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/** '$RCSfile$'
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* Copyright: 2010 Regents of the University of California and the
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* National Center for Ecological Analysis and Synthesis
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*
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* This program is free software; you can redistribute it and/or modify
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* it under the terms of the GNU General Public License as published by
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* the Free Software Foundation; either version 2 of the License, or
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* (at your option) any later version.
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*
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* This program is distributed in the hope that it will be useful,
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* but WITHOUT ANY WARRANTY; without even the implied warranty of
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* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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* GNU General Public License for more details.
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*
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* You should have received a copy of the GNU General Public License
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* along with this program; if not, write to the Free Software
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* Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
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*/
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package edu.ucsb.nceas.metacat.annotation;
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import java.io.ByteArrayInputStream;
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import java.io.InputStream;
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import java.net.URI;
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import java.util.Arrays;
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import java.util.HashMap;
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import java.util.List;
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import java.util.Map;
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import junit.framework.Test;
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import junit.framework.TestSuite;
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import org.dataone.ore.ResourceMapFactory;
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import org.dataone.service.types.v1.Identifier;
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import org.dataone.service.types.v1.ObjectFormatIdentifier;
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import org.dataone.service.types.v1.Session;
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import org.dataone.service.types.v2.SystemMetadata;
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import org.dspace.foresite.OREFactory;
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import org.dspace.foresite.Predicate;
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import org.dspace.foresite.ResourceMap;
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import org.dspace.foresite.Triple;
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import org.dspace.foresite.jena.TripleJena;
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import edu.ucsb.nceas.metacat.dataone.D1NodeServiceTest;
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import edu.ucsb.nceas.metacat.dataone.MNodeService;
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public class OrePackageTest extends D1NodeServiceTest {
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private static final String ANNOTATION_TEST_DOC = "test/eml-sample-annotation.xml";
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private static final String ANNOTATION_TEST_DATA = "test/onlineDataFile2";
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/**
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* constructor for the test
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*/
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public OrePackageTest(String name) {
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super(name);
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}
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/**
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* Establish a testing framework by initializing appropriate objects
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*/
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public void setUp() throws Exception {
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super.setUp();
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}
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/**
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* Release any objects after tests are complete
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*/
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public void tearDown() {
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}
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/**
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* Create a suite of tests to be run together
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*/
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public static Test suite() {
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TestSuite suite = new TestSuite();
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suite.addTest(new OrePackageTest("testGenerateAnnotation"));
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return suite;
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}
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/**
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* Generate a single ORE+annotation
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* @throws Exception
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*/
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public void testGenerateAnnotation() throws Exception {
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// add an EML package
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Identifier metadataPid = new Identifier();
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metadataPid.setValue("testOre.eml." + System.currentTimeMillis());
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Session session = getTestSession();
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try {
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InputStream object = new ByteArrayInputStream(this.getTestDocFromFile(ANNOTATION_TEST_DOC).getBytes("UTF-8"));
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SystemMetadata sysmeta = createSystemMetadata(metadataPid, session.getSubject(), object);
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ObjectFormatIdentifier formatId = new ObjectFormatIdentifier();
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formatId.setValue("eml://ecoinformatics.org/eml-2.0.0");
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sysmeta.setFormatId(formatId);
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Identifier pid = MNodeService.getInstance(request).create(session, metadataPid, object, sysmeta);
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assertEquals(metadataPid.getValue(), pid.getValue());
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} catch (Exception e) {
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e.printStackTrace();
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fail("Could not add metadata test file: " + e.getMessage());
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}
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// add a data file
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Identifier dataIdentifier = new Identifier();
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dataIdentifier.setValue("derivedData." + System.currentTimeMillis());
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try {
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InputStream object = new ByteArrayInputStream(this.getTestDocFromFile(ANNOTATION_TEST_DATA).getBytes("UTF-8"));
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SystemMetadata sysmeta = createSystemMetadata(dataIdentifier, session.getSubject(), object);
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ObjectFormatIdentifier formatId = new ObjectFormatIdentifier();
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formatId.setValue("text/csv");
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sysmeta.setFormatId(formatId);
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Identifier pid = MNodeService.getInstance(request).create(session, dataIdentifier, object, sysmeta);
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assertEquals(dataIdentifier.getValue(), pid.getValue());
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} catch (Exception e) {
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e.printStackTrace();
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fail("Could not add data test file: " + e.getMessage());
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}
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// generate the ORE for the EML metadata + data
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Map<Identifier, List<Identifier>> resources = new HashMap<Identifier, List<Identifier>>();
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Identifier resourceMapPid = new Identifier();
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resourceMapPid.setValue("resourceMap_" + metadataPid.getValue());
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List<Identifier> dataPids = Arrays.asList(dataIdentifier);
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resources.put(metadataPid, dataPids);
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ResourceMap resourceMap = ResourceMapFactory.getInstance().createResourceMap(resourceMapPid , resources);
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// augment the ORE package with triples describing the derivation
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Predicate predicate = new Predicate(new URI("http://www.w3.org/ns/prov#wasDerivedFrom"));
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Triple triple =
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OREFactory.createTriple(
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new URI("https://cn.dataone.org/cn/v1/resolve/" + dataIdentifier.getValue()),
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predicate,
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new URI("https://cn.dataone.org/cn/v1/resolve/data.1.1"));
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System.out.println("Triple: " + " " + triple.getPredicate().getURI() + " " + triple.getObjectURI());
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resourceMap.addTriple(triple);
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// get the RDF content
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String rdfContent = ResourceMapFactory.getInstance().serializeResourceMap(resourceMap);
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// save the ORE+annotation (adjust formatId as needed)
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Identifier annotationPid = new Identifier();
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annotationPid.setValue("http://annotation/" + metadataPid.getValue());
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try {
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InputStream object = new ByteArrayInputStream(rdfContent.getBytes("UTF-8"));
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SystemMetadata sysmeta = createSystemMetadata(annotationPid, session.getSubject(), object);
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ObjectFormatIdentifier formatId = new ObjectFormatIdentifier();
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formatId.setValue("http://www.w3.org/TR/rdf-syntax-grammar");
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sysmeta.setFormatId(formatId);
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Identifier pid = MNodeService.getInstance(request).create(session, annotationPid, object, sysmeta);
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assertEquals(annotationPid.getValue(), pid.getValue());
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} catch (Exception e) {
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e.printStackTrace();
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fail("Could not add annotation test file: " + e.getMessage());
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}
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// TODO: check that it was parsed by metacat-index
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}
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}
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