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/**
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* Copyright (C) 2007 EDIT
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* European Distributed Institute of Taxonomy
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* http://www.e-taxonomy.eu
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*
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* The contents of this file are subject to the Mozilla Public License Version 1.1
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* See LICENSE.TXT at the top of this package for the full license terms.
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*/
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package eu.etaxonomy.taxeditor.io;
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import java.io.File;
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import java.io.InputStream;
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import java.nio.file.Files;
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import java.nio.file.Path;
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import java.nio.file.Paths;
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import java.util.List;
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import java.util.UUID;
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import org.apache.commons.io.IOUtils;
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import org.eclipse.core.runtime.Assert;
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import org.eclipse.core.runtime.IProgressMonitor;
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import org.eclipse.core.runtime.IStatus;
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import org.eclipse.core.runtime.Status;
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import org.eclipse.core.runtime.jobs.Job;
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import org.eclipse.swt.widgets.Display;
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import org.eclipse.ui.PlatformUI;
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import eu.etaxonomy.cdm.api.application.CdmApplicationState;
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import eu.etaxonomy.cdm.api.application.ICdmRepository;
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import eu.etaxonomy.cdm.common.monitor.IRemotingProgressMonitor;
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import eu.etaxonomy.cdm.io.common.CacheUpdaterConfigurator;
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import eu.etaxonomy.cdm.io.common.CdmDefaultImport;
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import eu.etaxonomy.cdm.io.common.IImportConfigurator;
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import eu.etaxonomy.cdm.io.common.IImportConfigurator.SOURCE_TYPE;
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import eu.etaxonomy.cdm.io.common.ImportConfiguratorBase;
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import eu.etaxonomy.cdm.io.common.ImportResult;
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import eu.etaxonomy.cdm.io.common.SortIndexUpdaterConfigurator;
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import eu.etaxonomy.cdm.io.dwca.in.DwcaImportConfigurator;
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import eu.etaxonomy.cdm.io.excel.taxa.NormalExplicitImportConfigurator;
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import eu.etaxonomy.cdm.io.jaxb.JaxbImportConfigurator;
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import eu.etaxonomy.cdm.io.reference.endnote.in.EndnoteImportConfigurator;
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import eu.etaxonomy.cdm.io.sdd.in.SDDImportConfigurator;
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import eu.etaxonomy.cdm.io.service.IIOService;
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import eu.etaxonomy.cdm.io.specimen.abcd206.in.Abcd206ImportConfigurator;
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import eu.etaxonomy.cdm.io.specimen.excel.in.SpecimenCdmExcelImportConfigurator;
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import eu.etaxonomy.cdm.io.specimen.gbif.in.GbifImportConfigurator;
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import eu.etaxonomy.cdm.io.specimen.gbif.in.GbifImportState;
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import eu.etaxonomy.cdm.io.tcsxml.in.TcsXmlImportConfigurator;
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import eu.etaxonomy.taxeditor.model.AbstractUtility;
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import eu.etaxonomy.taxeditor.model.CdmProgressMonitorAdapter;
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import eu.etaxonomy.taxeditor.model.MessagingUtils;
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import eu.etaxonomy.taxeditor.operation.IPostMoniteredOperationEnabled;
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import eu.etaxonomy.taxeditor.store.CdmStore;
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import eu.etaxonomy.taxeditor.store.internal.TaxeditorStorePlugin;
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import eu.etaxonomy.taxeditor.ui.dialog.ReportTextDialog;
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/**
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* <p>
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* ImportHandler class.
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* </p>
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*
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* @author n.hoffmann
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* @created Sep 11, 2009
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* @version 1.0
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*/
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public class ImportManager extends AbstractIOManager<IImportConfigurator> implements IPostMoniteredOperationEnabled {
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/**
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* @param applicationConfiguration
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*/
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private ImportManager(ICdmRepository applicationConfiguration) {
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super(applicationConfiguration);
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}
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/**
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* <p>
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* NewInstance
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* </p>
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*
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* @param applicationConfiguration
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* a
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* {@link eu.etaxonomy.cdm.api.application.CdmApplicationController}
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* object.
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* @return a {@link eu.etaxonomy.taxeditor.io.ImportManager} object.
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*/
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public static ImportManager NewInstance(
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ICdmRepository applicationConfiguration) {
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return new ImportManager(applicationConfiguration);
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}
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/**
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* Use when importing data into the current application context
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*
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* @param configurator
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* a {@link eu.etaxonomy.cdm.io.common.IImportConfigurator}
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* object.
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* @return a {@link org.eclipse.core.runtime.jobs.Job} object.
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*/
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@Override
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protected Job createIOJob(final IImportConfigurator configurator) {
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Assert.isNotNull(configurator, "Configuration may not be null");
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final Display display = Display.getDefault();
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Job job = new Job("Import: " + configurator.getClass().getSimpleName()) {
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@Override
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protected IStatus run(IProgressMonitor monitor) {
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monitor.beginTask("Importing data", 100);
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configurator.setProgressMonitor(CdmProgressMonitorAdapter
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.CreateSubMonitor(monitor, 70));
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monitor.worked(5);
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CdmDefaultImport<IImportConfigurator> importer = new CdmDefaultImport<IImportConfigurator>();
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importer.setCdmAppController(applicationConfiguration);
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monitor.worked(5);
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ImportResult importResult = null;
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try {
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importResult = importer.invoke(configurator);
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monitor.worked(80);
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} catch (RuntimeException e) {
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MessagingUtils.messageDialog(
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"Error importing data",
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this,
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"An error occured while"
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+ "importing from source '"
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+ configurator.getSourceNameString()
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+ "'.\n"
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+ "Please check error log for details.", e);
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}
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monitor.worked(5);
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monitor.done();
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final StringBuilder reportText = new StringBuilder();
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if(importResult!=null){
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List<byte[]> reports = importResult.getReports();
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for (byte[] bs : reports) {
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reportText.append(new String(bs));
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}
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}
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display.asyncExec(new Runnable() {
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@Override
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public void run() {
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// display reports with possibility to save
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ReportTextDialog dialog = new ReportTextDialog(PlatformUI.getWorkbench().getActiveWorkbenchWindow().getShell());
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dialog.setTitle(configurator.getClass().getSimpleName()+" Report");
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dialog.setReportText(reportText.toString());
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dialog.open();
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CdmStore.getContextManager().notifyContextRefresh();
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}
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});
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return Status.OK_STATUS;
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}
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};
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return job;
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}
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public Job createIOServiceJob(IImportConfigurator configurator, InputStream is, SOURCE_TYPE type) {
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try {
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return createIOServiceJob(configurator, IOUtils.toByteArray(is), type);
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} catch (Exception e) {
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MessagingUtils.errorDialog("Error importing input stream",
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this,
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e.getMessage(),
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TaxeditorStorePlugin.PLUGIN_ID,
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e,
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true);
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}
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return null;
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}
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public Job createIOServiceJob(IImportConfigurator configurator, File importFile, SOURCE_TYPE type) {
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Path path = Paths.get(importFile.toURI());
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try {
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return createIOServiceJob(configurator, Files.readAllBytes(path), type);
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} catch (Exception e) {
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MessagingUtils.errorDialog("Error importing file",
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this,
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e.getMessage(),
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TaxeditorStorePlugin.PLUGIN_ID,
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e,
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true);
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}
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return null;
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}
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public Job createIOServiceJob(final IImportConfigurator configurator, final byte[] data, final SOURCE_TYPE type) {
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Assert.isNotNull(configurator, "Configuration may not be null");
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final Display display = Display.getDefault();
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Job job = new Job("Import: " + configurator.getClass().getSimpleName()) {
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@Override
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protected IStatus run(IProgressMonitor monitor) {
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monitor.beginTask("Importing data", IProgressMonitor.UNKNOWN);
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IIOService ioService = CdmApplicationState.getIOService();
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ioService.importData(configurator, data, type);
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monitor.done();
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display.asyncExec(new Runnable() {
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@Override
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public void run() {
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CdmStore.getContextManager().notifyContextRefresh();
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}
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});
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return Status.OK_STATUS;
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}
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};
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return job;
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}
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public void runMoniteredOperation(IImportConfigurator configurator, InputStream is, SOURCE_TYPE type) {
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try {
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runMoniteredOperation(configurator, IOUtils.toByteArray(is), type);
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} catch (Exception e) {
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MessagingUtils.errorDialog("Error importing input stream",
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this,
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e.getMessage(),
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TaxeditorStorePlugin.PLUGIN_ID,
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e,
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true);
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}
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}
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public void runMoniteredOperation(IImportConfigurator configurator, SOURCE_TYPE type) {
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byte[] data = new byte[1];
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try {
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runMoniteredOperation(configurator, data, type);
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} catch (Exception e) {
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MessagingUtils.errorDialog("Error importing input stream",
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this,
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e.getMessage(),
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TaxeditorStorePlugin.PLUGIN_ID,
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e,
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true);
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}
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254
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}
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256
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257
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public void runMoniteredOperation(IImportConfigurator configurator, File importFile, SOURCE_TYPE type) {
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Path path = Paths.get(importFile.toURI());
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try {
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runMoniteredOperation(configurator, Files.readAllBytes(path), type);
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} catch (Exception e) {
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MessagingUtils.errorDialog("Error importing input stream",
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this,
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e.getMessage(),
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TaxeditorStorePlugin.PLUGIN_ID,
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e,
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true);
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268
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}
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269
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270
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}
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public void runMoniteredOperation(final IImportConfigurator configurator, final byte[] data, final SOURCE_TYPE type) {
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IIOService ioService = CdmApplicationState.getIOService();
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final UUID uuid = ioService.monitImportData(configurator, data, type);
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Display.getDefault().asyncExec(new Runnable() {
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276
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@Override
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public void run() {
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278
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AbstractUtility.executeMoniteredOperation("Import: " + configurator.getClass().getSimpleName(),
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uuid,
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1000,
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false,
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ImportManager.this,
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null);
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284
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}
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});
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286
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287
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}
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288
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289
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private IImportConfigurator getConfigurator(TYPE type) {
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290
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Assert.isNotNull(type, "Type should not be null");
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291
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292
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switch (type) {
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293
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case Jaxb:
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294
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return JaxbImportConfigurator.NewInstance(null, null);
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295
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case Tcs:
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296
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return TcsXmlImportConfigurator.NewInstance(null, null);
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297
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case Endnote:
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298
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return EndnoteImportConfigurator.NewInstance(null, null);
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299
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case Excel_Taxa:
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300
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return NormalExplicitImportConfigurator.NewInstance(null, null,
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301
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null, null);
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302
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case Abcd:
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303
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return Abcd206ImportConfigurator.NewInstance(null, null);
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304
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case Sdd:
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305
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return SDDImportConfigurator.NewInstance(null, null);
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306
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case SpecimenCdmExcel:
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307
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return SpecimenCdmExcelImportConfigurator.NewInstance(null, null);
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308
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case SpecimenSearch:
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309
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return Abcd206ImportConfigurator.NewInstance(null, null);
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310
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case Gbif:
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311
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return DwcaImportConfigurator.NewInstance(null, null);
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312
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default:
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313
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MessagingUtils.notImplementedMessage(this);
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314
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throw new IllegalArgumentException("Import not supported yet");
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|
315
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}
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316
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}
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317
|
|
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318
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|
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319
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/**
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|
320
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* <p>
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321
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* JaxbConfigurator
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322
|
* </p>
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323
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*
|
|
324
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* @return a {@link eu.etaxonomy.cdm.io.jaxb.JaxbImportConfigurator} object.
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|
325
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*/
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326
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public final JaxbImportConfigurator JaxbConfigurator() {
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327
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return (JaxbImportConfigurator) getConfigurator(TYPE.Jaxb);
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328
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}
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|
329
|
|
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330
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/**
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|
331
|
* <p>
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332
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* TcsConfigurator
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333
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* </p>
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334
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*
|
|
335
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* @return a {@link eu.etaxonomy.cdm.io.tcsxml.in.TcsXmlImportConfigurator}
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336
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* object.
|
|
337
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*/
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|
338
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public final TcsXmlImportConfigurator TcsConfigurator() {
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339
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return (TcsXmlImportConfigurator) getConfigurator(TYPE.Tcs);
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|
340
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}
|
|
341
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|
|
342
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/**
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|
343
|
* <p>
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|
344
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* EndnoteConfigurator
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|
345
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* </p>
|
|
346
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*
|
|
347
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* @return a
|
|
348
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* {@link eu.etaxonomy.cdm.io.reference.endnote.in.EndnoteImportConfigurator}
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|
349
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* object.
|
|
350
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*/
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351
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public final EndnoteImportConfigurator EndnoteConfigurator() {
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352
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return (EndnoteImportConfigurator) getConfigurator(TYPE.Endnote);
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|
353
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}
|
|
354
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|
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355
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/**
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|
356
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* <p>
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|
357
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* NormalExplicitConfigurator
|
|
358
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* </p>
|
|
359
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*
|
|
360
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* @return a
|
|
361
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* {@link eu.etaxonomy.cdm.io.excel.taxa.NormalExplicitImportConfigurator}
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|
362
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* object.
|
|
363
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*/
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|
364
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public final NormalExplicitImportConfigurator NormalExplicitConfigurator() {
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|
365
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return (NormalExplicitImportConfigurator) getConfigurator(TYPE.Excel_Taxa);
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|
366
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}
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|
367
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|
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368
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/**
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|
369
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* <p>
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|
370
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* SddConfigurator
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|
371
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* </p>
|
|
372
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*
|
|
373
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* @return a {@link eu.etaxonomy.cdm.io.sdd.in.SDDImportConfigurator}
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|
374
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* object.
|
|
375
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*/
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|
376
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public final SDDImportConfigurator SddConfigurator() {
|
|
377
|
return (SDDImportConfigurator) getConfigurator(TYPE.Sdd);
|
|
378
|
}
|
|
379
|
|
|
380
|
/**
|
|
381
|
* <p>
|
|
382
|
* AbcdConfigurator
|
|
383
|
* </p>
|
|
384
|
*
|
|
385
|
* @return a
|
|
386
|
* {@link eu.etaxonomy.cdm.io.specimen.abcd206.in.Abcd206ImportConfigurator}
|
|
387
|
* object.
|
|
388
|
*/
|
|
389
|
public final Abcd206ImportConfigurator AbcdConfigurator() {
|
|
390
|
return (Abcd206ImportConfigurator) getConfigurator(TYPE.Abcd);
|
|
391
|
}
|
|
392
|
|
|
393
|
public SpecimenCdmExcelImportConfigurator SpecimenCdmExcelImportConfigurator() {
|
|
394
|
return (SpecimenCdmExcelImportConfigurator) getConfigurator(TYPE.SpecimenCdmExcel);
|
|
395
|
}
|
|
396
|
|
|
397
|
public DwcaImportConfigurator DwcaImportConfigurator() {
|
|
398
|
return (DwcaImportConfigurator) getConfigurator(TYPE.Gbif);
|
|
399
|
}
|
|
400
|
|
|
401
|
|
|
402
|
/**
|
|
403
|
* {@inheritDoc}
|
|
404
|
*/
|
|
405
|
@Override
|
|
406
|
public void postOperation(IRemotingProgressMonitor monitor) {
|
|
407
|
Display.getDefault().asyncExec(new Runnable() {
|
|
408
|
|
|
409
|
@Override
|
|
410
|
public void run() {
|
|
411
|
CdmStore.getContextManager().notifyContextRefresh();
|
|
412
|
}
|
|
413
|
});
|
|
414
|
|
|
415
|
}
|
|
416
|
|
|
417
|
public Job createIOServiceJob(final GbifImportConfigurator<GbifImportState, InputStream> configurator) {
|
|
418
|
Assert.isNotNull(configurator, "Configuration may not be null");
|
|
419
|
final Display display = Display.getDefault();
|
|
420
|
Job job = new Job("Import: " + " Dwca") {
|
|
421
|
|
|
422
|
@Override
|
|
423
|
protected IStatus run(IProgressMonitor monitor) {
|
|
424
|
monitor.beginTask("Importing data", IProgressMonitor.UNKNOWN);
|
|
425
|
IIOService ioService = CdmApplicationState.getIOService();
|
|
426
|
|
|
427
|
ImportResult result = ioService.importDataFromStream(configurator);
|
|
428
|
monitor.done();
|
|
429
|
|
|
430
|
// display.asyncExec(new Runnable() {
|
|
431
|
//
|
|
432
|
// @Override
|
|
433
|
// public void run() {
|
|
434
|
// CdmStore.getContextManager().notifyContextRefresh();
|
|
435
|
// }
|
|
436
|
// });
|
|
437
|
|
|
438
|
return Status.OK_STATUS;
|
|
439
|
}
|
|
440
|
};
|
|
441
|
|
|
442
|
return job;
|
|
443
|
|
|
444
|
}
|
|
445
|
|
|
446
|
public Job createIOServiceJob(final Abcd206ImportConfigurator configurator) {
|
|
447
|
Assert.isNotNull(configurator, "Configuration may not be null");
|
|
448
|
final Display display = Display.getDefault();
|
|
449
|
Job job = new Job("Import: " + " Dwca") {
|
|
450
|
|
|
451
|
@Override
|
|
452
|
protected IStatus run(IProgressMonitor monitor) {
|
|
453
|
monitor.beginTask("Importing data", IProgressMonitor.UNKNOWN);
|
|
454
|
IIOService ioService = CdmApplicationState.getIOService();
|
|
455
|
|
|
456
|
ImportResult result = ioService.importDataFromStream(configurator);
|
|
457
|
monitor.done();
|
|
458
|
|
|
459
|
display.asyncExec(new Runnable() {
|
|
460
|
|
|
461
|
@Override
|
|
462
|
public void run() {
|
|
463
|
CdmStore.getContextManager().notifyContextRefresh();
|
|
464
|
}
|
|
465
|
});
|
|
466
|
|
|
467
|
return Status.OK_STATUS;
|
|
468
|
}
|
|
469
|
};
|
|
470
|
|
|
471
|
return job;
|
|
472
|
|
|
473
|
}
|
|
474
|
|
|
475
|
public Job createIOServiceJob(
|
|
476
|
final List<Abcd206ImportConfigurator> abcdConfigurators) {
|
|
477
|
Assert.isNotNull(abcdConfigurators, "Configuration may not be null");
|
|
478
|
final Display display = Display.getDefault();
|
|
479
|
Job job = new Job("Import: " + " Dwca") {
|
|
480
|
|
|
481
|
@Override
|
|
482
|
protected IStatus run(IProgressMonitor monitor) {
|
|
483
|
monitor.beginTask("Importing data", IProgressMonitor.UNKNOWN);
|
|
484
|
IIOService ioService = CdmApplicationState.getIOService();
|
|
485
|
|
|
486
|
ImportResult result = ioService.importDataFromStream(abcdConfigurators);
|
|
487
|
monitor.done();
|
|
488
|
|
|
489
|
display.asyncExec(new Runnable() {
|
|
490
|
|
|
491
|
@Override
|
|
492
|
public void run() {
|
|
493
|
CdmStore.getContextManager().notifyContextRefresh();
|
|
494
|
}
|
|
495
|
});
|
|
496
|
|
|
497
|
return Status.OK_STATUS;
|
|
498
|
}
|
|
499
|
};
|
|
500
|
|
|
501
|
return job;
|
|
502
|
}
|
|
503
|
|
|
504
|
public Job createIOServiceJob(final ImportConfiguratorBase configurator) {
|
|
505
|
Assert.isNotNull(configurator, "Configuration may not be null");
|
|
506
|
final Display display = Display.getDefault();
|
|
507
|
Job job = new Job("Update: " + configurator.getClass().getSimpleName()) {
|
|
508
|
|
|
509
|
@Override
|
|
510
|
protected IStatus run(IProgressMonitor monitor) {
|
|
511
|
monitor.beginTask("Updating data", IProgressMonitor.UNKNOWN);
|
|
512
|
IIOService ioService = CdmApplicationState.getIOService();
|
|
513
|
if (configurator instanceof SortIndexUpdaterConfigurator){
|
|
514
|
SortIndexUpdaterConfigurator config = (SortIndexUpdaterConfigurator)configurator;
|
|
515
|
ioService.updateSortIndex(config);
|
|
516
|
} else if (configurator instanceof CacheUpdaterConfigurator){
|
|
517
|
CacheUpdaterConfigurator config = (CacheUpdaterConfigurator) configurator;
|
|
518
|
ioService.updateCaches(config);
|
|
519
|
}
|
|
520
|
|
|
521
|
monitor.done();
|
|
522
|
|
|
523
|
display.asyncExec(new Runnable() {
|
|
524
|
|
|
525
|
@Override
|
|
526
|
public void run() {
|
|
527
|
CdmStore.getContextManager().notifyContextRefresh();
|
|
528
|
}
|
|
529
|
});
|
|
530
|
|
|
531
|
return Status.OK_STATUS;
|
|
532
|
}
|
|
533
|
};
|
|
534
|
|
|
535
|
return job;
|
|
536
|
|
|
537
|
}
|
|
538
|
|
|
539
|
|
|
540
|
|
|
541
|
|
|
542
|
|
|
543
|
}
|