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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.phycobank;
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import java.net.URI;
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import java.util.Date;
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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.app.common.CdmDestinations;
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import eu.etaxonomy.cdm.common.monitor.DefaultProgressMonitor;
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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.common.CdmDefaultImport;
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import eu.etaxonomy.cdm.io.common.IImportConfigurator.CHECK;
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import eu.etaxonomy.cdm.io.phycobank.PhycobankHigherClassificationImportConfigurator;
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import eu.etaxonomy.cdm.model.agent.Person;
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import eu.etaxonomy.cdm.model.common.VerbatimTimePeriod;
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import eu.etaxonomy.cdm.model.reference.Reference;
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import eu.etaxonomy.cdm.model.reference.ReferenceFactory;
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import eu.etaxonomy.cdm.strategy.parser.TimePeriodParser;
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/**
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* Activator to import phycobank higher classifications.
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* @author a.mueller
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* @since 2018-08-09
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*/
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public class PhycobankHigherClassificationActivator {
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@SuppressWarnings("unused")
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private static final Logger logger = Logger.getLogger(PhycobankHigherClassificationActivator.class);
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// ====================================================================================
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//database validation status (create, update, validate ...)
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static DbSchemaValidation hbm2dll = DbSchemaValidation.CREATE; //
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static ICdmDataSource cdmDestination = CdmDestinations.localH2();
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// static ICdmDataSource cdmDestination = CdmDestinations.cdm_local_test_mysql();
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// static ICdmDataSource cdmDestination = CdmDestinations.cdm_test_phycobank();
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//TODO: Die 3 Syllabus noch richtig als 3 Referenzen anlegen (muss Henning machen), hier dann die jeweilige UUID
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// verwenden und unten den worksheetNamen entsprechend anpassen
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static Reference secRef = getSecReference_Frey();
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// static Reference secRef = getSecReference_WoRMS();
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// static String worksheetName = secRef.equals(getSecReference_WoRMS())? "WoRMS" :
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// secRef.equals(getSecReference_Frey())? "HigherRanksEntwurfNeu" : null;
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static String worksheetName = "Syllabus2_1";
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static UUID uuidRefPhycobank = UUID.fromString("8058a5ec-60ee-4a04-8c17-5623e3a4795c");
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//check - import
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static final CHECK check = CHECK.IMPORT_WITHOUT_CHECK;
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private void doImport(ICdmDataSource cdmDestination){
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URI source = fileURI();
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Reference sourceRef = getSourceReference();
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//make Source
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PhycobankHigherClassificationImportConfigurator config= PhycobankHigherClassificationImportConfigurator.NewInstance(source, cdmDestination);
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config.setWorksheetName(worksheetName);
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config.setCheck(check);
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config.setDbSchemaValidation(hbm2dll);
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config.setSourceReference(sourceRef);
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config.setSecReference(secRef);
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config.setPhycobankReference(getPhycobankReference());
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config.setProgressMonitor(DefaultProgressMonitor.NewInstance());
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CdmDefaultImport<PhycobankHigherClassificationImportConfigurator> myImport = new CdmDefaultImport<>();
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myImport.invoke(config);
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System.exit(0);
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}
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private static Reference getSecReference_Frey() {
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Reference result = ReferenceFactory.newBook();
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result.setTitle("Syllabus of the plant families");
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result.setDatePublished(VerbatimTimePeriod.NewVerbatimInstance(2015));
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result.setPublisher("Borntraeger");
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result.setPlacePublished("Stuttgart");
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Person author = Person.NewInstance();
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author.setFamilyName("Frey");
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author.setInitials("W.");
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result.setAuthorship(author);
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result.setUuid(UUID.fromString("2b4a3a67-e432-4d6b-b716-081045179df9"));
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return result;
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}
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private static Reference getSecReference_WoRMS() {
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Reference result = ReferenceFactory.newDatabase();
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result.setTitle("WoRMS World Register of Marine Species");
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result.setDatePublished(TimePeriodParser.parseStringVerbatim("2018-04-20"));
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result.setUri(URI.create("http://www.marinespecies.org/index.php"));
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result.setUuid(UUID.fromString("b33daeb0-8770-4ee2-92d0-80aaa87bfba2"));
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return result;
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}
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private static Reference getPhycobankReference() {
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Reference result = ReferenceFactory.newWebPage();
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result.setTitle("Phycobank");
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result.setDatePublished(TimePeriodParser.parseStringVerbatim("2018+"));
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result.setUri(URI.create("https://www.phycobank.org/"));
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result.setUuid(uuidRefPhycobank);
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return result;
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}
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private Reference getSourceReference() {
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Reference result = ReferenceFactory.newDatabase();
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result.setTitle("Higher classification Excel import: " + fileName());
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result.setUri(fileURI());
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result.setDatePublished(VerbatimTimePeriod.NewVerbatimInstance(new Date(), null));
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return result;
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}
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public static String fileName(){
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// return "Algen_Syllabus_NormalImplied_Test.xlsx";
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return "Algen_Syllabus_Produktion_corr.xlsx";
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}
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public static String filePath(){
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return "file:////BGBM-PESIHPC/Phycobank/";
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}
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public static URI fileURI() {
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return URI.create(filePath() + fileName());
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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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PhycobankHigherClassificationActivator me = new PhycobankHigherClassificationActivator();
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me.doImport(cdmDestination);
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}
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}
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