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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.cdm.app.wp6.palmae;
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import java.io.File;
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import java.net.URI;
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import java.net.URISyntaxException;
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import java.util.UUID;
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import org.apache.log4j.Logger;
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import eu.etaxonomy.cdm.api.application.ICdmRepository;
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import eu.etaxonomy.cdm.app.common.CdmDestinations;
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import eu.etaxonomy.cdm.app.images.ImageImportConfigurator;
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import eu.etaxonomy.cdm.app.tcs.TcsSources;
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import eu.etaxonomy.cdm.app.wp6.palmae.config.PalmaeProtologueImportConfigurator;
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import eu.etaxonomy.cdm.database.DbSchemaValidation;
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import eu.etaxonomy.cdm.database.ICdmDataSource;
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import eu.etaxonomy.cdm.io.PalmaeImageImport;
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import eu.etaxonomy.cdm.io.PalmaeProtologueImport;
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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.CHECK;
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import eu.etaxonomy.cdm.io.common.IImportConfigurator.DO_REFERENCES;
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import eu.etaxonomy.cdm.io.common.ImportResult;
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import eu.etaxonomy.cdm.io.tcsrdf.TcsRdfImportConfigurator;
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import eu.etaxonomy.cdm.model.description.Feature;
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import eu.etaxonomy.cdm.model.description.FeatureNode;
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import eu.etaxonomy.cdm.model.description.FeatureTree;
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/**
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* @author a.mueller
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* @created 20.06.2008
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*/
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public class PalmaeActivator {
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private static final Logger logger = Logger.getLogger(PalmaeActivator.class);
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//database validation status (create, update, validate ...)
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static DbSchemaValidation hbm2dll = DbSchemaValidation.CREATE;
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static final String tcsSource = TcsSources.arecaceae_local();
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static final ICdmDataSource cdmDestination = CdmDestinations.localH2Palmae();
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// set the webserver path to the images
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private static final String imageUrlString = "http://wp5.e-taxonomy.eu/media/palmae/photos/";
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// set the webserver path to the protologues
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public static final String protologueUrlString = "http://wp5.e-taxonomy.eu/media/palmae/protologe/";
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public static final UUID featureTreeUuid = UUID.fromString("72ccce05-7cc8-4dab-8e47-bf3f5fd848a0");
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static final UUID treeUuid = UUID.fromString("1adb71d4-cce6-45e1-b578-e668778d9ec6");
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static final UUID secUuid = UUID.fromString("5f32b8af-0c97-48ac-8d33-6099ed68c625");
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static final String sourceSecId = "palm_pub_ed_999999";
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static final boolean pubishReferencesInBibliography = false;
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//should the other imports run as well?
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static final boolean includeTaxonX = true;
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static final boolean includeImages = true;
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static final boolean includeExcelProtologue = true;
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static final boolean includeMediaProtologue = true;
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static final boolean updateFeatureTree = true;
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static final boolean updateNameUsage = true;
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//check - import
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static final CHECK check = CHECK.CHECK_AND_IMPORT;
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static boolean useClassification = true;
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//authors
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static final boolean doAuthors = true;
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//references
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static final DO_REFERENCES doReferences = DO_REFERENCES.ALL;
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//names
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static final boolean doTaxonNames = true;
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static final boolean doRelNames = true;
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//taxa
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static final boolean doTaxa = true;
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static final boolean doRelTaxa = true;
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static final boolean doFacts = true;
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private ImportResult doImport(ICdmDataSource destination){
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ImportResult success;
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System.out.println("Start import from Tcs("+ tcsSource.toString() + ") ...");
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//make Source
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URI source;
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try {
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source = new URI(tcsSource);
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TcsRdfImportConfigurator tcsImportConfigurator = TcsRdfImportConfigurator.NewInstance(source, destination);
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tcsImportConfigurator.setClassificationUuid(treeUuid);
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tcsImportConfigurator.setSecUuid(secUuid);
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tcsImportConfigurator.setSourceSecId(sourceSecId);
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tcsImportConfigurator.setDoReferences(doReferences);
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tcsImportConfigurator.setDoTaxonNames(doTaxonNames);
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tcsImportConfigurator.setDoRelNames(doRelNames);
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tcsImportConfigurator.setDoTaxa(doTaxa);
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tcsImportConfigurator.setDoRelTaxa(doRelTaxa);
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tcsImportConfigurator.setDoFacts(doFacts);
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tcsImportConfigurator.setUseClassification(useClassification);
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tcsImportConfigurator.setPublishReferences(pubishReferencesInBibliography);
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tcsImportConfigurator.setCheck(check);
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tcsImportConfigurator.setDbSchemaValidation(hbm2dll);
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// invoke import
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CdmDefaultImport<TcsRdfImportConfigurator> tcsImport = new CdmDefaultImport<TcsRdfImportConfigurator>();
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success = tcsImport.invoke(tcsImportConfigurator);
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//make feature tree
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logger.info("Make feature tree");
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ICdmRepository app = tcsImport.getCdmAppController();
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FeatureTree tree = getFeatureTree();
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app.getFeatureTreeService().saveOrUpdate(tree);
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System.out.println("End import from TCS ("+ source.toString() + ")...");
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return success;
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} catch (URISyntaxException e) {
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e.printStackTrace();
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success = new ImportResult();
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success.setSuccess(false);
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success.addReport(e.getMessage().getBytes());
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return success;
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}
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}
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private FeatureTree getFeatureTree(){
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FeatureTree result = FeatureTree.NewInstance(featureTreeUuid);
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FeatureNode root = result.getRoot();
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FeatureNode newNode;
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newNode = FeatureNode.NewInstance(Feature.INTRODUCTION());
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root.addChild(newNode);
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newNode = FeatureNode.NewInstance(Feature.DISTRIBUTION());
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root.addChild(newNode);
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newNode = FeatureNode.NewInstance(Feature.BIOLOGY_ECOLOGY());
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root.addChild(newNode);
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newNode = FeatureNode.NewInstance(Feature.CONSERVATION());
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root.addChild(newNode);
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newNode = FeatureNode.NewInstance(Feature.COMMON_NAME());
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root.addChild(newNode);
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newNode = FeatureNode.NewInstance(Feature.ETYMOLOGY());
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root.addChild(newNode);
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newNode = FeatureNode.NewInstance(Feature.USES());
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root.addChild(newNode);
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newNode = FeatureNode.NewInstance(Feature.CULTIVATION());
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root.addChild(newNode);
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newNode = FeatureNode.NewInstance(Feature.DISCUSSION());
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root.addChild(newNode);
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newNode = FeatureNode.NewInstance(Feature.DIAGNOSIS());
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root.addChild(newNode);
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newNode = FeatureNode.NewInstance(Feature.DESCRIPTION());
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root.addChild(newNode);
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newNode = FeatureNode.NewInstance(Feature.MATERIALS_EXAMINED());
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root.addChild(newNode);
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newNode = FeatureNode.NewInstance(Feature.ANATOMY());
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root.addChild(newNode);
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return result;
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}
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/**
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* @param args
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*/
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public static void main(String[] args) {
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ImportResult success;
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logger.debug("start");
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ICdmDataSource destination = CdmDestinations.chooseDestination(args) != null ? CdmDestinations.chooseDestination(args) : cdmDestination;
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PalmaeActivator me = new PalmaeActivator();
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me.doImport(destination);
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if (includeImages){
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System.out.println("Start importing images ...");
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CdmDefaultImport<IImportConfigurator> imageImporter = new CdmDefaultImport<IImportConfigurator>();
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URI folderUri;
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try {
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folderUri = new URI(PalmaeImageActivator.sourceFolderString);
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ImageImportConfigurator imageConfigurator = ImageImportConfigurator.NewInstance(
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folderUri, destination, imageUrlString, PalmaeImageImport.class);
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imageConfigurator.setSecUuid(secUuid);
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success = imageImporter.invoke(imageConfigurator);
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System.out.println("End importing images ...");
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} catch (URISyntaxException e) {
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e.printStackTrace();
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}
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}
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if (includeExcelProtologue){
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System.out.println("Start importing protologues ...");
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URI fileUri;
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try {
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fileUri = new URI(PalmaeExcelProtologueActivator.sourceFileString);
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ImageImportConfigurator imageConfigurator = ImageImportConfigurator.NewInstance(
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fileUri, destination, protologueUrlString, PalmaeProtologueImport.class);
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imageConfigurator.setSecUuid(secUuid);
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CdmDefaultImport<IImportConfigurator> imageImporter = new CdmDefaultImport<IImportConfigurator>();
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imageImporter.invoke(imageConfigurator);
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System.out.println("End importing protologues ...");
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} catch (URISyntaxException e) {
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e.printStackTrace();
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}
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}
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if (includeMediaProtologue){
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System.out.println("Start importing protologues from \\\\media...");
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String protologueSource = PalmaeProtologueImportActivator.protologueSource;
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String urlString = protologueUrlString;
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File source = new File (protologueSource);
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PalmaeProtologueImportConfigurator protologConfig = PalmaeProtologueImportConfigurator.NewInstance(source, destination, urlString);
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CdmDefaultImport<IImportConfigurator> cdmImport = new CdmDefaultImport<IImportConfigurator>();
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//protologConfig.setDoFacts(doDescriptions);
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protologConfig.setCheck(check);
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protologConfig.setDbSchemaValidation(DbSchemaValidation.UPDATE);
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success = cdmImport.invoke(protologConfig);
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System.out.println("End importing protologues ...");
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}
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if (includeTaxonX){
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System.out.println("Start importing taxonX ...");
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PalmaeTaxonXImportActivator taxonXimporter = new PalmaeTaxonXImportActivator();
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PalmaeTaxonXImportActivator.cdmDestination = destination;
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success = taxonXimporter.runImport();
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System.out.println("End importing taxonX ...");
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}
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PalmaePostImportUpdater updater = new PalmaePostImportUpdater();
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if (updateFeatureTree){
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updater.updateMissingFeatures(destination);
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}
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if (updateNameUsage){
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updater.updateNameUsage(destination);
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}
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String strSuccess = "";
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if (success.isSuccess() == false){
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strSuccess = "not ";
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}
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System.out.println("Import " + strSuccess + "successful");
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}
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}
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