl/SimpleOntologyToByteConverterTest.java 2012-03-15 02:34:07 UTC (rev 3611)
@@ -0,0 +1,17 @@
+package org.dllearner.utilities.owl;
+
+/**
+ * Created by IntelliJ IDEA.
+ * User: Chris Shellenbarger
+ * Date: 3/13/12
+ * Time: 6:28 PM
+ *
+ * Test instance for a particular implementation.
+ */
+public class SimpleOntologyToByteConverterTest extends OntologyToByteConverterTest{
+
+ @Override
+ public OntologyToByteConverter getInstance() {
+ return new SimpleOntologyToByteConverter();
+ }
+}
Added: trunk/components-core/src/test/resources/org/dllearner/kb/owl-api-ontology-data.owl
===================================================================
--- trunk/components-core/src/test/resources/org/dllearner/kb/owl-api-ontology-data.owl (rev 0)
+++ trunk/components-core/src/test/resources/org/dllearner/kb/owl-api-ontology-data.owl 2012-03-15 02:34:07 UTC (rev 3611)
@@ -0,0 +1,33 @@
+<?xml version="1.0"?>
+<rdf:RDF
+ xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
+ xmlns="http://example.com/father#"
+ xmlns:owl="http://www.w3.org/2002/07/owl#"
+ xml:base="http://example.com/father">
+ <owl:Ontology rdf:about=""/>
+ <owl:Class rdf:ID="female"/>
+ <owl:Class rdf:ID="male">
+ <owl:equivalentClass>
+ <owl:Class>
+ <owl:complementOf rdf:resource="#female"/>
+ </owl:Class>
+ </owl:equivalentClass>
+ </owl:Class>
+ <owl:ObjectProperty rdf:ID="hasChild"/>
+ <male rdf:ID="markus">
+ <hasChild>
+ <female rdf:ID="anna">
+ <hasChild>
+ <male rdf:ID="heinz"/>
+ </hasChild>
+ </female>
+ </hasChild>
+ </male>
+ <male rdf:ID="stefan">
+ <hasChild rdf:resource="#markus"/>
+ </male>
+ <female rdf:ID="michelle"/>
+ <male rdf:ID="martin">
+ <hasChild rdf:resource="#heinz"/>
+ </male>
+</rdf:RDF>
Added: trunk/components-core/src/test/resources/org/dllearner/utilities/owl/byte-conversion-data.owl
===================================================================
--- trunk/components-core/src/test/resources/org/dllearner/utilities/owl/byte-conversion-data.owl (rev 0)
+++ trunk/components-core/src/test/resources/org/dllearner/utilities/owl/byte-conversion-data.owl 2012-03-15 02:34:07 UTC (rev 3611)
@@ -0,0 +1,35 @@
+<?xml version="1.0"?>
+<rdf:RDF
+ xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
+ xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
+ xmlns="http://example.com/father#"
+ xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
+ xmlns:owl="http://www.w3.org/2002/07/owl#"
+ xml:base="http://example.com/father">
+ <owl:Ontology rdf:about=""/>
+ <owl:Class rdf:ID="female"/>
+ <owl:Class rdf:ID="male">
+ <owl:equivalentClass>
+ <owl:Class>
+ <owl:complementOf rdf:resource="#female"/>
+ </owl:Class>
+ </owl:equivalentClass>
+ </owl:Class>
+ <owl:ObjectProperty rdf:ID="hasChild"/>
+ <male rdf:ID="markus">
+ <hasChild>
+ <female rdf:ID="anna">
+ <hasChild>
+ <male rdf:ID="heinz"/>
+ </hasChild>
+ </female>
+ </hasChild>
+ </male>
+ <male rdf:ID="stefan">
+ <hasChild rdf:resource="#markus"/>
+ </male>
+ <female rdf:ID="michelle"/>
+ <male rdf:ID="martin">
+ <hasChild rdf:resource="#heinz"/>
+ </male>
+</rdf:RDF>
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