Examples with OntModel org.apache.jena.ontology.OntModel used on opensource projects

Example 21 with OntModel

use of org.apache.jena.ontology.OntModel in project Vitro by vivo-project.

the class PropertyGroupDaoJena method deletePropertyGroup.

public void deletePropertyGroup(PropertyGroup group) {
    getOntModel().enterCriticalSection(Lock.WRITE);
    try {
        Individual groupInd = getOntModel().getIndividual(group.getURI());
        if (groupInd != null) {
            groupInd.remove();
        }
    } finally {
        getOntModel().leaveCriticalSection();
    }
    OntModel tboxModel = getOntModelSelector().getTBoxModel();
    tboxModel.enterCriticalSection(Lock.WRITE);
    try {
        Resource groupRes = ResourceFactory.createResource(group.getURI());
        tboxModel.removeAll(groupRes, null, null);
        tboxModel.removeAll(null, null, groupRes);
    } finally {
        tboxModel.leaveCriticalSection();
    }
}

Example 22 with OntModel

use of org.apache.jena.ontology.OntModel in project Vitro by vivo-project.

the class PropertyInstanceDaoJena method deleteObjectPropertyStatement.

public void deleteObjectPropertyStatement(String subjectURI, String propertyURI, String objectURI, OntModelSelector ontModelSelector) {
    OntModel ontModel = ontModelSelector.getABoxModel();
    OntModel tboxModel = ontModelSelector.getTBoxModel();
    ontModel.enterCriticalSection(Lock.WRITE);
    try {
        Resource subjRes = ontModel.getResource(subjectURI);
        Property pred = tboxModel.getProperty(propertyURI);
        OntProperty invPred = null;
        if (pred.canAs(OntProperty.class)) {
            invPred = pred.as(OntProperty.class).getInverse();
        }
        Resource objRes = ontModel.getResource(objectURI);
        Model baseModel = getOntModel().getBaseModel();
        String userUri = getWebappDaoFactory().getUserURI();
        if ((subjRes != null) && (pred != null) && (objRes != null)) {
            baseModel.notifyEvent(new IndividualUpdateEvent(userUri, true, subjectURI));
            try {
                ontModel.remove(subjRes, pred, objRes);
            } finally {
                baseModel.notifyEvent(new IndividualUpdateEvent(userUri, false, subjectURI));
            }
            try {
                baseModel.notifyEvent(new IndividualDeletionEvent(userUri, true, objectURI));
                List<Statement> depResStmts = DependentResourceDeleteJena.getDependentResourceDeleteList(ResourceFactory.createStatement(subjRes, pred, objRes), ontModel);
                ontModel.remove(depResStmts);
            } finally {
                baseModel.notifyEvent(new IndividualDeletionEvent(userUri, false, objectURI));
            }
            if (invPred != null) {
                baseModel.notifyEvent(new IndividualUpdateEvent(userUri, true, objectURI));
                try {
                    ontModel.remove(objRes, invPred, subjRes);
                } finally {
                    baseModel.notifyEvent(new IndividualUpdateEvent(userUri, false, subjectURI));
                }
            }
        }
    } finally {
        ontModel.leaveCriticalSection();
    }
}

Example 23 with OntModel

use of org.apache.jena.ontology.OntModel in project Vitro by vivo-project.

the class ContentModelSetup method initializeApplicationMetadata.

/* ===================================================================== */
/**
 * We need to read the RDF files and change the Portal from a blank node to
 * one with a URI in the default namespace.
 *
 * Do this before adding the data to the RDFService-backed model, to avoid
 * warnings about editing a blank node.
 */
private void initializeApplicationMetadata(ServletContext ctx, Model applicationMetadataModel) {
    OntModel temporaryAMModel = VitroModelFactory.createOntologyModel();
    RDFFilesLoader.loadFirstTimeFiles("applicationMetadata", temporaryAMModel, true);
    setPortalUriOnFirstTime(temporaryAMModel, ctx);
    applicationMetadataModel.add(temporaryAMModel);
}

Example 24 with OntModel

use of org.apache.jena.ontology.OntModel in project Vitro by vivo-project.

the class FileGraphSetup method contextInitialized.

@Override
public void contextInitialized(ServletContextEvent sce) {
    // indicates whether any ABox file graph model has changed
    boolean aboxChanged = false;
    // indicates whether any TBox file graph model has changed
    boolean tboxChanged = false;
    ServletContext ctx = sce.getServletContext();
    try {
        OntDocumentManager.getInstance().setProcessImports(true);
        Dataset dataset = ModelAccess.on(ctx).getDataset();
        RDFService rdfService = ModelAccess.on(ctx).getRDFService(CONTENT);
        // ABox files
        Set<Path> paths = getFilegraphPaths(ctx, RDF, ABOX, FILEGRAPH);
        cleanupDB(dataset, pathsToURIs(paths, ABOX), ABOX);
        // Just update the ABox filegraphs in the DB; don't attach them to a base model.
        aboxChanged = readGraphs(paths, rdfService, ABOX, /* aboxBaseModel */
        null);
        // TBox files
        paths = getFilegraphPaths(ctx, RDF, TBOX, FILEGRAPH);
        cleanupDB(dataset, pathsToURIs(paths, TBOX), TBOX);
        OntModel tboxBaseModel = ModelAccess.on(ctx).getOntModel(ModelNames.TBOX_ASSERTIONS);
        tboxChanged = readGraphs(paths, rdfService, TBOX, tboxBaseModel);
    } catch (ClassCastException cce) {
        String errMsg = "Unable to cast servlet context attribute to the appropriate type " + cce.getLocalizedMessage();
        log.error(errMsg);
        throw new ClassCastException(errMsg);
    } catch (Throwable t) {
        log.error(t, t);
    } finally {
        OntDocumentManager.getInstance().setProcessImports(false);
    }
    if ((aboxChanged || tboxChanged) && !isUpdateRequired(ctx)) {
        log.info("a full recompute of the Abox will be performed because" + " the filegraph abox(s) and/or tbox(s) have changed or are being read for the first time.");
        SimpleReasonerSetup.setRecomputeRequired(ctx, SimpleReasonerSetup.RecomputeMode.BACKGROUND);
    }
}

Example 25 with OntModel

use of org.apache.jena.ontology.OntModel in project Vitro by vivo-project.

the class SyncingExcludeBasedOnType method buildClassList.

@Validation
public void buildClassList() {
    OntModel model = models.getOntModel(ModelNames.DISPLAY);
    this.setExcludedTypes(buildProhibitedClassesList(SEARCH_INDEX_URI, model));
    log.debug(this);
}