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// $Id$
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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.strategy.homotypicgroup;
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import org.junit.Assert;
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import org.junit.Before;
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import org.junit.BeforeClass;
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import org.junit.Test;
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import eu.etaxonomy.cdm.model.agent.Person;
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import eu.etaxonomy.cdm.model.common.DefaultTermInitializer;
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import eu.etaxonomy.cdm.model.name.HomotypicalGroup;
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import eu.etaxonomy.cdm.model.name.NameRelationshipType;
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import eu.etaxonomy.cdm.model.name.Rank;
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import eu.etaxonomy.cdm.model.name.TaxonName;
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import eu.etaxonomy.cdm.model.name.TaxonNameFactory;
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import eu.etaxonomy.cdm.model.taxon.Synonym;
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import eu.etaxonomy.cdm.model.taxon.SynonymType;
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import eu.etaxonomy.cdm.model.taxon.Taxon;
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/**
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* @author a.mueller
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* @date 22.04.2017
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*
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*/
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public class BasionymRelationCreatorTest {
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/**
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*
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*/
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private static final String SPECIUS = "specius";
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private Taxon taxon1;
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private Synonym synonym1;
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private Synonym synonym2;
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private Synonym synonym3;
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private TaxonName<?,?> accName1;
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private TaxonName<?,?> synName1;
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private TaxonName<?,?> synName2;
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private TaxonName<?,?> synName3;
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private Person person1;
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private Person person2;
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private Person person3;
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private BasionymRelationCreator guesser;
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/**
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* @throws java.lang.Exception
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*/
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@BeforeClass
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public static void setUpBeforeClass() throws Exception {
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if (NameRelationshipType.BASIONYM() == null){
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new DefaultTermInitializer().initialize();
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}
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}
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/**
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* @throws java.lang.Exception
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*/
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@Before
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public void setUp() throws Exception {
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guesser = new BasionymRelationCreator();
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person1 = Person.NewInstance();
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person2 = Person.NewInstance();
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person3 = Person.NewInstance();
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person1.setNomenclaturalTitle("Pers1");
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person2.setNomenclaturalTitle("Pers2");
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person3.setNomenclaturalTitle("Pers3");
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accName1 = TaxonNameFactory.NewBotanicalInstance(Rank.SPECIES());
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synName1 = TaxonNameFactory.NewBotanicalInstance(Rank.SPECIES());
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synName2 = TaxonNameFactory.NewBotanicalInstance(Rank.SPECIES());
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synName3 = TaxonNameFactory.NewBotanicalInstance(Rank.SPECIES());
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accName1.setGenusOrUninomial("Accepted");
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synName1.setGenusOrUninomial("Genus1");
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synName2.setGenusOrUninomial("Genus2");
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synName3.setGenusOrUninomial("Genus3");
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accName1.setSpecificEpithet(SPECIUS);
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synName1.setSpecificEpithet(SPECIUS);
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synName2.setSpecificEpithet(SPECIUS);
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synName3.setSpecificEpithet(SPECIUS);
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taxon1 = Taxon.NewInstance(accName1, null);
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synonym1 = Synonym.NewInstance(synName1, null);
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synonym2 = Synonym.NewInstance(synName2, null);
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synonym3 = Synonym.NewInstance(synName3, null);
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taxon1.addSynonym(synonym1, SynonymType.SYNONYM_OF());
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taxon1.addSynonym(synonym2, SynonymType.SYNONYM_OF());
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taxon1.addSynonym(synonym3, SynonymType.SYNONYM_OF());
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}
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@Test
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public void testMatchingSimple() {
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accName1.setCombinationAuthorship(person1);
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synName1.setBasionymAuthorship(person1);
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synName2.setBasionymAuthorship(person1);
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synName2.setInfraSpecificEpithet(synName2.getSpecificEpithet());
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synName2.setSpecificEpithet("xyz");
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synName2.setRank(Rank.VARIETY());
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synName3.setBasionymAuthorship(person3);
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HomotypicalGroup accNameGroup = accName1.getHomotypicalGroup();
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guesser.invoke(taxon1);
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Assert.assertEquals("Accepted and synonym1 should have same homotypic group", accName1.getHomotypicalGroup(), synName1.getHomotypicalGroup());
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Assert.assertEquals("Accepted and synonym2 should have same homotypic group", accName1.getHomotypicalGroup(), synName2.getHomotypicalGroup());
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Assert.assertEquals("Homotypical group shoul be taken from basionym", accNameGroup, accName1.getHomotypicalGroup());
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Assert.assertNotEquals("Accepted and synonym3 should not have same homotypic group due to different author", accName1.getHomotypicalGroup(), synName3.getHomotypicalGroup());
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Assert.assertEquals(SynonymType.HOMOTYPIC_SYNONYM_OF(), synonym1.getType());
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Assert.assertEquals(SynonymType.HOMOTYPIC_SYNONYM_OF(), synonym2.getType());
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Assert.assertEquals(SynonymType.SYNONYM_OF(), synonym3.getType());
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}
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@Test
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public void testMatchingSynonym() {
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accName1.setBasionymAuthorship(person1);
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synName1.setCombinationAuthorship(person1);
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synName2.setBasionymAuthorship(person1);
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synName2.setInfraSpecificEpithet(synName2.getSpecificEpithet());
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synName2.setSpecificEpithet("xyz");
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synName2.setRank(Rank.VARIETY());
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synName3.setBasionymAuthorship(person3);
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HomotypicalGroup accNameGroup = accName1.getHomotypicalGroup();
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guesser.invoke(taxon1);
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Assert.assertEquals("Accepted and synonym1 should have same homotypic group", accName1.getHomotypicalGroup(), synName1.getHomotypicalGroup());
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Assert.assertEquals("Synonym1 and synonym2 should have same homotypic group", accName1.getHomotypicalGroup(), synName2.getHomotypicalGroup());
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Assert.assertEquals("Accepted and synonym2 should have same homotypic group", accName1.getHomotypicalGroup(), synName2.getHomotypicalGroup());
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Assert.assertEquals("Homotypical group shoul be taken from basionym", accNameGroup, accName1.getHomotypicalGroup());
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Assert.assertNotEquals("Accepted and synonym3 should not have same homotypic group due to different author", accName1.getHomotypicalGroup(), synName3.getHomotypicalGroup());
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Assert.assertEquals(SynonymType.HOMOTYPIC_SYNONYM_OF(), synonym1.getType());
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Assert.assertEquals(SynonymType.HOMOTYPIC_SYNONYM_OF(), synonym2.getType());
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Assert.assertEquals(SynonymType.SYNONYM_OF(), synonym3.getType());
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}
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@Test
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public void testNonMatchingSimple() {
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accName1.setCombinationAuthorship(person1);
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synName1.setBasionymAuthorship(person1);
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synName1.setSpecificEpithet("spefides");
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synName2.setBasionymAuthorship(person2);
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HomotypicalGroup accNameGroup = accName1.getHomotypicalGroup();
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guesser.invoke(taxon1);
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Assert.assertEquals("Homotypical group shoul be taken from basionym", accNameGroup, accName1.getHomotypicalGroup());
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Assert.assertNotEquals("Different last epithets should not match", accName1.getHomotypicalGroup(), synName1.getHomotypicalGroup());
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Assert.assertNotEquals("Different authors should not match", accName1.getHomotypicalGroup(), synName2.getHomotypicalGroup());
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Assert.assertNotEquals("Missing basionym author should not match", accName1.getHomotypicalGroup(), synName3.getHomotypicalGroup());
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Assert.assertEquals(SynonymType.SYNONYM_OF(), synonym1.getType());
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Assert.assertEquals(SynonymType.SYNONYM_OF(), synonym2.getType());
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Assert.assertEquals(SynonymType.SYNONYM_OF(), synonym3.getType());
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}
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@Test
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public void testMatchingNormalization() {
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accName1.setCombinationAuthorship(person1);
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synName1.setBasionymAuthorship(person1);
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synName1.setSpecificEpithet("specia");
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synName2.setBasionymAuthorship(person1);
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synName2.setInfraSpecificEpithet("specios");
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synName2.setSpecificEpithet("xyz");
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synName2.setRank(Rank.VARIETY());
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synName3.setBasionymAuthorship(person1);
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synName1.setSpecificEpithet("specium");
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guesser.invoke(taxon1);
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Assert.assertEquals("Accepted and synonym1 should have same homotypic group", accName1.getHomotypicalGroup(), synName1.getHomotypicalGroup());
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Assert.assertEquals("Accepted and synonym2 should have same homotypic group", accName1.getHomotypicalGroup(), synName2.getHomotypicalGroup());
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Assert.assertEquals("Accepted and synonym3 should have same homotypic group", accName1.getHomotypicalGroup(), synName3.getHomotypicalGroup());
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Assert.assertEquals(SynonymType.HOMOTYPIC_SYNONYM_OF(), synonym1.getType());
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Assert.assertEquals(SynonymType.HOMOTYPIC_SYNONYM_OF(), synonym2.getType());
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Assert.assertEquals(SynonymType.HOMOTYPIC_SYNONYM_OF(), synonym3.getType());
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}
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@Test
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public void testMatchingNomTitle() {
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accName1.setCombinationAuthorship(person1);
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synName1.setBasionymAuthorship(person2);
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guesser.invoke(taxon1);
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Assert.assertNotEquals("Accepted and synonym1 should NOT have same homotypic group", accName1.getHomotypicalGroup(), synName1.getHomotypicalGroup());
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Assert.assertEquals(SynonymType.SYNONYM_OF(), synonym1.getType());
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person2.setNomenclaturalTitle(person1.getNomenclaturalTitle());
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guesser.invoke(taxon1);
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Assert.assertEquals("Accepted and synonym1 should have same homotypic group", accName1.getHomotypicalGroup(), synName1.getHomotypicalGroup());
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Assert.assertEquals(SynonymType.HOMOTYPIC_SYNONYM_OF(), synonym1.getType());
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}
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}
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