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/**
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* Copyright (C) 2017 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.service;
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import java.io.FileNotFoundException;
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import java.net.URI;
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import java.net.URISyntaxException;
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import org.junit.Assert;
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import org.junit.BeforeClass;
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import org.junit.FixMethodOrder;
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import org.junit.Test;
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import org.junit.runners.MethodSorters;
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import org.unitils.database.annotations.Transactional;
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import org.unitils.database.util.TransactionMode;
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import org.unitils.dbunit.annotation.DataSet;
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import org.unitils.dbunit.annotation.ExpectedDataSet;
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import org.unitils.spring.annotation.SpringBeanByName;
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import org.unitils.spring.annotation.SpringBeanByType;
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import eu.etaxonomy.cdm.CdmVaadinIntegrationTest;
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import eu.etaxonomy.cdm.api.application.CdmRepository;
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import eu.etaxonomy.cdm.api.utility.DerivedUnitConversionException;
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import eu.etaxonomy.cdm.model.agent.Team;
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import eu.etaxonomy.cdm.model.common.DefinedTerm;
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import eu.etaxonomy.cdm.model.common.Language;
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import eu.etaxonomy.cdm.model.common.LanguageString;
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import eu.etaxonomy.cdm.model.name.NomenclaturalCode;
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import eu.etaxonomy.cdm.model.name.Rank;
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import eu.etaxonomy.cdm.model.name.Registration;
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import eu.etaxonomy.cdm.model.name.SpecimenTypeDesignation;
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import eu.etaxonomy.cdm.model.name.SpecimenTypeDesignationStatus;
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import eu.etaxonomy.cdm.model.name.TaxonName;
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import eu.etaxonomy.cdm.model.occurrence.DerivedUnit;
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import eu.etaxonomy.cdm.model.occurrence.FieldUnit;
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import eu.etaxonomy.cdm.model.occurrence.GatheringEvent;
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import eu.etaxonomy.cdm.model.occurrence.MediaSpecimen;
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import eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase;
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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.vaadin.model.TypedEntityReference;
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import eu.etaxonomy.cdm.vaadin.model.registration.KindOfUnitTerms;
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import eu.etaxonomy.cdm.vaadin.model.registration.SpecimenTypeDesignationDTO;
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import eu.etaxonomy.cdm.vaadin.model.registration.SpecimenTypeDesignationWorkingSetDTO;
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/**
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* @author a.kohlbecker
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* @since Nov 17, 2017
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*
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*/
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@Transactional(TransactionMode.DISABLED)
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// IMPORTANT: test03_deleteTypeDesignationTest executed not as last would cause the other tests to fail due to changes in the db
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@FixMethodOrder(MethodSorters.NAME_ASCENDING)
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public class SpecimenTypeDesignationWorkingSetServiceImplTest extends CdmVaadinIntegrationTest{
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@SpringBeanByName
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private CdmRepository cdmRepository;
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@SpringBeanByType
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private ISpecimenTypeDesignationWorkingSetService service;
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@BeforeClass
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public static void setupLoggers() {
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// Logger.getLogger("org.dbunit").setLevel(Level.DEBUG);
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}
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int registrationId = 5000;
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private Integer publicationId = 5000;
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private Integer typifiedNameId = 5000;
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private final String[] includeTableNames_create = new String[]{"TAXONNAME", "REFERENCE", "AGENTBASE", "HOMOTYPICALGROUP", "REGISTRATION",
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"HIBERNATE_SEQUENCES"};
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private final String[] includeTableNames_delete = new String[]{"TAXONNAME", "REFERENCE", "AGENTBASE", "HOMOTYPICALGROUP", "REGISTRATION",
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"DERIVATIONEVENT", "GATHERINGEVENT", "LANGUAGESTRING", "SPECIMENOROBSERVATIONBASE", "TYPEDESIGNATIONBASE",
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"REGISTRATION_TYPEDESIGNATIONBASE", "TAXONNAME_TYPEDESIGNATIONBASE", "SPECIMENOROBSERVATIONBASE_DERIVATIONEVENT",
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"MEDIA", "MEDIA_REPRESENTATION", "MEDIAREPRESENTATION", "MEDIAREPRESENTATIONPART",
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"AUDITEVENT",
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"HIBERNATE_SEQUENCES"
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};
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@Test
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@DataSet("SpecimenTypeDesignationWorkingSetServiceImplTest.xml")
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public void test01_createAndEditTest() throws DerivedUnitConversionException, URISyntaxException, FileNotFoundException {
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// printDataSetWithNull(System.err, new String[]{"USERACCOUNT", "GROUPS", "USERACCOUNT_GRANTEDAUTHORITYIMPL", "USERACCOUNT_PERMISSIONGROUP"
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// , "PERMISSIONGROUP", "PERMISSIONGROUP_GRANTEDAUTHORITYIMPL", "GRANTEDAUTHORITYIMPL"});
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//printDataSetWithNull(System.err, debugTables);
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// writeDbUnitDataSetFile(new String[]{"AUDITEVENT", "DEFINEDTERMBASE", "DEFINEDTERMBASE_AUD", "DEFINEDTERMBASE_REPRESENTATION", "DEFINEDTERMBASE_REPRESENTATION_AUD",
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// "REPRESENTATION", "REPRESENTATION_AUD", "HIBERNATE_SEQUENCES"},
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// "RegistrationTerms");
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SpecimenTypeDesignationWorkingSetDTO<Registration> workingset = service.create(registrationId, publicationId, typifiedNameId);
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Assert.assertNotNull(workingset.getOwner());
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Assert.assertEquals(Registration.class, workingset.getOwner().getClass());
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workingset.getFieldUnit().setFieldNotes("FieldNotes");
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int baseEntityID = workingset.getFieldUnit().getId();
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workingset.getFieldUnit().setFieldNumber("FieldNumber");
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workingset.getFieldUnit().getGatheringEvent().setLocality(LanguageString.NewInstance("Somewhere", Language.ENGLISH()));
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SpecimenTypeDesignationDTO specimenTypeDesignationDTO = new SpecimenTypeDesignationDTO();
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specimenTypeDesignationDTO.setKindOfUnit((DefinedTerm)cdmRepository.getTermService().load(KindOfUnitTerms.PUBLISHED_IMAGE().getUuid()));
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specimenTypeDesignationDTO.setMediaUri(new URI("http://foo.bar.com/image1"));
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specimenTypeDesignationDTO.setTypeStatus(SpecimenTypeDesignationStatus.HOLOTYPE());
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specimenTypeDesignationDTO.setAccessionNumber("TEST_1");
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workingset.getSpecimenTypeDesignationDTOs().add(specimenTypeDesignationDTO);
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service.save(workingset);
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SpecimenOrObservationBase baseEntity = cdmRepository.getOccurrenceService().load(workingset.getFieldUnit().getUuid());
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printDataSetWithNull(System.err, new String[]{"TYPEDESIGNATIONBASE", "SPECIMENOROBSERVATIONBASE"});
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TypedEntityReference<FieldUnit> baseEntityRef = new TypedEntityReference<FieldUnit>(FieldUnit.class, baseEntity.getId(), baseEntity.getTitleCache());
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workingset = service.loadDtoByIds(registrationId, baseEntityRef);
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Assert.assertNotNull(specimenTypeDesignationDTO.asSpecimenTypeDesignation().getTypeSpecimen());
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Assert.assertEquals(MediaSpecimen.class, specimenTypeDesignationDTO.asSpecimenTypeDesignation().getTypeSpecimen().getClass());
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Assert.assertNotNull(specimenTypeDesignationDTO.asSpecimenTypeDesignation().getTypeSpecimen().getOriginals().iterator().next());
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Assert.assertEquals(FieldUnit.class, specimenTypeDesignationDTO.asSpecimenTypeDesignation().getTypeSpecimen().getOriginals().iterator().next().getClass());
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Assert.assertEquals("FieldNumber", ((FieldUnit)specimenTypeDesignationDTO.asSpecimenTypeDesignation().getTypeSpecimen().getOriginals().iterator().next()).getFieldNumber());
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SpecimenTypeDesignationDTO specimenTypeDesignationDTO2 = new SpecimenTypeDesignationDTO();
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specimenTypeDesignationDTO2.setKindOfUnit((DefinedTerm)cdmRepository.getTermService().load(KindOfUnitTerms.SPECIMEN().getUuid()));
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specimenTypeDesignationDTO2.setTypeStatus(SpecimenTypeDesignationStatus.HOLOTYPE());
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specimenTypeDesignationDTO2.setAccessionNumber("TEST_2");
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workingset.getSpecimenTypeDesignationDTOs().add(specimenTypeDesignationDTO2);
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service.save(workingset);
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workingset = service.loadDtoByIds(registrationId, baseEntityRef);
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Assert.assertTrue(workingset.getSpecimenTypeDesignationDTOs().size() == 2);
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//FIXME this fails: Assert.assertEquals("There must only be one FieldUnit and one MediaSpecimen", 2, cdmRepository.getOccurrenceService().count(DerivedUnit.class));
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// write test data for delete test
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/*
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// printDataSetWithNull(System.err, includeTableNames_delete);
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writeDbUnitDataSetFile(includeTableNames_delete, "deleteTest");
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*/
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/* The following audit table fix needs also to be added to the test data:
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<!-- Test data is being used by more than one test - need to reset a couple of *_AUD tables -->
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<AUDITEVENT />
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<TAXONNAME_AUD />
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<DERIVATIONEVENT_AUD />
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<TYPEDESIGNATIONBASE_AUD />
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<SPECIMENOROBSERVATIONBASE_DERIVATIONEVENT_AUD />
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<REGISTRATION_AUD />
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<SPECIMENOROBSERVATIONBASE_AUD />
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<TAXONNAME_TYPEDESIGNATIONBASE_AUD />
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*/
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}
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@Test
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@DataSet("SpecimenTypeDesignationWorkingSetServiceImplTest-deleteTest.xml")
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@ExpectedDataSet("SpecimenTypeDesignationWorkingSetServiceImplTest.deleteTypeDesignationTest-result.xml")
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public void test03_deleteTypeDesignationTest() {
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// FieldUnit" ID="5001
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TypedEntityReference<FieldUnit> baseEntityRef = new TypedEntityReference<FieldUnit>(FieldUnit.class, 5001, "Somewhere, FieldNumber.");
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SpecimenTypeDesignationWorkingSetDTO<Registration> workingset = service.loadDtoByIds(registrationId, baseEntityRef);
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Assert.assertTrue(workingset.getSpecimenTypeDesignationDTOs().size() == 2);
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SpecimenTypeDesignationDTO deleteDTO = null;
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for(SpecimenTypeDesignationDTO stdDTO : workingset.getSpecimenTypeDesignationDTOs()){
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if(stdDTO.getAccessionNumber().equals("TEST_1")){
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deleteDTO = stdDTO;
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break;
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}
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}
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workingset.getSpecimenTypeDesignationDTOs().remove(deleteDTO);
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// TODO once https://dev.e-taxonomy.eu/redmine/issues/7077 is fixed dissociating from the Registration could be removed here
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Registration reg = workingset.getOwner();
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SpecimenTypeDesignation std = deleteDTO.asSpecimenTypeDesignation();
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reg.getTypeDesignations().remove(std);
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service.save(workingset);
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//printDataSetWithNull(System.err, includeTableNames_delete);
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workingset = service.loadDtoByIds(registrationId, baseEntityRef);
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Assert.assertEquals(1, workingset.getSpecimenTypeDesignationDTOs().size());
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reg = workingset.getOwner();
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Assert.assertEquals(1, reg.getTypeDesignations().size());
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}
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@Test
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@DataSet("SpecimenTypeDesignationWorkingSetServiceImplTest-deleteTest.xml")
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public void test02_deleteWorkingset() {
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// printDataSetWithNull(System.err, includeTableNames_delete);
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TypedEntityReference<FieldUnit> baseEntityRef = new TypedEntityReference<FieldUnit>(FieldUnit.class, 5001, null);
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try {
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SpecimenTypeDesignationWorkingSetDTO<Registration> workingset = service.loadDtoByIds(registrationId, baseEntityRef);
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Assert.assertNotNull(workingset.getOwner());
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Assert.assertEquals(2, workingset.getSpecimenTypeDesignationDTOs().size());
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service.delete(workingset, true);
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// UUID gatheringEventUUID = UUID.fromString("23d40440-38bb-46c1-af11-6e25dcfa0145");
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// UUID fieldUnitUUID = UUID.fromString("22be718a-6f21-4b74-aae3-bb7d7d659e1c");
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// UUID mediaSpecimenUUID = UUID.fromString("10eceb2c-9b51-458e-8dcd-2cb92cc558a9");
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// UUID specimenUUID = UUID.fromString("2e384f8e-fbb0-44eb-9d5f-1b7235493932");
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// UUID typeDesignation1UUID = UUID.fromString("a1896ae2-4396-4243-988e-3d74058b44ab");
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// UUID typeDesignation2UUID = UUID.fromString("a1896ae2-4396-4243-988e-3d74058b44ab");
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Assert.assertEquals("All TypeDesignations should have been deleted", 0, cdmRepository.getNameService().getAllTypeDesignations(10, 0).size());
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Assert.assertEquals("All derived units should have been deleted", 0, cdmRepository.getOccurrenceService().count(DerivedUnit.class));
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Assert.assertEquals("FieldUnit should have been deleted", 0, cdmRepository.getOccurrenceService().count(FieldUnit.class));
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Assert.assertEquals("Gathering event should have been deleted by orphan remove", 0, cdmRepository.getEventBaseService().count(GatheringEvent.class));
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// FIXME Assert.assertEquals("Media should have been deleted ", 0, cdmRepository.getMediaService().count(null));
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} catch (Exception e){
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e.printStackTrace(System.err);
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}
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// printDataSetWithNull(System.err, includeTableNames_delete);
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}
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// ---------------------- TestData -------------------------------------------
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@Override
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// @Test
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public void createTestDataSet() throws FileNotFoundException {
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createRegistration();
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}
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private void createRegistration() throws FileNotFoundException {
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Team team = Team.NewTitledInstance("Novis, Braidwood & Kilroy", "Novis, Braidwood & Kilroy");
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Reference nomRef = ReferenceFactory.newArticle();
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nomRef = cdmRepository.getReferenceService().save(nomRef);
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publicationId = nomRef.getId();
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nomRef.setAuthorship(team);
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nomRef.setTitle("P.M. Novis, J. Braidwood & C. Kilroy, Small diatoms (Bacillariophyta) in cultures from the Styx River, New Zealand, including descriptions of three new species in Phytotaxa 64");
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TaxonName name = TaxonName.NewInstance(NomenclaturalCode.ICNAFP, Rank.SPECIES(), "Planothidium", null, "victori", null, null, nomRef, "11-45", null);
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name = cdmRepository.getNameService().save(name);
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typifiedNameId = name.getId();
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Registration reg = Registration.NewInstance();
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reg.setName(name);
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reg = cdmRepository.getRegistrationService().save(reg);
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registrationId = reg.getId();
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//printDataSetWithNull(System.err, includeTableNames_create);
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writeDbUnitDataSetFile(includeTableNames_create);
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}
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}
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