Examples with OWLOntologyCreationException org.semanticweb.owlapi.model.OWLOntologyCreationException used on opensource projects

Example 46 with OWLOntologyCreationException

use of org.semanticweb.owlapi.model.OWLOntologyCreationException in project stanbol by apache.

the class OWLAPIToClerezzaConverterTest method setupClass.

@BeforeClass
public static void setupClass() {
    /*
         * Set-up the OWL ontology for the test. Simply add the axioms: AndreaNuzzolese isA Person -> class
         * assertion axiom EnricoDaga isA Person -> class assertion axiom AndreaNuzzolese knows EnricoDaga ->
         * object property assertion axiom
         */
    OWLOntologyManager manager = OWLManager.createOWLOntologyManager();
    OWLDataFactory factory = manager.getOWLDataFactory();
    try {
        ontology = manager.createOntology(org.semanticweb.owlapi.model.IRI.create(ns + "testOntology"));
    } catch (OWLOntologyCreationException e) {
        log.error(e.getMessage());
    }
    if (ontology != null) {
        OWLClass personClass = factory.getOWLClass(org.semanticweb.owlapi.model.IRI.create(foaf + "Person"));
        OWLNamedIndividual andreaNuzzoleseOWL = factory.getOWLNamedIndividual(org.semanticweb.owlapi.model.IRI.create(ns + "AndreaNuzzolese"));
        OWLNamedIndividual enricoDagaOWL = factory.getOWLNamedIndividual(org.semanticweb.owlapi.model.IRI.create(ns + "EnricoDaga"));
        OWLObjectProperty knowsOWL = factory.getOWLObjectProperty(org.semanticweb.owlapi.model.IRI.create(foaf + "knows"));
        OWLAxiom axiom = factory.getOWLClassAssertionAxiom(personClass, andreaNuzzoleseOWL);
        manager.addAxiom(ontology, axiom);
        axiom = factory.getOWLClassAssertionAxiom(personClass, enricoDagaOWL);
        manager.addAxiom(ontology, axiom);
        axiom = factory.getOWLObjectPropertyAssertionAxiom(knowsOWL, andreaNuzzoleseOWL, enricoDagaOWL);
        manager.addAxiom(ontology, axiom);
    }
    /*
         * Set-up the Clerezza model for the test. As before simply add the triples: AndreaNuzzolese isA
         * Person EnricoDaga isA Person AndreaNuzzolese knows EnricoDaga
         */
    mGraph = new SimpleGraph();
    IRI knowsInClerezza = new IRI(ns + "knows");
    IRI rdfType = new IRI(RDF.getURI() + "type");
    IRI foafPersonInClerezza = new IRI(foaf + "Person");
    BlankNodeOrIRI andreaNuzzoleseInClerezza = new IRI(ns + "AndreaNuzzolese");
    BlankNodeOrIRI enricoDagaInClerezza = new IRI(ns + "EnricoDaga");
    Triple triple = new TripleImpl(andreaNuzzoleseInClerezza, rdfType, foafPersonInClerezza);
    mGraph.add(triple);
    triple = new TripleImpl(enricoDagaInClerezza, rdfType, foafPersonInClerezza);
    mGraph.add(triple);
    triple = new TripleImpl(andreaNuzzoleseInClerezza, knowsInClerezza, enricoDagaInClerezza);
    mGraph.add(triple);
}

Example 47 with OWLOntologyCreationException

use of org.semanticweb.owlapi.model.OWLOntologyCreationException in project stanbol by apache.

the class RootResource method storeOntology.

/**
     * POSTs an ontology content as application/x-www-form-urlencoded
     * 
     * @param content
     * @param headers
     * @return
     */
@POST
@Consumes(value = { RDF_XML, TURTLE, X_TURTLE, N3, N_TRIPLE, OWL_XML, FUNCTIONAL_OWL, MANCHESTER_OWL, RDF_JSON })
public Response storeOntology(InputStream content, @Context HttpHeaders headers) {
    long before = System.currentTimeMillis();
    ResponseBuilder rb;
    MediaType mt = headers.getMediaType();
    if (RDF_XML_TYPE.equals(mt) || TURTLE_TYPE.equals(mt) || X_TURTLE_TYPE.equals(mt) || N3_TYPE.equals(mt) || N_TRIPLE_TYPE.equals(mt) || RDF_JSON_TYPE.equals(mt)) {
        OWLOntologyID key = null;
        try {
            key = ontologyProvider.loadInStore(content, headers.getMediaType().toString(), true);
            rb = Response.ok();
        } catch (UnsupportedFormatException e) {
            log.warn("POST method failed for media type {}. This should not happen (should fail earlier)", headers.getMediaType());
            rb = Response.status(UNSUPPORTED_MEDIA_TYPE);
        } catch (IOException e) {
            throw new WebApplicationException(e, BAD_REQUEST);
        }
        // An exception should have been thrown earlier, but just in case.
        if (key == null || key.isAnonymous()) {
            rb = Response.status(Status.INTERNAL_SERVER_ERROR);
        }
    } else if (OWL_XML_TYPE.equals(mt) || FUNCTIONAL_OWL_TYPE.equals(mt) || MANCHESTER_OWL_TYPE.equals(mt)) {
        try {
            OntologyInputSource<OWLOntology> src = new OntologyContentInputSource(content);
            ontologyProvider.loadInStore(src.getRootOntology(), true);
            rb = Response.ok();
        } catch (OWLOntologyCreationException e) {
            throw new WebApplicationException(e, INTERNAL_SERVER_ERROR);
        }
    } else {
        rb = Response.status(UNSUPPORTED_MEDIA_TYPE);
    }
    // addCORSOrigin(servletContext, rb, headers);
    Response r = rb.build();
    log.debug("POST request for ontology addition completed in {} ms with status {}.", (System.currentTimeMillis() - before), r.getStatus());
    return r;
}

Example 48 with OWLOntologyCreationException

use of org.semanticweb.owlapi.model.OWLOntologyCreationException in project stanbol by apache.

the class ScopeResource method registerScope.

/**
     * At least one between corereg and coreont must be present. Registry iris supersede ontology iris.
     * 
     * @param scopeid
     * @param coreRegistry
     *            a. If it is a well-formed IRI it supersedes <code>coreOntology</code>.
     * @param coreOntologies
     * @param customRegistry
     *            a. If it is a well-formed IRI it supersedes <code>customOntology</code>.
     * @param customOntologies
     * @param activate
     *            if true, the new scope will be activated upon creation.
     * @param uriInfo
     * @param headers
     * @return
     */
@PUT
@Consumes(MediaType.WILDCARD)
public Response registerScope(@PathParam("scopeid") String scopeid, @QueryParam("corereg") final List<String> coreRegistries, @QueryParam("coreont") final List<String> coreOntologies, @DefaultValue("false") @QueryParam("activate") boolean activate, @Context HttpHeaders headers) {
    log.debug("Request URI {}", uriInfo.getRequestUri());
    scope = onm.getScope(scopeid);
    List<OntologyInputSource<?>> srcs = new ArrayList<OntologyInputSource<?>>(coreOntologies.size() + coreRegistries.size());
    // First thing, check registry sources.
    if (coreRegistries != null)
        for (String reg : coreRegistries) if (reg != null && !reg.isEmpty())
            try {
                // Library IDs are sanitized differently
                srcs.add(new LibrarySource(URIUtils.desanitize(IRI.create(reg)), regMgr));
            } catch (Exception e1) {
                throw new WebApplicationException(e1, BAD_REQUEST);
            // Bad or not supplied core registry, try the ontology.
            }
    // Then ontology sources
    if (coreOntologies != null)
        for (String ont : coreOntologies) if (ont != null && !ont.isEmpty())
            try {
                srcs.add(new RootOntologySource(IRI.create(ont)));
            } catch (OWLOntologyCreationException e2) {
                // If this fails too, throw a bad request.
                throw new WebApplicationException(e2, BAD_REQUEST);
            }
    // Now the creation.
    try {
        // Expand core sources
        List<OntologyInputSource<?>> expanded = new ArrayList<OntologyInputSource<?>>();
        for (OntologyInputSource<?> coreSrc : srcs) if (coreSrc != null) {
            if (coreSrc instanceof SetInputSource) {
                for (Object o : ((SetInputSource<?>) coreSrc).getOntologies()) {
                    OntologyInputSource<?> src = null;
                    if (o instanceof OWLOntology)
                        src = new RootOntologySource((OWLOntology) o);
                    else if (o instanceof Graph)
                        src = new GraphSource((Graph) o);
                    if (src != null)
                        expanded.add(src);
                }
            } else
                // Must be denoting a single ontology
                expanded.add(coreSrc);
        }
        scope = onm.createOntologyScope(scopeid, expanded.toArray(new OntologyInputSource[0]));
        // Setup and register the scope. If no custom space was set, it will
        // still be open for modification.
        scope.setUp();
        onm.setScopeActive(scopeid, activate);
    } catch (DuplicateIDException e) {
        throw new WebApplicationException(e, CONFLICT);
    } catch (Exception ex) {
        throw new WebApplicationException(ex, INTERNAL_SERVER_ERROR);
    }
    ResponseBuilder rb = Response.created(uriInfo.getAbsolutePath());
    // addCORSOrigin(servletContext, rb, headers);
    return rb.build();
}

Example 49 with OWLOntologyCreationException

use of org.semanticweb.owlapi.model.OWLOntologyCreationException in project stanbol by apache.

the class ScopeResource method manageOntology.

/**
     * Tells the session that it should manage the ontology obtained by dereferencing the supplied IRI.<br>
     * <br>
     * Note that the PUT method cannot be used, as it is not possible to predict what ID the ontology will
     * have until it is parsed.
     * 
     * @param content
     *            the ontology physical IRI
     * @return {@link Status#OK} if the addition was successful, {@link Status#NOT_FOUND} if there is no such
     *         session at all, {@link Status#FORBIDDEN} if the session is locked or cannot modified for some
     *         other reason, {@link Status#INTERNAL_SERVER_ERROR} if some other error occurs.
     */
@POST
@Consumes(value = MediaType.TEXT_PLAIN)
public Response manageOntology(String iri, @PathParam("scopeid") String scopeid, @Context HttpHeaders headers) {
    ResponseBuilder rb;
    scope = onm.getScope(scopeid);
    if (scope == null)
        rb = Response.status(NOT_FOUND);
    else
        try {
            OWLOntologyID key = scope.getCustomSpace().addOntology(new RootOntologySource(IRI.create(iri)));
            URI created = getCreatedResource(OntologyUtils.encode(key));
            rb = Response.created(created);
        } catch (UnmodifiableOntologyCollectorException e) {
            throw new WebApplicationException(e, FORBIDDEN);
        } catch (OWLOntologyCreationException e) {
            throw new WebApplicationException(e, INTERNAL_SERVER_ERROR);
        }
    // addCORSOrigin(servletContext, rb, headers);
    return rb.build();
}

Example 50 with OWLOntologyCreationException

use of org.semanticweb.owlapi.model.OWLOntologyCreationException in project stanbol by apache.

the class HermitReasoningServiceTest method testClassifyWithRules.

private void testClassifyWithRules(String testID, String rulesID, String testExpectedID) {
    log.info("Testing the task CLASSIFY with rules");
    OWLOntologyManager manager = TestData.manager;
    // We prepare the input ontology
    try {
        OWLOntology testOntology = manager.createOntology();
        OWLOntologyID testOntologyID = testOntology.getOntologyID();
        log.debug("Created test ontology with ID: {}", testOntologyID);
        OWLImportsDeclaration importTest = TestData.factory.getOWLImportsDeclaration(IRI.create(testID));
        manager.applyChange(new AddImport(testOntology, importTest));
        Set<SWRLRule> rules = manager.getOntology(IRI.create(rulesID)).getAxioms(AxiomType.SWRL_RULE);
        // Maybe we want to see the list of rules
        if (log.isDebugEnabled()) {
            log.debug("List of {} rules: ", rules.size());
            TestUtils.debug(rules, log);
        }
        log.debug("We add the rules to the ontology");
        manager.addAxioms(manager.getOntology(testOntologyID), rules);
        // Maybe we want to see what is in before
        if (log.isDebugEnabled())
            log.debug("Content of the input is:");
        TestUtils.debug(manager.getOntology(testOntologyID), log);
        // Now we test the method
        log.debug("Running HermiT");
        Set<OWLAxiom> inferred = this.theinstance.runTask(ReasoningService.Tasks.CLASSIFY, manager.getOntology(testOntologyID));
        // Maybe we want to see the inferred axiom list
        if (log.isDebugEnabled()) {
            log.debug("{} inferred axioms:", inferred.size());
            TestUtils.debug(inferred, log);
        }
        Set<OWLLogicalAxiom> expectedAxioms = manager.getOntology(IRI.create(testExpectedID)).getLogicalAxioms();
        Set<OWLAxiom> missing = new HashSet<OWLAxiom>();
        for (OWLAxiom expected : expectedAxioms) {
            // We consider here only two kind of axioms
            if (expected instanceof OWLSubClassOfAxiom || expected instanceof OWLClassAssertionAxiom) {
                if (!inferred.contains(expected)) {
                    log.error("missing expected axiom: {}", expected);
                    missing.add(expected);
                }
            }
        }
        assertTrue(missing.isEmpty());
        // We want to remove the ontology from the manager
        manager.removeOntology(testOntology);
    } catch (OWLOntologyCreationException e) {
        log.error("An {} have been thrown while creating the input ontology for test", e.getClass());
        assertTrue(false);
    } catch (ReasoningServiceException e) {
        log.error("An {} have been thrown while executing the reasoning", e.getClass());
        assertTrue(false);
    } catch (InconsistentInputException e) {
        log.error("An {} have been thrown while executing the reasoning", e.getClass());
        assertTrue(false);
    } catch (UnsupportedTaskException e) {
        log.error("An {} have been thrown while executing the reasoning", e.getClass());
        assertTrue(false);
    }
}