update for display model migration
This commit is contained in:
hjkhjk54
parent
858ccb5cdd
commit
d3ad1c1a5a
3 changed files with 299 additions and 22 deletions
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@ -10,6 +10,7 @@ import java.io.FileNotFoundException;
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import java.io.FileReader;
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import java.io.IOException;
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import java.io.InputStream;
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import java.io.StringWriter;
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import java.util.ArrayList;
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import java.util.Iterator;
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import java.util.List;
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@ -29,10 +30,16 @@ import com.hp.hpl.jena.query.QueryFactory;
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import com.hp.hpl.jena.query.Syntax;
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import com.hp.hpl.jena.rdf.model.Model;
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import com.hp.hpl.jena.rdf.model.ModelFactory;
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import com.hp.hpl.jena.rdf.model.RDFNode;
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import com.hp.hpl.jena.rdf.model.Resource;
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import com.hp.hpl.jena.rdf.model.ResourceFactory;
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import com.hp.hpl.jena.rdf.model.Statement;
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import com.hp.hpl.jena.rdf.model.StmtIterator;
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import com.hp.hpl.jena.shared.Lock;
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import com.hp.hpl.jena.vocabulary.RDF;
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import com.hp.hpl.jena.vocabulary.RDFS;
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import edu.cornell.mannlib.vitro.webapp.dao.DisplayVocabulary;
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import edu.cornell.mannlib.vitro.webapp.rdfservice.ChangeSet;
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import edu.cornell.mannlib.vitro.webapp.rdfservice.RDFService;
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import edu.cornell.mannlib.vitro.webapp.rdfservice.RDFServiceException;
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@ -364,6 +371,145 @@ public class KnowledgeBaseUpdater {
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}
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}
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//update migration model
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public void migrateDisplayModel() {
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OntModel displayModel = this.settings.getDisplayModel();
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Model addStatements = ModelFactory.createDefaultModel();
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Model removeStatements = ModelFactory.createDefaultModel();
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//remove old tbox and display metadata statements and add statements from new versions
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replaceTboxAndDisplayMetadata(displayModel, addStatements, removeStatements);
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//Update statements for data getter class types that have changed in 1.5
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updateDataGetterClassNames(displayModel, addStatements, removeStatements);
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//add cannot delete flags to pages that shouldn't allow deletion on page list
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addCannotDeleteFlagDisplayModel(displayModel, addStatements, removeStatements);
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//removes requiresTemplate statement for people page
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updatePeoplePageDisplayModel(displayModel, addStatements, removeStatements);
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//add page list
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addPageListDisplayModel(displayModel, addStatements, removeStatements);
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//update data getter labels
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updateDataGetterLabels(displayModel, addStatements, removeStatements);
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displayModel.enterCriticalSection(Lock.WRITE);
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try {
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if(log.isDebugEnabled()) {
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StringWriter sw = new StringWriter();
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addStatements.write(sw);
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log.debug("Statements to be added are: ");
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log.debug(sw.toString());
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sw.close();
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sw = new StringWriter();
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removeStatements.write(sw);
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log.debug("Statements to be removed are: ");
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log.debug(sw.toString());
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sw.close();
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}
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displayModel.remove(removeStatements);
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displayModel.add(addStatements);
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} catch(Exception ex) {
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log.error("An error occurred in migrating display model ", ex);
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} finally {
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displayModel.leaveCriticalSection();
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}
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}
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//replace
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private void replaceTboxAndDisplayMetadata(OntModel displayModel, Model addStatements, Model removeStatements) {
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OntModel oldDisplayModelTboxModel = this.settings.getOldDisplayModelTboxModel();
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OntModel oldDisplayModelDisplayMetadataModel = this.settings.getOldDisplayModelDisplayMetadataModel();
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OntModel newDisplayModelTboxModel = this.settings.getNewDisplayModelTboxModel();
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OntModel newDisplayModelDisplayMetadataModel = this.settings.getNewDisplayModelDisplayMetadataModel();
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OntModel loadedAtStartup = this.settings.getLoadedAtStartupDisplayModel();
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OntModel oldVivoListView = this.settings.getVivoListViewConfigDisplayModel();
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//Remove old display model tbox and display metadata statements from display model
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removeStatements.add(oldDisplayModelTboxModel);
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removeStatements.add(oldDisplayModelDisplayMetadataModel);
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//the old startup folder only contained by oldVivoListView
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removeStatements.add(oldVivoListView);
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//Add statements from new tbox and display metadata
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addStatements.add(newDisplayModelTboxModel);
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addStatements.add(newDisplayModelDisplayMetadataModel);
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//this should include the list view in addition to other files
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addStatements.add(loadedAtStartup);
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}
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//update statements for data getter classes
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private void updateDataGetterClassNames(OntModel displayModel, Model addStatements, Model removeStatements) {
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Resource classGroupOldType = ResourceFactory.createResource("java:edu.cornell.mannlib.vitro.webapp.utils.pageDataGetter.ClassGroupPageData");
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Resource browseOldType = ResourceFactory.createResource("java:edu.cornell.mannlib.vitro.webapp.utils.pageDataGetter.BrowseDataGetter");
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Resource individualsForClassesOldType = ResourceFactory.createResource("java:edu.cornell.mannlib.vitro.webapp.utils.pageDataGetter.IndividualsForClassesDataGetter");
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Resource internalClassesOldType = ResourceFactory.createResource("java:edu.cornell.mannlib.vitro.webapp.utils.pageDataGetter.InternalClassesDataGetter");
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Resource classGroupNewType = ResourceFactory.createResource("java:edu.cornell.mannlib.vitro.webapp.utils.dataGetter.ClassGroupPageData");
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Resource browseNewType = ResourceFactory.createResource("java:edu.cornell.mannlib.vitro.webapp.utils.dataGetter.BrowseDataGetter");
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Resource individualsForClassesNewType = ResourceFactory.createResource("java:edu.cornell.mannlib.vitro.webapp.utils.dataGetter.IndividualsForClassesDataGetter");
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Resource internalClassesNewType = ResourceFactory.createResource("java:edu.cornell.mannlib.vitro.webapp.utils.dataGetter.InternalClassesDataGetter");
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//Find statements where type is ClassGroupData
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updateAddRemoveDataGetterStatements(displayModel, removeStatements, addStatements, classGroupOldType, classGroupNewType);
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//Find statements where type is BrowseDataGetter
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updateAddRemoveDataGetterStatements(displayModel, removeStatements, addStatements, browseOldType, browseNewType);
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//Find statements where type is individuals for classes
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updateAddRemoveDataGetterStatements(displayModel, removeStatements, addStatements, individualsForClassesOldType, individualsForClassesNewType);
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//Find statements where type is internal class
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updateAddRemoveDataGetterStatements(displayModel, removeStatements, addStatements, internalClassesOldType, internalClassesNewType);
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}
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private void updateAddRemoveDataGetterStatements(OntModel displayModel,
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Model removeStatements, Model addStatements,
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Resource oldType, Resource newType) {
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removeStatements.add(displayModel.listStatements(null, RDF.type, oldType));
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StmtIterator oldStatements = displayModel.listStatements(null, RDF.type, oldType);
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while(oldStatements.hasNext()) {
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Statement stmt = oldStatements.nextStatement();
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addStatements.add(stmt.getSubject(), RDF.type, newType);
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}
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}
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//add cannotDeleteFlag to display model
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private void addCannotDeleteFlagDisplayModel(OntModel displayModel, Model addStatements, Model removeStatements) {
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Resource homePage = displayModel.getResource(DisplayVocabulary.HOME_PAGE_URI);
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addStatements.add(homePage,
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ResourceFactory.createProperty(DisplayVocabulary.DISPLAY_NS + "cannotDeletePage"),
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ResourceFactory.createPlainLiteral("true"));
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}
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//remove requires template
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private void updatePeoplePageDisplayModel(OntModel displayModel, Model addStatements, Model removeStatements) {
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Resource peoplePage = displayModel.getResource(DisplayVocabulary.DISPLAY_NS + "People");
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if(peoplePage != null) {
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removeStatements.add(peoplePage, DisplayVocabulary.REQUIRES_BODY_TEMPLATE,
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ResourceFactory.createPlainLiteral("menupage--classgroup-people.ftl"));
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}
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}
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//add page list sparql query
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private void addPageListDisplayModel(OntModel displayModel, Model addStatements, Model removeStatements) {
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OntModel newDisplayModel = this.settings.getNewDisplayModelFromFile();
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//Get all statements about pageList and pageListData
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Resource pageList = newDisplayModel.getResource(DisplayVocabulary.DISPLAY_NS + "pageList");
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Resource pageListData = newDisplayModel.getResource(DisplayVocabulary.DISPLAY_NS + "pageListData");
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addStatements.add(newDisplayModel.listStatements(pageList, null, (RDFNode) null));
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addStatements.add(newDisplayModel.listStatements(pageListData, null, (RDFNode) null));
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}
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//update any new labels
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private void updateDataGetterLabels(OntModel displayModel, Model addStatements, Model removeStatements) {
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OntModel newDisplayModel = this.settings.getNewDisplayModelFromFile();
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List<Resource> resourcesForLabels = new ArrayList<Resource>();
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resourcesForLabels.add(ResourceFactory.createResource("java:edu.cornell.mannlib.vitro.webapp.utils.dataGetter.ClassGroupPageData"));
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resourcesForLabels.add(ResourceFactory.createResource("java:edu.cornell.mannlib.vitro.webapp.utils.dataGetter.BrowseDataGetter"));
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resourcesForLabels.add(ResourceFactory.createResource("java:edu.cornell.mannlib.vitro.webapp.utils.dataGetter.IndividualsForClassesDataGetter"));
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resourcesForLabels.add(ResourceFactory.createResource("java:edu.cornell.mannlib.vitro.webapp.utils.dataGetter.InternalClassesDataGetter"));
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resourcesForLabels.add(ResourceFactory.createResource("java:edu.cornell.mannlib.vitro.webapp.utils.dataGetter.SparqlQueryDataGetter"));
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for(Resource r: resourcesForLabels) {
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addStatements.add(newDisplayModel.listStatements(r, RDFS.label, (RDFNode)null));
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}
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}
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/**
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* A class that allows to access two different ontology change lists,
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* one for class changes and the other for property changes. The
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@ -427,5 +573,7 @@ public class KnowledgeBaseUpdater {
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public List<AtomicOntologyChange> getAtomicPropertyChanges() {
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return atomicPropertyChanges;
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}
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}
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}
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@ -28,7 +28,15 @@ public class UpdateSettings {
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private OntModel newTBoxModel;
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private OntModel oldTBoxAnnotationsModel;
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private OntModel newTBoxAnnotationsModel;
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//display model tbox and display model display metadata
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private OntModel oldDisplayModelTboxModel;
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private OntModel oldDisplayModelDisplayMetadataModel;
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private OntModel newDisplayModelTboxModel;
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private OntModel newDisplayModelDisplayMetadataModel;
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private OntModel displayModel;
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private OntModel newDisplayModelFromFile;
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private OntModel loadedAtStartupDisplayModel;
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private OntModel oldDisplayModelVivoListViewConfig;
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public String getDataDir() {
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return dataDir;
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}
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@ -149,4 +157,72 @@ public class UpdateSettings {
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public void setNewTBoxAnnotationsModel(OntModel newTBoxAnnotationsModel) {
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this.newTBoxAnnotationsModel = newTBoxAnnotationsModel;
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}
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//Old and new display model methods
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public void setOldDisplayModelTboxModel(OntModel oldDisplayModelTboxModel) {
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this.oldDisplayModelTboxModel = oldDisplayModelTboxModel;
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}
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public void setNewDisplayModelTboxModel(OntModel newDisplayModelTboxModel) {
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this.newDisplayModelTboxModel = newDisplayModelTboxModel;
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}
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public void setOldDisplayModelDisplayMetadataModel(OntModel oldDisplayModelDisplayMetadataModel) {
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this.oldDisplayModelDisplayMetadataModel = oldDisplayModelDisplayMetadataModel;
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}
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public void setNewDisplayModelDisplayMetadataModel(OntModel newDisplayModelDisplayMetadataModel) {
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this.newDisplayModelDisplayMetadataModel = newDisplayModelDisplayMetadataModel;
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}
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public void setDisplayModel(OntModel displayModel) {
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this.displayModel = displayModel;
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}
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public OntModel getOldDisplayModelTboxModel() {
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return this.oldDisplayModelTboxModel;
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}
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public OntModel getNewDisplayModelTboxModel() {
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return this.newDisplayModelTboxModel;
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}
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public OntModel getOldDisplayModelDisplayMetadataModel() {
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return this.oldDisplayModelDisplayMetadataModel;
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}
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public OntModel getNewDisplayModelDisplayMetadataModel() {
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return this.newDisplayModelDisplayMetadataModel;
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}
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public OntModel getDisplayModel() {
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return this.displayModel;
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}
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public void setNewDisplayModelFromFile(OntModel newDisplayModel) {
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this.newDisplayModelFromFile = newDisplayModel;
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}
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public OntModel getNewDisplayModelFromFile() {
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return this.newDisplayModelFromFile;
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}
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public void setLoadedAtStartupDisplayModel(OntModel loadedModel) {
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this.loadedAtStartupDisplayModel = loadedModel;
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}
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public OntModel getLoadedAtStartupDisplayModel() {
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return this.loadedAtStartupDisplayModel;
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}
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public void setVivoListViewConfigDisplayModel(OntModel loadedModel) {
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this.oldDisplayModelVivoListViewConfig = loadedModel;
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}
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public OntModel getVivoListViewConfigDisplayModel() {
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return this.oldDisplayModelVivoListViewConfig;
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}
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}
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@ -60,7 +60,15 @@ public class UpdateKnowledgeBase implements ServletContextListener {
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private static final String NEW_TBOX_MODEL_DIR = "/WEB-INF/filegraph/tbox/";
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private static final String OLD_TBOX_ANNOTATIONS_DIR = DATA_DIR + "oldAnnotations/";
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private static final String NEW_TBOX_ANNOTATIONS_DIR = "/WEB-INF/ontologies/user/tbox/";
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//For display model migration
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private static final String OLD_DISPLAYMODEL_TBOX_PATH = DATA_DIR + "oldDisplayModel/displayTBOX.n3";
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private static final String NEW_DISPLAYMODEL_TBOX_PATH = "/WEB-INF/ontologies/app/menuload/displayTBOX.n3";
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private static final String OLD_DISPLAYMODEL_DISPLAYMETADATA_PATH = DATA_DIR + "oldDisplayModel/displayDisplay.n3";
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private static final String NEW_DISPLAYMODEL_DISPLAYMETADATA_PATH = "/WEB-INF/ontologies/app/menuload/displayDisplay.n3";
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private static final String NEW_DISPLAYMODEL_PATH = "/WEB-INF/ontologies/app/menu.n3";
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private static final String LOADED_STARTUPT_DISPLAYMODEL_DIR = "/WEB-INF/ontologies/app/loadedAtStartup/";
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private static final String OLD_DISPLAYMODEL_VIVOLISTVIEW_PATH = DATA_DIR + "oldDisplayModel/vivoListViewConfig.rdf";
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public void contextInitialized(ServletContextEvent sce) {
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try {
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ServletContext ctx = sce.getServletContext();
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@ -85,7 +93,7 @@ public class UpdateKnowledgeBase implements ServletContextListener {
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settings.setAssertionOntModelSelector(ModelContext.getBaseOntModelSelector(ctx));
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settings.setInferenceOntModelSelector(ModelContext.getInferenceOntModelSelector(ctx));
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settings.setUnionOntModelSelector(ModelContext.getUnionOntModelSelector(ctx));
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settings.setDisplayModel(ModelContext.getDisplayModel(ctx));
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try {
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OntModel oldTBoxModel = loadModelFromDirectory(ctx.getRealPath(OLD_TBOX_MODEL_DIR));
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settings.setOldTBoxModel(oldTBoxModel);
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@ -95,6 +103,27 @@ public class UpdateKnowledgeBase implements ServletContextListener {
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settings.setOldTBoxAnnotationsModel(oldTBoxAnnotationsModel);
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OntModel newTBoxAnnotationsModel = loadModelFromDirectory(ctx.getRealPath(NEW_TBOX_ANNOTATIONS_DIR));
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settings.setNewTBoxAnnotationsModel(newTBoxAnnotationsModel);
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//Display model tbox and display metadata
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//old display model tbox model
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OntModel oldDisplayModelTboxModel = loadModelFromFile(ctx.getRealPath(OLD_DISPLAYMODEL_TBOX_PATH));
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settings.setOldDisplayModelTboxModel(oldDisplayModelTboxModel);
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//new display model tbox model
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OntModel newDisplayModelTboxModel = loadModelFromFile(ctx.getRealPath(NEW_DISPLAYMODEL_TBOX_PATH));
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settings.setNewDisplayModelTboxModel(newDisplayModelTboxModel);
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//old display model display model metadata
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OntModel oldDisplayModelDisplayMetadataModel = loadModelFromFile(ctx.getRealPath(OLD_DISPLAYMODEL_DISPLAYMETADATA_PATH));
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settings.setOldDisplayModelDisplayMetadataModel(oldDisplayModelDisplayMetadataModel);
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//new display model display model metadata
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OntModel newDisplayModelDisplayMetadataModel = loadModelFromFile(ctx.getRealPath(NEW_DISPLAYMODEL_DISPLAYMETADATA_PATH));
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settings.setNewDisplayModelDisplayMetadataModel(newDisplayModelDisplayMetadataModel);
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//Get new display model
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OntModel newDisplayModelFromFile = loadModelFromFile(ctx.getRealPath(NEW_DISPLAYMODEL_PATH));
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settings.setNewDisplayModelFromFile(newDisplayModelFromFile);
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OntModel loadedAtStartupFiles = loadModelFromDirectory(ctx.getRealPath(LOADED_STARTUPT_DISPLAYMODEL_DIR));
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settings.setLoadedAtStartupDisplayModel(loadedAtStartupFiles);
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OntModel oldDisplayModelVivoListView = loadModelFromFile(ctx.getRealPath(OLD_DISPLAYMODEL_VIVOLISTVIEW_PATH));
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settings.setVivoListViewConfigDisplayModel(oldDisplayModelVivoListView);
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} catch (ModelDirectoryNotFoundException e) {
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log.info("Knowledge base update directories not found. " +
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"No update will be performed.");
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@ -108,7 +137,7 @@ public class UpdateKnowledgeBase implements ServletContextListener {
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if (ontologyUpdater.updateRequired(ctx)) {
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ctx.setAttribute(KBM_REQURIED_AT_STARTUP, Boolean.TRUE);
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ontologyUpdater.update(ctx);
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// migrateDisplayModel(ctx);
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migrateDisplayModel(ontologyUpdater);
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}
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} catch (IOException ioe) {
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String errMsg = "IOException updating knowledge base " +
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@ -127,8 +156,10 @@ public class UpdateKnowledgeBase implements ServletContextListener {
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}
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}
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private void migrateDisplayModel(ServletContext ctx) {
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return;
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//Multiple changes from 1.4 to 1.5 will occur
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private void migrateDisplayModel(KnowledgeBaseUpdater ontologyUpdater) {
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ontologyUpdater.migrateDisplayModel();
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}
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private OntModel loadModelFromDirectory(String directoryPath) {
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@ -141,26 +172,42 @@ public class UpdateKnowledgeBase implements ServletContextListener {
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}
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File[] rdfFiles = directory.listFiles();
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for (int i = 0; i < rdfFiles.length; i++) {
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try {
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File f = rdfFiles[i];
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FileInputStream fis = new FileInputStream(f);
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try {
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if (f.getName().endsWith(".n3")) {
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om.read(fis, null, "N3");
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} else {
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om.read(fis, null, "RDF/XML");
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}
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} catch (Exception e) {
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log.error("Unable to load RDF from " + f.getName(), e);
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}
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} catch (FileNotFoundException fnfe) {
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log.error(rdfFiles[i].getName() + " not found. Unable to load" +
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" RDF from this location: " + directoryPath);
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}
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readFile(rdfFiles[i], om, directoryPath);
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}
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return om;
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}
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//load file from file path
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private OntModel loadModelFromFile(String filePath) {
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OntModel om = ModelFactory.createOntologyModel(OntModelSpec.OWL_MEM);
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File file = new File(filePath);
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if (!file.isFile()) {
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throw new ModelFileNotFoundException(filePath + " must be a file " +
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"containing RDF files.");
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}
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readFile(file, om, filePath);
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return om;
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}
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private void readFile(File f, OntModel om, String path) {
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try {
|
||||
FileInputStream fis = new FileInputStream(f);
|
||||
try {
|
||||
if (f.getName().endsWith(".n3")) {
|
||||
om.read(fis, null, "N3");
|
||||
} else {
|
||||
om.read(fis, null, "RDF/XML");
|
||||
}
|
||||
} catch (Exception e) {
|
||||
log.error("Unable to load RDF from " + f.getName(), e);
|
||||
}
|
||||
} catch (FileNotFoundException fnfe) {
|
||||
log.error(f.getName() + " not found. Unable to load" +
|
||||
" RDF from this location: " + path);
|
||||
}
|
||||
}
|
||||
|
||||
public void contextDestroyed(ServletContextEvent arg0) {
|
||||
// nothing to do
|
||||
}
|
||||
|
|
@ -180,4 +227,10 @@ public class UpdateKnowledgeBase implements ServletContextListener {
|
|||
super(msg);
|
||||
}
|
||||
}
|
||||
|
||||
private class ModelFileNotFoundException extends RuntimeException {
|
||||
public ModelFileNotFoundException(String msg) {
|
||||
super(msg);
|
||||
}
|
||||
}
|
||||
}
|
||||
|
|
|
|||
Loading…
Add table
Reference in a new issue