Examples with RDFNode org.apache.jena.rdf.model.RDFNode used on opensource projects

Example 96 with RDFNode

use of org.apache.jena.rdf.model.RDFNode in project loinc2hpo by monarch-initiative.

the class SparqlQuery method addFoundClasses.

public static int addFoundClasses(List<HPO_Class_Found> HPO_classes_found, Iterator<QuerySolution> results, LoincCodeClass loincClass) {
    int count = 0;
    while (results.hasNext()) {
        count++;
        QuerySolution next = results.next();
        RDFNode pNode = next.get("phenotype");
        RDFNode lNode = next.get("label");
        RDFNode dNode = next.get("definition");
        if (pNode.isResource() && lNode.isLiteral() && dNode != null && dNode.isLiteral()) {
            HPO_classes_found.add(new HPO_Class_Found(pNode.toString(), lNode.toString(), dNode.toString(), loincClass));
        } else if (pNode.isResource() && lNode.isLiteral() && dNode == null) {
            HPO_classes_found.add(new HPO_Class_Found(pNode.toString(), lNode.toString(), null, loincClass));
        } else {
        // do nothing; not going to happen
        }
    }
    return count;
}

Example 97 with RDFNode

use of org.apache.jena.rdf.model.RDFNode in project jena by apache.

the class AbstractTestRDFConnection method query_build_02.

@Test
public void query_build_02() {
    try (RDFConnection conn = connection()) {
        Txn.executeRead(conn, () -> {
            QuerySolutionMap qsm = new QuerySolutionMap();
            qsm.add("X", ResourceFactory.createTypedLiteral("123", XSDDatatype.XSDinteger));
            QueryExecution qExec = conn.newQuery().query("SELECT ?X { }").substitution(qsm).build();
            String s = qExec.getQueryString();
            assertTrue(s.contains("123"));
            ResultSet rs = qExec.execSelect();
            RDFNode x = rs.next().get("X");
            assertNotNull(x);
        });
    }
}

Example 98 with RDFNode

use of org.apache.jena.rdf.model.RDFNode in project jena by apache.

the class ShexTests method makeShexValidationTest.

/**
 * Create a Shex test - or return null for "unrecognized"
 */
public static Runnable makeShexValidationTest(ManifestEntry entry) {
    if (!runTestExclusionsInclusions(entry))
        return null;
    Resource testType = entry.getTestType();
    if (testType == null) {
        // RepresentationTest
        System.out.println("No test type: " + entry.getName());
        return null;
    }
    if (testType.equals(ShexT.cRepresentationTest)) {
        return () -> {
        };
    }
    Resource action = entry.getAction();
    if (action == null) {
        System.out.println("Action expected: " + entry.getName());
        return null;
    }
    if (action.hasProperty(ShexT.semActs)) {
    }
    if (action.hasProperty(ShexT.shapeExterns)) {
    }
    if (testType == null) {
    }
    if (!testType.equals(ShexT.cValidationTest) && !testType.equals(ShexT.cValidationFailure)) {
        System.err.println("Skip unknown test type for: " + entry.getName());
        return () -> {
        };
    }
    // map or (shape+focus)
    if (!action.hasProperty(ShexT.schema)) {
        System.err.println("Bad: no schema : " + entry.getName());
        return null;
    }
    if (action.hasProperty(ShexT.map)) {
        if (action.hasProperty(ShexT.shape) || action.hasProperty(ShexT.focus)) {
            System.err.println("Bad: map + (shape or focus) : " + entry.getName());
        }
        if (!action.hasProperty(ShexT.data) || !action.hasProperty(ShexT.schema)) {
            System.err.println("Bad: map + no (data+schema) : " + entry.getName());
        }
    } else {
        // Not map
        if (!action.hasProperty(ShexT.schema) || !action.hasProperty(ShexT.data) || !action.hasProperty(ShexT.focus))
            System.err.println("Bad: no map, no (scheme/data/focus) : " + entry.getName());
    }
    if (testType.equals(ShexT.cValidationTest) || testType.equals(ShexT.cValidationFailure)) {
        boolean faiureTest = testType.equals(ShexT.cValidationFailure);
        if (action.hasProperty(ShexT.shape)) {
            // Expected: ShexT.schema, ShexT.shape, ShexT.data, ShexT.focus
            try {
                Resource schema = action.getProperty(ShexT.schema).getResource();
                Resource shape = action.getProperty(ShexT.shape).getResource();
                Resource data = action.getProperty(ShexT.data).getResource();
                // URI or literal.
                RDFNode focus = action.getProperty(ShexT.focus).getObject();
                return ShexValidationTest.testShexValidationShapeFocus(entry);
            } catch (Exception ex) {
                System.err.println(ex.getClass().getName());
                System.err.println(ex.getMessage());
                System.err.println(entry.getEntry().getLocalName());
                return null;
            }
        }
        // Roll into the above?
        if (action.hasProperty(ShexT.focus)) {
            // Expected: ShexT.schema (with start), ShexT.data, ShexT.focus
            try {
                Resource schema = action.getProperty(ShexT.schema).getResource();
                // No shape.
                Resource data = action.getProperty(ShexT.data).getResource();
                // URI or literal.
                RDFNode focus = action.getProperty(ShexT.focus).getObject();
                return ShexValidationTest.testShexValidationStartFocus(entry);
            } catch (Exception ex) {
            }
        }
        if (action.hasProperty(ShexT.map)) {
            // Expected: ShexT.schema (with start), ShexT.map, ShexT.data
            try {
                Resource schema = action.getProperty(ShexT.schema).getResource();
                Resource map = action.getProperty(ShexT.map).getResource();
                Resource data = action.getProperty(ShexT.data).getResource();
                return ShexValidationTest.testShexValidationMap(entry);
            } catch (Exception ex) {
                System.err.println(ex.getClass().getName());
                System.err.println(ex.getMessage());
                System.err.println(entry.getEntry().getLocalName());
                return null;
            }
        }
        // Unknown.
        System.err.println("Unknown: " + entry.getName());
        return null;
    } else {
        Log.warn("ShexTests", "Skip unknown test type for: " + entry.getName());
        return null;
    }
}

Example 99 with RDFNode

use of org.apache.jena.rdf.model.RDFNode in project jena by apache.

the class SecuredSeqImpl method remove.

/**
 * @sec.graph Update
 * @sec.triple Delete SecTriple( this, RDF.li(1), o )
 * @sec.triple Update Triples after index
 * @throws UpdateDeniedException
 * @throws DeleteDeniedException
 * @throws AuthenticationRequiredException if user is not authenticated and is
 *                                         required to be.
 */
@Override
public SecuredSeq remove(final int index) throws UpdateDeniedException, DeleteDeniedException, AuthenticationRequiredException {
    checkUpdate();
    final RDFNode rdfNode = holder.getBaseItem().getObject(index);
    if (rdfNode != null) {
        checkDelete(new Triple(holder.getBaseItem().asNode(), RDF.li(index).asNode(), rdfNode.asNode()));
        holder.getBaseItem().remove(index);
    }
    return holder.getSecuredItem();
}

Example 100 with RDFNode

use of org.apache.jena.rdf.model.RDFNode in project jena by apache.

the class SecuredRDFListTest method testAppendRDFList.

@Test
public void testAppendRDFList() {
    final Set<Action> perms = SecurityEvaluator.Util.asSet(new Action[] { Action.Update, Action.Create });
    Model m = ModelFactory.createDefaultModel();
    RDFList lst = m.createList(newResource1, newResource2, newResource3, newResource4);
    try {
        SecuredRDFList actual = (SecuredRDFList) getSecuredRDFList().append(lst);
        if (!securityEvaluator.evaluate(perms) || !shouldRead()) {
            fail("Should have thrown AccessDeniedException");
        }
        Iterator<RDFNode> iter = ((RDFList) actual.getBaseItem()).iterator();
        if (securityEvaluator.evaluate(Action.Read)) {
            assertEquals(resource1, iter.next());
            assertEquals(resource2, iter.next());
            assertEquals(resource3, iter.next());
            assertEquals(resource4, iter.next());
        }
        assertEquals(newResource1, iter.next());
        assertEquals(newResource2, iter.next());
        assertEquals(newResource3, iter.next());
        assertEquals(newResource4, iter.next());
        assertFalse(iter.hasNext());
    } catch (final AccessDeniedException e) {
        if (securityEvaluator.evaluate(perms) && shouldRead()) {
            fail("Should not have thrown AccessDeniedException");
        }
    }
}