org.semanticweb.owlapi.util.OWLAnnotationPropertyTransformer Maven / Gradle / Ivy
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/* This file is part of the OWL API.
* The contents of this file are subject to the LGPL License, Version 3.0.
* Copyright 2014, The University of Manchester
*
* This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
* This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.
* You should have received a copy of the GNU General Public License along with this program. If not, see http://www.gnu.org/licenses/.
*
* Alternatively, the contents of this file may be used under the terms of the Apache License, Version 2.0 in which case, the provisions of the Apache License Version 2.0 are applicable instead of those above.
* Licensed under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License. You may obtain a copy of the License at
* http://www.apache.org/licenses/LICENSE-2.0
* Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License. */
package org.semanticweb.owlapi.util;
import static org.semanticweb.owlapi.util.OWLAPIPreconditions.checkNotNull;
import static org.semanticweb.owlapi.util.OWLAPIPreconditions.verifyNotNull;
import static org.semanticweb.owlapi.util.OWLAPIStreamUtils.asList;
import java.util.Collection;
import java.util.HashMap;
import java.util.Map;
import java.util.stream.Stream;
import javax.annotation.Nullable;
import org.semanticweb.owlapi.model.EntityType;
import org.semanticweb.owlapi.model.IRI;
import org.semanticweb.owlapi.model.OWLAnnotation;
import org.semanticweb.owlapi.model.OWLAnnotationAssertionAxiom;
import org.semanticweb.owlapi.model.OWLAnnotationProperty;
import org.semanticweb.owlapi.model.OWLAnnotationPropertyDomainAxiom;
import org.semanticweb.owlapi.model.OWLAnnotationPropertyRangeAxiom;
import org.semanticweb.owlapi.model.OWLAnnotationSubject;
import org.semanticweb.owlapi.model.OWLAnnotationValue;
import org.semanticweb.owlapi.model.OWLAnonymousIndividual;
import org.semanticweb.owlapi.model.OWLAsymmetricObjectPropertyAxiom;
import org.semanticweb.owlapi.model.OWLAxiom;
import org.semanticweb.owlapi.model.OWLClass;
import org.semanticweb.owlapi.model.OWLClassAssertionAxiom;
import org.semanticweb.owlapi.model.OWLClassExpression;
import org.semanticweb.owlapi.model.OWLDataAllValuesFrom;
import org.semanticweb.owlapi.model.OWLDataComplementOf;
import org.semanticweb.owlapi.model.OWLDataExactCardinality;
import org.semanticweb.owlapi.model.OWLDataFactory;
import org.semanticweb.owlapi.model.OWLDataHasValue;
import org.semanticweb.owlapi.model.OWLDataIntersectionOf;
import org.semanticweb.owlapi.model.OWLDataMaxCardinality;
import org.semanticweb.owlapi.model.OWLDataMinCardinality;
import org.semanticweb.owlapi.model.OWLDataOneOf;
import org.semanticweb.owlapi.model.OWLDataProperty;
import org.semanticweb.owlapi.model.OWLDataPropertyAssertionAxiom;
import org.semanticweb.owlapi.model.OWLDataPropertyDomainAxiom;
import org.semanticweb.owlapi.model.OWLDataPropertyRangeAxiom;
import org.semanticweb.owlapi.model.OWLDataRange;
import org.semanticweb.owlapi.model.OWLDataSomeValuesFrom;
import org.semanticweb.owlapi.model.OWLDataUnionOf;
import org.semanticweb.owlapi.model.OWLDatatype;
import org.semanticweb.owlapi.model.OWLDatatypeDefinitionAxiom;
import org.semanticweb.owlapi.model.OWLDatatypeRestriction;
import org.semanticweb.owlapi.model.OWLDeclarationAxiom;
import org.semanticweb.owlapi.model.OWLDifferentIndividualsAxiom;
import org.semanticweb.owlapi.model.OWLDisjointClassesAxiom;
import org.semanticweb.owlapi.model.OWLDisjointDataPropertiesAxiom;
import org.semanticweb.owlapi.model.OWLDisjointObjectPropertiesAxiom;
import org.semanticweb.owlapi.model.OWLDisjointUnionAxiom;
import org.semanticweb.owlapi.model.OWLEntity;
import org.semanticweb.owlapi.model.OWLEquivalentClassesAxiom;
import org.semanticweb.owlapi.model.OWLEquivalentDataPropertiesAxiom;
import org.semanticweb.owlapi.model.OWLEquivalentObjectPropertiesAxiom;
import org.semanticweb.owlapi.model.OWLFacetRestriction;
import org.semanticweb.owlapi.model.OWLFunctionalDataPropertyAxiom;
import org.semanticweb.owlapi.model.OWLFunctionalObjectPropertyAxiom;
import org.semanticweb.owlapi.model.OWLHasKeyAxiom;
import org.semanticweb.owlapi.model.OWLIndividual;
import org.semanticweb.owlapi.model.OWLInverseFunctionalObjectPropertyAxiom;
import org.semanticweb.owlapi.model.OWLInverseObjectPropertiesAxiom;
import org.semanticweb.owlapi.model.OWLIrreflexiveObjectPropertyAxiom;
import org.semanticweb.owlapi.model.OWLLiteral;
import org.semanticweb.owlapi.model.OWLNamedIndividual;
import org.semanticweb.owlapi.model.OWLNegativeDataPropertyAssertionAxiom;
import org.semanticweb.owlapi.model.OWLNegativeObjectPropertyAssertionAxiom;
import org.semanticweb.owlapi.model.OWLObject;
import org.semanticweb.owlapi.model.OWLObjectAllValuesFrom;
import org.semanticweb.owlapi.model.OWLObjectComplementOf;
import org.semanticweb.owlapi.model.OWLObjectExactCardinality;
import org.semanticweb.owlapi.model.OWLObjectHasSelf;
import org.semanticweb.owlapi.model.OWLObjectHasValue;
import org.semanticweb.owlapi.model.OWLObjectIntersectionOf;
import org.semanticweb.owlapi.model.OWLObjectInverseOf;
import org.semanticweb.owlapi.model.OWLObjectMaxCardinality;
import org.semanticweb.owlapi.model.OWLObjectMinCardinality;
import org.semanticweb.owlapi.model.OWLObjectOneOf;
import org.semanticweb.owlapi.model.OWLObjectProperty;
import org.semanticweb.owlapi.model.OWLObjectPropertyAssertionAxiom;
import org.semanticweb.owlapi.model.OWLObjectPropertyDomainAxiom;
import org.semanticweb.owlapi.model.OWLObjectPropertyRangeAxiom;
import org.semanticweb.owlapi.model.OWLObjectSomeValuesFrom;
import org.semanticweb.owlapi.model.OWLObjectUnionOf;
import org.semanticweb.owlapi.model.OWLObjectVisitor;
import org.semanticweb.owlapi.model.OWLOntology;
import org.semanticweb.owlapi.model.OWLProperty;
import org.semanticweb.owlapi.model.OWLReflexiveObjectPropertyAxiom;
import org.semanticweb.owlapi.model.OWLSameIndividualAxiom;
import org.semanticweb.owlapi.model.OWLSubAnnotationPropertyOfAxiom;
import org.semanticweb.owlapi.model.OWLSubClassOfAxiom;
import org.semanticweb.owlapi.model.OWLSubDataPropertyOfAxiom;
import org.semanticweb.owlapi.model.OWLSubObjectPropertyOfAxiom;
import org.semanticweb.owlapi.model.OWLSubPropertyChainOfAxiom;
import org.semanticweb.owlapi.model.OWLSymmetricObjectPropertyAxiom;
import org.semanticweb.owlapi.model.OWLTransitiveObjectPropertyAxiom;
import org.semanticweb.owlapi.model.SWRLBuiltInAtom;
import org.semanticweb.owlapi.model.SWRLClassAtom;
import org.semanticweb.owlapi.model.SWRLDataPropertyAtom;
import org.semanticweb.owlapi.model.SWRLDataRangeAtom;
import org.semanticweb.owlapi.model.SWRLDifferentIndividualsAtom;
import org.semanticweb.owlapi.model.SWRLIndividualArgument;
import org.semanticweb.owlapi.model.SWRLLiteralArgument;
import org.semanticweb.owlapi.model.SWRLObjectPropertyAtom;
import org.semanticweb.owlapi.model.SWRLObjectVisitor;
import org.semanticweb.owlapi.model.SWRLRule;
import org.semanticweb.owlapi.model.SWRLSameIndividualAtom;
import org.semanticweb.owlapi.model.SWRLVariable;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
/**
* @author Matthew Horridge, The University Of Manchester, Bio-Health Informatics Group
* @since 2.0.0
*/
public class OWLAnnotationPropertyTransformer implements OWLObjectVisitor, SWRLObjectVisitor {
private static final Logger LOGGER =
LoggerFactory.getLogger(OWLAnnotationPropertyTransformer.class);
private final OWLDataFactory df;
private final Map replacementMap;
@Nullable
private Object obj;
/**
* Creates an object duplicator that duplicates objects using the specified data factory.
*
* @param dataFactory The data factory to be used for the duplication.
*/
public OWLAnnotationPropertyTransformer(OWLDataFactory dataFactory) {
this(new HashMap(), dataFactory);
}
/**
* Creates an object duplicator that duplicates objects using the specified data factory and uri
* replacement map.
*
* @param dataFactory The data factory to be used for the duplication.
* @param iriReplacementMap The map to use for the replacement of URIs. Any uris the appear in
* the map will be replaced as objects are duplicated. This can be used to "rename"
* entities.
*/
public OWLAnnotationPropertyTransformer(OWLDataFactory dataFactory,
Map iriReplacementMap) {
df = checkNotNull(dataFactory, "dataFactory cannot be null");
checkNotNull(iriReplacementMap, "iriReplacementMap cannot be null");
replacementMap = new HashMap<>(iriReplacementMap);
}
/**
* Creates an object duplicator that duplicates objects using the specified data factory and uri
* replacement map.
*
* @param dataFactory The data factory to be used for the duplication.
* @param entityIRIReplacementMap The map to use for the replacement of URIs. Any uris the
* appear in the map will be replaced as objects are duplicated. This can be used to
* "rename" entities.
*/
public OWLAnnotationPropertyTransformer(Map entityIRIReplacementMap,
OWLDataFactory dataFactory) {
df = checkNotNull(dataFactory, "dataFactory cannot be null");
replacementMap = new HashMap<>(
checkNotNull(entityIRIReplacementMap, "entityIRIReplacementMap cannot be null"));
}
/**
* @param object the object to duplicate
* @param return type
* @return the duplicate
*/
public O transformObject(O object) {
checkNotNull(object, "object cannot be null");
try {
return dup(object);
} catch (ClassCastException e) {
LOGGER.error(
"Attempt to transform an axiom to correct misuse of properties failed. Property replacement: {}, axiom: {}, error: {}",
replacementMap, object, e.getMessage());
obj = object;
return object;
}
}
protected void setLastObject(Object obj) {
this.obj = obj;
}
@SuppressWarnings({"unchecked",})
protected O dup(O o) {
o.accept(this);
return (O) verifyNotNull(obj);
}
/**
* Given an IRI belonging to an entity, returns a IRI. This may be the same IRI that the entity
* has, or an alternative IRI if a replacement has been specified.
*
* @param entity The entity
* @return The IRI
*/
private OWLEntity getIRI(OWLEntity entity) {
OWLEntity replacement = replacementMap.get(entity);
if (replacement != null) {
return replacement;
}
return entity;
}
private Collection anns(OWLAxiom ax) {
return set(ax.annotations());
}
@Override
public void visit(OWLAsymmetricObjectPropertyAxiom ax) {
obj = df.getOWLAsymmetricObjectPropertyAxiom(dup(ax.getProperty()), anns(ax));
}
@Override
public void visit(OWLClassAssertionAxiom ax) {
obj = df.getOWLClassAssertionAxiom(dup(ax.getClassExpression()), dup(ax.getIndividual()),
anns(ax));
}
@Override
public void visit(OWLDataPropertyAssertionAxiom ax) {
obj = df.getOWLDataPropertyAssertionAxiom(dup(ax.getProperty()), dup(ax.getSubject()),
dup(ax.getObject()), anns(ax));
}
@Override
public void visit(OWLDataPropertyDomainAxiom ax) {
obj =
df.getOWLDataPropertyDomainAxiom(dup(ax.getProperty()), dup(ax.getDomain()), anns(ax));
}
@Override
public void visit(OWLDataPropertyRangeAxiom ax) {
obj = df.getOWLDataPropertyRangeAxiom(dup(ax.getProperty()), dup(ax.getRange()), anns(ax));
}
@Override
public void visit(OWLSubDataPropertyOfAxiom ax) {
obj = df.getOWLSubDataPropertyOfAxiom(dup(ax.getSubProperty()), dup(ax.getSuperProperty()),
anns(ax));
}
@Override
public void visit(OWLDeclarationAxiom ax) {
obj = df.getOWLDeclarationAxiom(dup(ax.getEntity()), anns(ax));
}
@Override
public void visit(OWLDifferentIndividualsAxiom ax) {
obj = df.getOWLDifferentIndividualsAxiom(set(ax.individuals()), anns(ax));
}
@Override
public void visit(OWLDisjointClassesAxiom ax) {
obj = df.getOWLDisjointClassesAxiom(set(ax.classExpressions()), anns(ax));
}
@Override
public void visit(OWLDisjointDataPropertiesAxiom ax) {
obj = df.getOWLDisjointDataPropertiesAxiom(set(ax.properties()), anns(ax));
}
@Override
public void visit(OWLDisjointObjectPropertiesAxiom ax) {
obj = df.getOWLDisjointObjectPropertiesAxiom(set(ax.properties()), anns(ax));
}
@Override
public void visit(OWLDisjointUnionAxiom ax) {
obj = df.getOWLDisjointUnionAxiom(dup(ax.getOWLClass()), set(ax.classExpressions()),
anns(ax));
}
@Override
public void visit(OWLAnnotationAssertionAxiom ax) {
OWLAnnotationSubject subject = dup(ax.getSubject());
OWLProperty prop = dup(ax.getProperty());
OWLAnnotationValue value = dup(ax.getValue());
if (prop.isObjectPropertyExpression()) {
// turn to object property assertion
OWLIndividual individual;
OWLIndividual relatedIndividual;
if (subject instanceof OWLAnonymousIndividual) {
individual = (OWLIndividual) subject;
} else {
individual = df.getOWLNamedIndividual((IRI) subject);
}
if (value instanceof OWLIndividual) {
relatedIndividual = (OWLIndividual) value;
} else {
relatedIndividual = df.getOWLNamedIndividual((IRI) value);
}
obj = df.getOWLObjectPropertyAssertionAxiom(prop.asOWLObjectProperty(), individual,
relatedIndividual, asList(ax.annotations()));
return;
} else if (prop.isDataPropertyExpression()) {
// turn to data property assertion
OWLIndividual individual;
if (subject instanceof OWLAnonymousIndividual) {
individual = (OWLIndividual) subject;
} else {
individual = df.getOWLNamedIndividual((IRI) subject);
}
obj = df.getOWLDataPropertyAssertionAxiom(prop.asOWLDataProperty(), individual,
(OWLLiteral) value, asList(ax.annotations()));
return;
}
obj = df.getOWLAnnotationAssertionAxiom(prop.asOWLAnnotationProperty(), subject, value,
anns(ax));
}
@Override
public void visit(OWLEquivalentClassesAxiom ax) {
obj = df.getOWLEquivalentClassesAxiom(set(ax.classExpressions()), anns(ax));
}
@Override
public void visit(OWLEquivalentDataPropertiesAxiom ax) {
obj = df.getOWLEquivalentDataPropertiesAxiom(set(ax.properties()), anns(ax));
}
@Override
public void visit(OWLEquivalentObjectPropertiesAxiom ax) {
obj = df.getOWLEquivalentObjectPropertiesAxiom(set(ax.properties()), anns(ax));
}
@Override
public void visit(OWLFunctionalDataPropertyAxiom ax) {
obj = df.getOWLFunctionalDataPropertyAxiom(dup(ax.getProperty()), anns(ax));
}
@Override
public void visit(OWLFunctionalObjectPropertyAxiom ax) {
obj = df.getOWLFunctionalObjectPropertyAxiom(dup(ax.getProperty()), anns(ax));
}
@Override
public void visit(OWLInverseFunctionalObjectPropertyAxiom ax) {
obj = df.getOWLInverseFunctionalObjectPropertyAxiom(dup(ax.getProperty()), anns(ax));
}
@Override
public void visit(OWLInverseObjectPropertiesAxiom ax) {
obj = df.getOWLInverseObjectPropertiesAxiom(dup(ax.getFirstProperty()),
dup(ax.getSecondProperty()), anns(ax));
}
@Override
public void visit(OWLIrreflexiveObjectPropertyAxiom ax) {
obj = df.getOWLIrreflexiveObjectPropertyAxiom(dup(ax.getProperty()), anns(ax));
}
@Override
public void visit(OWLNegativeDataPropertyAssertionAxiom ax) {
obj = df.getOWLNegativeDataPropertyAssertionAxiom(dup(ax.getProperty()),
dup(ax.getSubject()), dup(ax.getObject()), anns(ax));
}
@Override
public void visit(OWLNegativeObjectPropertyAssertionAxiom ax) {
obj = df.getOWLNegativeObjectPropertyAssertionAxiom(dup(ax.getProperty()),
dup(ax.getSubject()), dup(ax.getObject()), anns(ax));
}
@Override
public void visit(OWLObjectPropertyAssertionAxiom ax) {
obj = df.getOWLObjectPropertyAssertionAxiom(dup(ax.getProperty()), dup(ax.getSubject()),
dup(ax.getObject()), anns(ax));
}
@Override
public void visit(OWLSubPropertyChainOfAxiom ax) {
obj =
df.getOWLSubPropertyChainOfAxiom(asList(ax.getPropertyChain().stream().map(this::dup)),
dup(ax.getSuperProperty()), anns(ax));
}
@Override
public void visit(OWLObjectPropertyDomainAxiom ax) {
obj = df.getOWLObjectPropertyDomainAxiom(dup(ax.getProperty()), dup(ax.getDomain()),
anns(ax));
}
@Override
public void visit(OWLObjectPropertyRangeAxiom ax) {
obj =
df.getOWLObjectPropertyRangeAxiom(dup(ax.getProperty()), dup(ax.getRange()), anns(ax));
}
@Override
public void visit(OWLSubObjectPropertyOfAxiom ax) {
obj = df.getOWLSubObjectPropertyOfAxiom(dup(ax.getSubProperty()),
dup(ax.getSuperProperty()), anns(ax));
}
@Override
public void visit(OWLReflexiveObjectPropertyAxiom ax) {
obj = df.getOWLReflexiveObjectPropertyAxiom(dup(ax.getProperty()), anns(ax));
}
@Override
public void visit(OWLSameIndividualAxiom ax) {
obj = df.getOWLSameIndividualAxiom(set(ax.individuals()), anns(ax));
}
@Override
public void visit(OWLSubClassOfAxiom ax) {
obj = df.getOWLSubClassOfAxiom(dup(ax.getSubClass()), dup(ax.getSuperClass()), anns(ax));
}
@Override
public void visit(OWLSymmetricObjectPropertyAxiom ax) {
obj = df.getOWLSymmetricObjectPropertyAxiom(dup(ax.getProperty()), anns(ax));
}
@Override
public void visit(OWLTransitiveObjectPropertyAxiom ax) {
obj = df.getOWLTransitiveObjectPropertyAxiom(dup(ax.getProperty()), anns(ax));
}
@Override
public void visit(OWLClass ce) {
obj = getIRI(ce);
}
@Override
public void visit(OWLDataAllValuesFrom ce) {
obj = df.getOWLDataAllValuesFrom(dup(ce.getProperty()), dup(ce.getFiller()));
}
@Override
public void visit(OWLDataExactCardinality ce) {
obj = df.getOWLDataExactCardinality(ce.getCardinality(), dup(ce.getProperty()),
dup(ce.getFiller()));
}
@Override
public void visit(OWLDataMaxCardinality ce) {
obj = df.getOWLDataMaxCardinality(ce.getCardinality(), dup(ce.getProperty()),
dup(ce.getFiller()));
}
@Override
public void visit(OWLDataMinCardinality ce) {
obj = df.getOWLDataMinCardinality(ce.getCardinality(), dup(ce.getProperty()),
dup(ce.getFiller()));
}
@Override
public void visit(OWLDataSomeValuesFrom ce) {
obj = df.getOWLDataSomeValuesFrom(dup(ce.getProperty()), dup(ce.getFiller()));
}
@Override
public void visit(OWLDataHasValue ce) {
obj = df.getOWLDataHasValue(dup(ce.getProperty()), dup(ce.getFiller()));
}
@Override
public void visit(OWLObjectAllValuesFrom ce) {
obj = df.getOWLObjectAllValuesFrom(dup(ce.getProperty()), dup(ce.getFiller()));
}
@Override
public void visit(OWLObjectComplementOf ce) {
obj = df.getOWLObjectComplementOf(dup(ce.getOperand()));
}
@Override
public void visit(OWLObjectExactCardinality ce) {
obj = df.getOWLObjectExactCardinality(ce.getCardinality(), dup(ce.getProperty()),
dup(ce.getFiller()));
}
@Override
public void visit(OWLObjectIntersectionOf ce) {
obj = df.getOWLObjectIntersectionOf(set(ce.operands()));
}
@Override
public void visit(OWLObjectMaxCardinality ce) {
obj = df.getOWLObjectMaxCardinality(ce.getCardinality(), dup(ce.getProperty()),
dup(ce.getFiller()));
}
@Override
public void visit(OWLObjectMinCardinality ce) {
obj = df.getOWLObjectMinCardinality(ce.getCardinality(), dup(ce.getProperty()),
dup(ce.getFiller()));
}
@Override
public void visit(OWLObjectOneOf ce) {
obj = df.getOWLObjectOneOf(set(ce.individuals()));
}
@Override
public void visit(OWLObjectHasSelf ce) {
obj = df.getOWLObjectHasSelf(dup(ce.getProperty()));
}
@Override
public void visit(OWLObjectSomeValuesFrom ce) {
obj = df.getOWLObjectSomeValuesFrom(dup(ce.getProperty()), dup(ce.getFiller()));
}
@Override
public void visit(OWLObjectUnionOf ce) {
obj = df.getOWLObjectUnionOf(set(ce.operands()));
}
@Override
public void visit(OWLObjectHasValue ce) {
obj = df.getOWLObjectHasValue(dup(ce.getProperty()), dup(ce.getFiller()));
}
@Override
public void visit(OWLDataComplementOf node) {
obj = df.getOWLDataComplementOf(dup(node.getDataRange()));
}
@Override
public void visit(OWLDataOneOf node) {
obj = df.getOWLDataOneOf(set(node.values()));
}
@Override
public void visit(OWLDatatype node) {
obj = getIRI(node);
}
@Override
public void visit(OWLDatatypeRestriction node) {
obj = df.getOWLDatatypeRestriction(dup(node.getDatatype()),
asList(node.facetRestrictions().map(this::dup)));
}
@Override
public void visit(OWLFacetRestriction node) {
obj = df.getOWLFacetRestriction(node.getFacet(), dup(node.getFacetValue()));
}
@Override
public void visit(OWLLiteral node) {
if (node.hasLang()) {
obj = df.getOWLLiteral(node.getLiteral(), node.getLang());
} else {
obj = df.getOWLLiteral(node.getLiteral(), dup(node.getDatatype()));
}
}
@Override
public void visit(OWLDataProperty property) {
obj = getIRI(property);
}
@Override
public void visit(OWLObjectProperty property) {
obj = getIRI(property);
}
@Override
public void visit(OWLObjectInverseOf property) {
obj = df.getOWLObjectInverseOf(dup(property.getInverse()).asOWLObjectProperty());
}
@Override
public void visit(OWLNamedIndividual individual) {
obj = getIRI(individual);
}
@Override
public void visit(OWLOntology ontology) {
// Should we duplicate ontologies here? Probably not.
obj = ontology;
}
@Override
public void visit(SWRLRule rule) {
obj =
df.getSWRLRule(asList(rule.body().map(this::dup)), asList(rule.head().map(this::dup)));
}
@Override
public void visit(SWRLClassAtom node) {
obj = df.getSWRLClassAtom(dup(node.getPredicate()), dup(node.getArgument()));
}
@Override
public void visit(SWRLDataRangeAtom node) {
obj = df.getSWRLDataRangeAtom(dup(node.getPredicate()), dup(node.getArgument()));
}
@Override
public void visit(SWRLObjectPropertyAtom node) {
obj = df.getSWRLObjectPropertyAtom(dup(node.getPredicate()), dup(node.getFirstArgument()),
dup(node.getSecondArgument()));
}
@Override
public void visit(SWRLDataPropertyAtom node) {
obj = df.getSWRLDataPropertyAtom(dup(node.getPredicate()), dup(node.getFirstArgument()),
dup(node.getSecondArgument()));
}
@Override
public void visit(SWRLBuiltInAtom node) {
obj = df.getSWRLBuiltInAtom(node.getPredicate(), asList(node.arguments().map(this::dup)));
}
@Override
public void visit(SWRLDifferentIndividualsAtom node) {
obj = df.getSWRLDifferentIndividualsAtom(dup(node.getFirstArgument()),
dup(node.getSecondArgument()));
}
@Override
public void visit(SWRLSameIndividualAtom node) {
obj = df.getSWRLSameIndividualAtom(dup(node.getFirstArgument()),
dup(node.getSecondArgument()));
}
@Override
public void visit(SWRLVariable node) {
obj = df.getSWRLVariable(dup(node.getIRI()));
}
@Override
public void visit(SWRLIndividualArgument node) {
obj = df.getSWRLIndividualArgument(dup(node.getIndividual()));
}
@Override
public void visit(SWRLLiteralArgument node) {
obj = df.getSWRLLiteralArgument(dup(node.getLiteral()));
}
@Override
public void visit(OWLHasKeyAxiom ax) {
obj = df.getOWLHasKeyAxiom(dup(ax.getClassExpression()), set(ax.propertyExpressions()),
anns(ax));
}
@Override
public void visit(OWLDataIntersectionOf node) {
obj = df.getOWLDataIntersectionOf(set(node.operands()));
}
@Override
public void visit(OWLDataUnionOf node) {
obj = df.getOWLDataUnionOf(set(node.operands()));
}
@Override
public void visit(OWLAnnotationProperty property) {
obj = getIRI(property);
}
@Override
public void visit(OWLAnnotationPropertyDomainAxiom ax) {
OWLProperty prop = dup(ax.getProperty());
IRI domain = dup(ax.getDomain());
if (prop.isObjectPropertyExpression()) {
// turn to object property domain
OWLClassExpression d = df.getOWLClass(domain);
LOGGER.warn(
"Annotation property domain axiom turned to object property domain after parsing. This could introduce errors if the original domain was an anonymous expression: {} is the new domain.",
domain);
obj = df.getOWLObjectPropertyDomainAxiom(prop.asOWLObjectProperty(), d,
asList(ax.annotations()));
return;
} else if (prop.isDataPropertyExpression()) {
// turn to data property domain
OWLClassExpression d = df.getOWLClass(domain);
LOGGER.warn(
"Annotation property domain axiom turned to data property domain after parsing. This could introduce errors if the original domain was an anonymous expression: {} is the new domain.",
domain);
obj = df.getOWLDataPropertyDomainAxiom(prop.asOWLDataProperty(), d,
asList(ax.annotations()));
return;
}
obj = df.getOWLAnnotationPropertyDomainAxiom(prop.asOWLAnnotationProperty(), domain,
anns(ax));
}
@Override
public void visit(OWLAnnotationPropertyRangeAxiom ax) {
OWLProperty prop = dup(ax.getProperty());
IRI range = dup(ax.getRange());
if (prop.isObjectPropertyExpression()) {
// turn to object property domain
OWLClassExpression d = df.getOWLClass(range);
LOGGER.warn(
"Annotation property range axiom turned to object property range after parsing. This could introduce errors if the original range was an anonymous expression: {} is the new domain.",
range);
obj = df.getOWLObjectPropertyRangeAxiom(prop.asOWLObjectProperty(), d,
asList(ax.annotations()));
return;
} else if (prop.isDataPropertyExpression()) {
// turn to data property domain
OWLDataRange d = df.getOWLDatatype(range);
LOGGER.warn(
"Annotation property range axiom turned to data property range after parsing. This could introduce errors if the original range was an anonymous expression: {} is the new domain.",
range);
obj = df.getOWLDataPropertyRangeAxiom(prop.asOWLDataProperty(), d,
asList(ax.annotations()));
return;
}
obj =
df.getOWLAnnotationPropertyRangeAxiom(prop.asOWLAnnotationProperty(), range, anns(ax));
}
@Override
public void visit(OWLSubAnnotationPropertyOfAxiom ax) {
OWLProperty sub = dup(ax.getSubProperty());
OWLProperty sup = dup(ax.getSuperProperty());
if (sub.isObjectPropertyExpression() || sup.isObjectPropertyExpression()) {
// check: it is possible that the properties represent an actual
// illegal punning, where this fix cannot be applied
if (sub.isOWLObjectProperty() && sup.isOWLObjectProperty()) {
obj = df.getOWLSubObjectPropertyOfAxiom(sub.asOWLObjectProperty(),
sup.asOWLObjectProperty(), asList(ax.annotations()));
} else {
// cannot repair: leave unchanged
obj = ax;
}
return;
} else if (sub.isDataPropertyExpression() || sup.isDataPropertyExpression()) {
if (sub.isOWLDataProperty() && sup.isOWLDataProperty()) {
obj = df.getOWLSubDataPropertyOfAxiom(sub.asOWLDataProperty(),
sup.asOWLDataProperty(), asList(ax.annotations()));
} else {
// cannot repair: leave unchanged
obj = ax;
}
return;
}
if (sub.isOWLAnnotationProperty() && sup.isOWLAnnotationProperty()) {
obj = df.getOWLSubAnnotationPropertyOfAxiom(sub.asOWLAnnotationProperty(),
sup.asOWLAnnotationProperty(), anns(ax));
} else {
// cannot repair: leave unchanged
obj = ax;
}
}
@Override
public void visit(OWLAnnotation node) {
obj = df.getOWLAnnotation(dup(node.getProperty()), dup(node.getValue()));
}
@Override
public void visit(OWLAnonymousIndividual individual) {
obj = individual;
}
@Override
public void visit(IRI iri) {
obj = iri;
for (EntityType entityType : EntityType.values()) {
assert entityType != null;
OWLEntity entity = df.getOWLEntity(entityType, iri);
OWLEntity replacementIRI = replacementMap.get(entity);
if (replacementIRI != null) {
obj = replacementIRI.getIRI();
break;
}
}
}
@Override
public void visit(OWLDatatypeDefinitionAxiom ax) {
obj = df.getOWLDatatypeDefinitionAxiom(dup(ax.getDatatype()), dup(ax.getDataRange()),
anns(ax));
}
/**
* A utility function that duplicates a set of objects.
*
* @param type
* @param objects The set of object to be duplicated
* @return The set of duplicated objects
*/
private Collection set(Stream objects) {
return asList(objects.map(this::dup));
}
}