org.semanticweb.owlapi.model.OWLObjectPropertyExpression Java Examples
The following examples show how to use
org.semanticweb.owlapi.model.OWLObjectPropertyExpression.
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Example #1
Source File: SimpleOntology.java From mobi with GNU Affero General Public License v3.0 | 6 votes |
@Override public Set<ObjectProperty> getAllClassObjectProperties(IRI iri) { org.semanticweb.owlapi.model.IRI classIRI = SimpleOntologyValues.owlapiIRI(iri); if (owlOntology.containsClassInSignature(classIRI)) { OWLClass owlClass = owlManager.getOWLDataFactory().getOWLClass(classIRI); Node<OWLClass> equivalentClasses = owlReasoner.getEquivalentClasses(owlClass); NodeSet<OWLClass> superClasses = owlReasoner.getSuperClasses(owlClass); return owlOntology.objectPropertiesInSignature(Imports.INCLUDED) .filter(property -> { Set<OWLObjectPropertyDomainAxiom> domains = owlOntology.axioms( OWLObjectPropertyDomainAxiom.class, OWLObjectPropertyExpression.class, property, Imports.INCLUDED, Navigation.IN_SUB_POSITION).collect(Collectors.toSet()); return hasClassAsDomain(domains.stream(), classIRI, equivalentClasses, superClasses) || hasNoDomain(domains.stream()); }) .map(SimpleOntologyValues::mobiObjectProperty) .collect(Collectors.toSet()); } throw new IllegalArgumentException("Class not found in ontology"); }
Example #2
Source File: TaxonomyImpl.java From quetzal with Eclipse Public License 2.0 | 6 votes |
public Set<OWLPropertyExpression> getAllSubproperties( OWLPropertyExpression roleSup) { Set<OWLPropertyExpression> subs = new HashSet<OWLPropertyExpression>(); for (OWLPropertyExpression sub : roleSup.isDataPropertyExpression()? dataPropTaxo.getSubsumeesOrSelf(roleSup) : objPropTaxo.getSubsumeesOrSelf(roleSup)) { if (!sub.isAnonymous()) { subs.add(sub); } else { //OWLObjectProperty op = ((OWLObjectPropertyExpression) c).getNamedProperty(); //fac.getOWLObjectProperty(IRI.create(sub.getInverse().getName().getAFun().getName())); //if (oprops.contains(op)) { subs.add(sub); } //else { // do nothing: inverse of a create role R, where R is defined as equivalent to the inverse of an existing role //} } } subs.remove(dataPropTaxo.getBottom()); subs.remove(objPropTaxo.getBottom()); subs.remove(fac.getOWLObjectInverseOf((OWLObjectPropertyExpression) objPropTaxo.getBottom()).getSimplified()); return subs; }
Example #3
Source File: Mooncat.java From owltools with BSD 3-Clause "New" or "Revised" License | 6 votes |
private static Set<OWLObjectPropertyExpression> getSuperObjectProperties(OWLObjectPropertyExpression p, OWLReasoner reasoner, OWLOntology ont) { if (reasoner != null) { return reasoner.getSuperObjectProperties(p, false).getFlattened(); } // Elk does not support this (sigh), so we do it ourselves Set<OWLObjectPropertyExpression> sups = new HashSet<>(); Stack<OWLObjectPropertyExpression> seeds = new Stack<>(); seeds.add(p); while (seeds.size() > 0) { OWLObjectPropertyExpression nextp = seeds.pop(); Set<OWLObjectPropertyExpression> xset = ont.getObjectSubPropertyAxiomsForSubProperty(nextp).stream(). map(a -> a.getSuperProperty()).collect(Collectors.toSet()); seeds.addAll(xset); seeds.removeAll(sups); sups.addAll(xset); } return sups; }
Example #4
Source File: LegoDotWriter.java From owltools with BSD 3-Clause "New" or "Revised" License | 6 votes |
private void renderAdditionalNodeExpression(StringBuilder line, OWLClassExpression expression, OWLPrettyPrinter owlpp) { if (expression instanceof OWLObjectSomeValuesFrom) { OWLObjectSomeValuesFrom object = (OWLObjectSomeValuesFrom) expression; OWLObjectPropertyExpression property = object.getProperty(); OWLClassExpression filler = object.getFiller(); line.append("<TR><TD>"); line.append(getLabel(property, owlpp)); line.append("</TD><TD>"); line.append(getLabel(filler, owlpp)); line.append("</TD></TR>"); } else { line.append("<TR><TD COLSPAN=\"2\">"); line.append(getLabel(expression, owlpp)); line.append("</TD></TR>"); } }
Example #5
Source File: OWLInAboxTranslator.java From owltools with BSD 3-Clause "New" or "Revised" License | 6 votes |
/** * @param i - source * @param supc - target expression (e.g. R some B) * @return OWLObjectPropertyAssertionAxiom or null */ private OWLObjectPropertyAssertionAxiom trEdge(OWLIndividual i, OWLClassExpression supc) { if (supc instanceof OWLObjectSomeValuesFrom) { OWLObjectSomeValuesFrom svf = (OWLObjectSomeValuesFrom)supc; OWLObjectPropertyExpression p = trTypeLevel(svf.getProperty()); OWLIndividual j; if (svf.getFiller().isAnonymous()) { j = anonClassToIndividual(svf.getFiller()); add(trEdge(j, svf.getFiller())); } else { j = classToIndividual((OWLClass)svf.getFiller()); } OWLObjectPropertyAssertionAxiom e = getOWLDataFactory().getOWLObjectPropertyAssertionAxiom(p, i, j); return e; } return null; }
Example #6
Source File: LinkMaker.java From owltools with BSD 3-Clause "New" or "Revised" License | 6 votes |
/** * Check that the given subClass does not already has a matching subClass axiom. * * @param subCls * @param p * @param superCls * @return existing axiom or null */ private OWLAxiom hasLinks(OWLClass subCls, OWLObjectProperty p, OWLClass superCls) { for(OWLOntology o : allOntologies) { Set<OWLSubClassOfAxiom> subClsAxioms = o.getSubClassAxiomsForSubClass(subCls); for (OWLSubClassOfAxiom subClsAxiom : subClsAxioms) { OWLClassExpression ce = subClsAxiom.getSuperClass(); if (ce instanceof OWLObjectSomeValuesFrom) { OWLObjectSomeValuesFrom someValuesFrom = (OWLObjectSomeValuesFrom) ce; OWLObjectPropertyExpression property = someValuesFrom.getProperty(); if (p.equals(property)) { OWLClassExpression filler = someValuesFrom.getFiller(); if (superCls.equals(filler)) { return subClsAxiom; } } } } } return null; }
Example #7
Source File: LegoShuntGraphTool.java From owltools with BSD 3-Clause "New" or "Revised" License | 6 votes |
private void renderAdditionalNodeExpression(StringBuilder line, OWLClassExpression expression, OWLPrettyPrinter owlpp, OWLGraphWrapper graph) { if (expression instanceof OWLObjectSomeValuesFrom) { OWLObjectSomeValuesFrom object = (OWLObjectSomeValuesFrom) expression; OWLObjectPropertyExpression property = object.getProperty(); OWLClassExpression filler = object.getFiller(); line.append("<TR><TD>"); line.append(getLabel(property, owlpp, graph)); line.append("</TD><TD>"); line.append(getLabel(filler, owlpp, graph)); line.append("</TD></TR>"); } else { line.append("<TR><TD COLSPAN=\"2\">"); line.append(getLabel(expression, owlpp, graph)); line.append("</TD></TR>"); } }
Example #8
Source File: PropertyViewOntologyBuilder.java From owltools with BSD 3-Clause "New" or "Revised" License | 6 votes |
public Set<List<OWLObjectPropertyExpression>> getPropertyChains(OWLObjectProperty p) { LOG.info("Getting chains for: "+p); Set<List<OWLObjectPropertyExpression>> chains = new HashSet<List<OWLObjectPropertyExpression>>(); for (OWLSubPropertyChainOfAxiom spca : sourceOntology.getAxioms(AxiomType.SUB_PROPERTY_CHAIN_OF)) { if (spca.getSuperProperty().equals(p)) { List<OWLObjectPropertyExpression> chain = spca.getPropertyChain(); chains.add(chain); // note: limited form of cycle checking if (!chain.contains(p)) { chains.addAll(expandPropertyChain(chain)); } } } LOG.info(p+" ==> "+chains); return chains; }
Example #9
Source File: OWLGraphWrapperEdgesExtendedTest.java From owltools with BSD 3-Clause "New" or "Revised" License | 6 votes |
/** * Test {@link OWLGraphWrapperEdgesExtended#getSubPropertyReflexiveClosureOf(OWLObjectPropertyExpression)}. */ @Test @Ignore("Disabling test due to lack of resources to debug") public void shouldGetSubPropertyReflexiveClosureOf() { OWLObjectProperty fakeRel1 = wrapper.getOWLObjectPropertyByIdentifier("fake_rel1"); List<OWLObjectProperty> expectedSubProps = new ArrayList<OWLObjectProperty>(); expectedSubProps.add(fakeRel1); expectedSubProps.add(wrapper.getOWLObjectPropertyByIdentifier("fake_rel2")); expectedSubProps.add(wrapper.getOWLObjectPropertyByIdentifier("fake_rel3")); expectedSubProps.add(wrapper.getOWLObjectPropertyByIdentifier("fake_rel4")); //fake_rel3 and fake_rel4 are sub-properties of fake_rel2, //which is the sub-property of fake_rel1 //we also test the order of the returned properties LinkedHashSet<OWLObjectPropertyExpression> subprops = wrapper.getSubPropertyReflexiveClosureOf(fakeRel1); assertEquals("Incorrect sub-properties returned: ", expectedSubProps, new ArrayList<OWLObjectPropertyExpression>(subprops)); }
Example #10
Source File: EliminateEJVar.java From quetzal with Eclipse Public License 2.0 | 6 votes |
/** * return named properties p such that c \subseteq \some inv(p) T * @param c * @return */ protected Set<URI> getNamedInverseSuperPropertiesOrSelf(OWLClassExpression c) { Set<OWLClassExpression> subs = taxo.getAllSubsumers(c); Set<URI> ret = new HashSet<URI>(); for (OWLClassExpression ex: subs) { if (ex.getClassExpressionType().equals(ClassExpressionType.OBJECT_SOME_VALUES_FROM)) { OWLObjectSomeValuesFrom rest = (OWLObjectSomeValuesFrom) ex; OWLObjectPropertyExpression prop = rest.getProperty().getSimplified(); if (prop.isAnonymous()) { OWLObjectProperty namedProp = prop.getNamedProperty(); ret.add(namedProp.getIRI().toURI()); } } } return ret; }
Example #11
Source File: OWLGraphWrapperEdgesExtendedTest.java From owltools with BSD 3-Clause "New" or "Revised" License | 6 votes |
/** * Test {@link OWLGraphWrapperEdgesExtended#getSuperPropertyReflexiveClosureOf(OWLObjectPropertyExpression)}. */ @Test @Ignore("Disabling test due to lack of resources to debug") public void shouldGetSuperPropertyReflexiveClosureOf() { OWLObjectProperty fakeRel3 = wrapper.getOWLObjectPropertyByIdentifier("fake_rel3"); List<OWLObjectProperty> expectedSubProps = new ArrayList<OWLObjectProperty>(); expectedSubProps.add(fakeRel3); expectedSubProps.add(wrapper.getOWLObjectPropertyByIdentifier("fake_rel2")); expectedSubProps.add(wrapper.getOWLObjectPropertyByIdentifier("fake_rel1")); //fake_rel3 is sub-property of fake_rel2, //which is the sub-property of fake_rel1 //we also test the order of the returned properties LinkedHashSet<OWLObjectPropertyExpression> superProps = wrapper.getSuperPropertyReflexiveClosureOf(fakeRel3); assertEquals("Incorrect super properties returned: ", expectedSubProps, new ArrayList<OWLObjectPropertyExpression>(superProps)); }
Example #12
Source File: SimpleOntology.java From mobi with GNU Affero General Public License v3.0 | 5 votes |
@Override public Set<ObjectProperty> getAllNoDomainObjectProperties() { return owlOntology.objectPropertiesInSignature(Imports.INCLUDED) .filter(property -> hasNoDomain(owlOntology.axioms(OWLObjectPropertyDomainAxiom.class, OWLObjectPropertyExpression.class, property, Imports.INCLUDED, Navigation.IN_SUB_POSITION))) .map(SimpleOntologyValues::mobiObjectProperty) .collect(Collectors.toSet()); }
Example #13
Source File: InferenceBuilder.java From owltools with BSD 3-Clause "New" or "Revised" License | 5 votes |
/** * Check all classes for potential redundant subClass axioms of type: * <pre> * A SubClassOf R some B * and * A SubClassOf B * </pre> * * @return list of axiom pairs */ public List<PotentialRedundant> checkPotentialRedundantSubClassAxioms() { List<PotentialRedundant> result = new ArrayList<PotentialRedundant>(); for(OWLClass cls : graph.getAllOWLClasses()) { Set<OWLSubClassOfAxiom> axioms = graph.getAllOWLSubClassOfAxiomsForSubClass(cls); if (axioms.size() > 1) { // only check sets with more than one axiom for (OWLSubClassOfAxiom main : axioms) { OWLClassExpression mainSuperClassCE = main.getSuperClass(); if (mainSuperClassCE.isAnonymous()) { continue; } OWLClass mainSuperClass = mainSuperClassCE.asOWLClass(); for (OWLSubClassOfAxiom current : axioms) { if (main == current) { continue; } OWLClassExpression currentSuperClass = current.getSuperClass(); if (currentSuperClass.isAnonymous() && currentSuperClass instanceof OWLObjectSomeValuesFrom) { OWLObjectSomeValuesFrom someValuesFrom = (OWLObjectSomeValuesFrom) currentSuperClass; final OWLClassExpression filler = someValuesFrom.getFiller(); if (mainSuperClass.equals(someValuesFrom.getFiller())) { final OWLObjectPropertyExpression property = someValuesFrom.getProperty(); final OWLClassExpression subClass = current.getSubClass(); final PotentialRedundant redundant = new PotentialRedundant(main, current, subClass.asOWLClass(), property.asOWLObjectProperty(), filler.asOWLClass()); result.add(redundant); } } } } } } if (!result.isEmpty()) { return result; } return null; }
Example #14
Source File: OwlApiUtils.java From SciGraph with Apache License 2.0 | 5 votes |
public static String getIri(OWLObjectPropertyExpression property) { if (property.isAnonymous()) { return "_:" + hash(property.toString()); } else { return property.asOWLObjectProperty().getIRI().toString(); } }
Example #15
Source File: OwlHelper.java From owltools with BSD 3-Clause "New" or "Revised" License | 5 votes |
public static Set<OWLObjectPropertyExpression> getSubProperties(OWLObjectPropertyExpression prop, OWLOntology ont) { Set<OWLObjectPropertyExpression> results = new HashSet<>(); Set<OWLSubObjectPropertyOfAxiom> axioms = ont.getObjectSubPropertyAxiomsForSuperProperty(prop); for (OWLSubObjectPropertyOfAxiom axiom : axioms) { results.add(axiom.getSubProperty()); } return results; }
Example #16
Source File: OWLGraphWrapperEdgesExtended.java From owltools with BSD 3-Clause "New" or "Revised" License | 5 votes |
/** * Returns all parent properties of <code>prop</code> in all ontologies, * and <code>prop</code> itself as the first element (reflexive). * Unlike the method <code>owltools.graph.OWLGraphWrapperEdges.getSuperPropertyReflexiveClosureOf</code>, * the returned super properties here are ordered from the more precise to the more general * (e.g., "in_deep_part_of", then "part_of", then "overlaps"). * * @param prop the <code>OWLObjectPropertyExpression</code> for which we want * the ordered super properties. * @return A <code>LinkedHashSet</code> of <code>OWLObjectPropertyExpression</code>s * ordered from the more precise to the more general, with <code>prop</code> * as the first element. */ //TODO: Remove if OWLGraphWrapper changes its implementation public LinkedHashSet<OWLObjectPropertyExpression> getSuperPropertyReflexiveClosureOf( OWLObjectPropertyExpression prop) { //try to get the super properties from the cache LinkedHashSet<OWLObjectPropertyExpression> superProps = this.superPropertyCache.get(prop); if (superProps == null) { superProps = new LinkedHashSet<OWLObjectPropertyExpression>(); Stack<OWLObjectPropertyExpression> stack = new Stack<OWLObjectPropertyExpression>(); stack.add(prop); while (!stack.isEmpty()) { OWLObjectPropertyExpression nextProp = stack.pop(); Set<OWLObjectPropertyExpression> directSupers = this.getSuperPropertiesOf(nextProp); directSupers.removeAll(superProps); directSupers.remove(prop); stack.addAll(directSupers); superProps.addAll(directSupers); } //put superProps in cache this.superPropertyCache.put(prop, superProps); } LinkedHashSet<OWLObjectPropertyExpression> superPropsReflexive = new LinkedHashSet<OWLObjectPropertyExpression>(); superPropsReflexive.add(prop); superPropsReflexive.addAll(superProps); return superPropsReflexive; }
Example #17
Source File: OWLGraphWrapperEdgesExtended.java From owltools with BSD 3-Clause "New" or "Revised" License | 5 votes |
protected OWLGraphWrapperEdgesExtended(String iri) throws UnknownOWLOntologyException, OWLOntologyCreationException { super(iri); this.subPropertyCache = new HashMap<OWLObjectPropertyExpression, LinkedHashSet<OWLObjectPropertyExpression>>(); this.superPropertyCache = new HashMap<OWLObjectPropertyExpression, LinkedHashSet<OWLObjectPropertyExpression>>(); this.gciRelationBySource = null; this.gciRelationByTarget = null; this.outgoingEdgesClosureWithGCIBySource = null; }
Example #18
Source File: GraphReasoner.java From owltools with BSD 3-Clause "New" or "Revised" License | 5 votes |
public NodeSet<OWLObjectPropertyExpression> getSubObjectProperties( OWLObjectPropertyExpression pe, boolean direct) throws InconsistentOntologyException, FreshEntitiesException, ReasonerInterruptedException, TimeOutException { // TODO Auto-generated method stub return null; }
Example #19
Source File: OWLGraphWrapperEdgesExtended.java From owltools with BSD 3-Clause "New" or "Revised" License | 5 votes |
/** * Default constructor. * @param ontology The <code>OWLOntology</code> that this object wraps. */ public OWLGraphWrapperEdgesExtended(OWLOntology ontology) { super(ontology); this.subPropertyCache = new HashMap<OWLObjectPropertyExpression, LinkedHashSet<OWLObjectPropertyExpression>>(); this.subAnnotationPropertyCache = new HashMap<OWLAnnotationProperty, LinkedHashSet<OWLAnnotationProperty>>(); this.superPropertyCache = new HashMap<OWLObjectPropertyExpression, LinkedHashSet<OWLObjectPropertyExpression>>(); this.gciRelationBySource = null; this.gciRelationByTarget = null; this.outgoingEdgesClosureWithGCIBySource = null; }
Example #20
Source File: GraphOwlVisitor.java From SciGraph with Apache License 2.0 | 5 votes |
@Override public Void visit(OWLSubPropertyChainOfAxiom axiom) { long chain = getOrCreateNode(getIri(axiom.getSuperProperty())); int i = 0; for (OWLObjectPropertyExpression property : axiom.getPropertyChain()) { long link = getOrCreateNode(getIri(property)); long relationship = getOrCreateRelationship(chain, link, OwlRelationships.OWL_PROPERTY_CHAIN_AXIOM); graph.setRelationshipProperty(relationship, "order", i++); } return null; }
Example #21
Source File: OwlHelper.java From owltools with BSD 3-Clause "New" or "Revised" License | 5 votes |
public static Set<OWLObjectPropertyExpression> getSuperProperties(OWLObjectPropertyExpression prop, OWLOntology ont) { Set<OWLObjectPropertyExpression> result = new HashSet<>(); Set<OWLSubObjectPropertyOfAxiom> axioms = ont.getObjectSubPropertyAxiomsForSubProperty(prop); for (OWLSubPropertyAxiom<OWLObjectPropertyExpression> axiom : axioms) { result.add(axiom.getSuperProperty()); } return result; }
Example #22
Source File: CompositionalClassPredictor.java From owltools with BSD 3-Clause "New" or "Revised" License | 5 votes |
private boolean getReachableOWLClasses(OWLClassExpression c, Set<OWLClassExpression> elts) { if (c instanceof OWLObjectIntersectionOf) { for (OWLClassExpression x : ((OWLObjectIntersectionOf)c).getOperands()) { if (x instanceof OWLClass) { elts.add((OWLClass) x); } else if (x instanceof OWLObjectSomeValuesFrom) { OWLObjectPropertyExpression p = ((OWLObjectSomeValuesFrom)x).getProperty(); String pLabel = getGraph().getLabel(p); if (pLabel != null && pLabel.contains("regulates")) { // fairly hacky: // fail on this for now - no inference for regulates //elts.add(x); return false; } else { OWLClassExpression filler = ((OWLObjectSomeValuesFrom)x).getFiller(); if (!getReachableOWLClasses( filler, elts)) { return false; } } } else { return false; } } return true; } else if (c instanceof OWLClass) { elts.add((OWLClass) c); return true; } return false; }
Example #23
Source File: GraphOwlVisitor.java From SciGraph with Apache License 2.0 | 5 votes |
long getObjectPropertyRelationship( OWLPropertyAssertionAxiom<OWLObjectPropertyExpression, OWLIndividual> axiom) { long subject = getOrCreateNode(getIri(axiom.getSubject())); String property = getIri(axiom.getProperty()); long object = getOrCreateNode(getIri(axiom.getObject())); RelationshipType type = RelationshipType.withName(property.toString()); long relationship = getOrCreateRelationship(subject, object, type); graph.setRelationshipProperty(relationship, CommonProperties.IRI, property.toString()); return relationship; }
Example #24
Source File: AbstractSimPreProcessor.java From owltools with BSD 3-Clause "New" or "Revised" License | 5 votes |
public String generateLabel(OWLClassExpression x) { StringBuffer sb = new StringBuffer(); if (x instanceof OWLObjectSomeValuesFrom) { OWLObjectSomeValuesFrom svf = (OWLObjectSomeValuesFrom) x; OWLObjectPropertyExpression p = svf.getProperty(); if (propertyToFormatMap.containsKey(p)) { return String.format(propertyToFormatMap.get(p), generateLabel(svf.getFiller())); } else { String pStr = p.toString(); if (p instanceof OWLEntity) { pStr = getAnyLabel((OWLEntity)p); } return pStr + " some "+generateLabel(svf.getFiller()); } } else if (x instanceof OWLObjectIntersectionOf) { OWLObjectIntersectionOf oio = (OWLObjectIntersectionOf) x; for (OWLClassExpression op : oio.getOperands()) { if (sb.length() > 0) { sb.append(" and "); } sb.append(generateLabel(op)); } return sb.toString(); } else if (x instanceof OWLClass) { return this.getAnyLabel((OWLClass) x); } return x.toString(); }
Example #25
Source File: OWLInAboxTranslator.java From owltools with BSD 3-Clause "New" or "Revised" License | 5 votes |
/** * Transitive(R) ==> Transitive(R') * * @param ax */ private void tr(OWLObjectPropertyCharacteristicAxiom ax) { if (ax instanceof OWLTransitiveObjectPropertyAxiom) { OWLObjectPropertyExpression pt = trTypeLevel(ax.getProperty()); if (pt instanceof OWLObjectProperty) { add(getOWLDataFactory().getOWLTransitiveObjectPropertyAxiom(pt)); } } add(ax); // pass-through }
Example #26
Source File: OWLInAboxTranslator.java From owltools with BSD 3-Clause "New" or "Revised" License | 5 votes |
private void tr(OWLSubPropertyChainOfAxiom ax) { List<OWLObjectPropertyExpression> chain = new ArrayList<OWLObjectPropertyExpression>(); for (OWLObjectPropertyExpression p : ax.getPropertyChain()) { chain.add(trTypeLevel(p)); } add(getOWLDataFactory().getOWLSubPropertyChainOfAxiom(chain, trTypeLevel(ax.getSuperProperty()))); }
Example #27
Source File: PropertyViewOntologyBuilder.java From owltools with BSD 3-Clause "New" or "Revised" License | 5 votes |
public OWLClassExpression expandPropertyChain(List<OWLObjectPropertyExpression> chain, OWLClassExpression t) { OWLClassExpression x = t; for (int i = chain.size()-1; i>=0; i--) { x = this.owlDataFactory.getOWLObjectSomeValuesFrom(chain.get(i),t); t = x; } return x; }
Example #28
Source File: AbstractOBOSimPreProcessor.java From owltools with BSD 3-Clause "New" or "Revised" License | 5 votes |
protected void addPropertyChain(String p1, String p2, String pInferred) { List<OWLObjectPropertyExpression> chain = new ArrayList<OWLObjectPropertyExpression>(); chain.add(getOWLObjectPropertyViaOBOSuffix(p1)); chain.add(getOWLObjectPropertyViaOBOSuffix(p2)); // has_phenotype <- has_phenotype o has_part addAxiomToOutput(getOWLDataFactory().getOWLSubPropertyChainOfAxiom(chain , getOWLObjectPropertyViaOBOSuffix(pInferred)), false); }
Example #29
Source File: PhenoSimHQEPreProcessor.java From owltools with BSD 3-Clause "New" or "Revised" License | 5 votes |
private void addPhenotypePropertyChain() { OWLObjectProperty hpart = getOWLObjectPropertyViaOBOSuffix(HAS_PART); OWLObjectProperty hphen = getOWLObjectPropertyViaOBOSuffix(HAS_PHENOTYPE); List<OWLObjectPropertyExpression> chain = new ArrayList<OWLObjectPropertyExpression>(); chain.add(hphen); chain.add(hpart); // has_phenotype <- has_phenotype o has_part addAxiomToOutput(getOWLDataFactory().getOWLSubPropertyChainOfAxiom(chain , hphen), false); }
Example #30
Source File: AutomaticSimPreProcessor.java From owltools with BSD 3-Clause "New" or "Revised" License | 5 votes |
private void gatherProperties(OWLObjectPropertyExpression pe) { if (pe instanceof OWLObjectProperty) { viewProperties.add((OWLObjectProperty) pe); } else { // TODO } }