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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.strategy.parser;
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import static org.junit.Assert.assertEquals;
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import static org.junit.Assert.assertFalse;
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import static org.junit.Assert.assertNotNull;
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import static org.junit.Assert.assertNull;
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import static org.junit.Assert.assertTrue;
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import java.lang.reflect.InvocationTargetException;
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import java.lang.reflect.Method;
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import java.util.List;
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import java.util.regex.Matcher;
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import java.util.regex.Pattern;
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import org.apache.log4j.Logger;
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import org.joda.time.DateTime;
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import org.joda.time.Duration;
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import org.junit.Assert;
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import org.junit.Before;
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import org.junit.Ignore;
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import org.junit.Test;
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import eu.etaxonomy.cdm.common.UTF8;
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import eu.etaxonomy.cdm.model.agent.INomenclaturalAuthor;
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import eu.etaxonomy.cdm.model.agent.Person;
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import eu.etaxonomy.cdm.model.agent.Team;
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import eu.etaxonomy.cdm.model.agent.TeamOrPersonBase;
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import eu.etaxonomy.cdm.model.common.TimePeriod;
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import eu.etaxonomy.cdm.model.name.HybridRelationship;
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import eu.etaxonomy.cdm.model.name.IBotanicalName;
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import eu.etaxonomy.cdm.model.name.INonViralName;
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import eu.etaxonomy.cdm.model.name.IZoologicalName;
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import eu.etaxonomy.cdm.model.name.NomenclaturalCode;
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import eu.etaxonomy.cdm.model.name.NomenclaturalStatus;
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import eu.etaxonomy.cdm.model.name.NomenclaturalStatusType;
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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.reference.IArticle;
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import eu.etaxonomy.cdm.model.reference.IBook;
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import eu.etaxonomy.cdm.model.reference.IBookSection;
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import eu.etaxonomy.cdm.model.reference.IJournal;
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import eu.etaxonomy.cdm.model.reference.INomenclaturalReference;
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import eu.etaxonomy.cdm.model.reference.IVolumeReference;
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import eu.etaxonomy.cdm.model.reference.Reference;
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import eu.etaxonomy.cdm.model.reference.ReferenceType;
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import eu.etaxonomy.cdm.strategy.exceptions.StringNotParsableException;
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import eu.etaxonomy.cdm.test.TermTestBase;
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/**
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* Tests for {@link NonViralNameParserImpl}.
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*
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* @author a.mueller
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*/
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public class NonViralNameParserImplTest extends TermTestBase {
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private static final NomenclaturalCode ICNAFP = NomenclaturalCode.ICNAFP;
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private static final NomenclaturalCode ICZN = NomenclaturalCode.ICZN;
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private static final String SEP = TimePeriod.SEP;
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private static final Logger logger = Logger.getLogger(NonViralNameParserImplTest.class);
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final private String strNameAbies1 = "Abies alba";
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final private String strNameAbiesSub1 = "Abies alba subsp. beta";
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final private String strNameAbiesAuthor1 = "Abies alba Mueller";
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final private String strNameAbiesAuthor1Unicode = "Abies alba M\u00FCller";
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final private String strNameAbiesBasionymAuthor1 = "Abies alba (Ciardelli) D'Mueller";
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final private String strNameAbiesBasionymAuthor1Unicode = "Abies alba (Ciardelli) D'M\u00FCller";
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final private String strNameAbiesBasionymExAuthor1 ="Abies alba (Ciardelli ex Doering) D'Mueller ex. de Greuther";
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final private String strNameAbiesBasionymExAuthor1Unicode ="Abies alba (Ciardelli ex D\u00F6ring) D'M\u00FCller ex. de Greuther";
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final private String strNameTeam1 = "Abies alba Mueller & L.";
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final private String strNameZoo1 = "Abies alba Mueller & L., 1822";
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final private String strNameZoo2 = "Abies alba (Mueller, 1822) Ciardelli, 2002";
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final private String strNameZoo3 = "Marmota marmota normalis Ciardelli, 2002";
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final private String strNameZoo4 = "Marmota marmota subsp. normalis Ciardelli, 2002";
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final private String strNameZoo5 = "Marmota marmota var. normalis Ciardelli, 2002";
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final private String strNameEmpty = "";
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final private String strNameNull = null;
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private NonViralNameParserImpl parser ;
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private NomenclaturalCode botanicCode;
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@Before
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public void setUp() throws Exception {
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parser = NonViralNameParserImpl.NewInstance();
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botanicCode = ICNAFP;
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}
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/*************** TEST *********************************************/
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@Test
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public final void testNewInstance() {
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assertNotNull(parser);
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}
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@Test
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public final void testTaxonNameParserBotanicalNameImpl() {
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logger.warn("Not yet implemented"); // TODO
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}
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@Test
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public final void testTeamSeperation(){
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Rank speciesRank = Rank.SPECIES();
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INonViralName name;
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// String strNameWith1AUthorAndCommaSepEditon = "Abies alba Mill., Sp. Pl., ed. 3: 455. 1987";
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// name = parser.parseReferencedName(strNameWith1AUthorAndCommaSepEditon, botanicCode, speciesRank);
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// Assert.assertFalse("No problems should exist", name.hasProblem());
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// Assert.assertEquals("Name should not include reference part", "Abies alba Mill.", name.getTitleCache());
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// Assert.assertEquals("Mill., Sp. Pl., ed. 3. 1987", name.getNomenclaturalReference().getTitleCache());
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//
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//
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// String strNameWith2Authors = "Abies alba L. & Mill., Sp. Pl., ed. 3: 455. 1987";
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// name = parser.parseReferencedName(strNameWith2Authors, botanicCode, speciesRank);
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// Assert.assertFalse("No problems should exist", name.hasProblem());
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// Assert.assertEquals("Name should not include reference part", "Abies alba L. & Mill.", name.getTitleCache());
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// Assert.assertEquals("Name should have authorteam with 2 authors", 2, ((Team)name.getCombinationAuthorship()).getTeamMembers().size());
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// Assert.assertEquals("L. & Mill., Sp. Pl., ed. 3. 1987", name.getNomenclaturalReference().getTitleCache());
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String strNameWith3Authors = "Abies alba Mess., L. & Mill., Sp. Pl., ed. 3: 455. 1987";
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name = parser.parseReferencedName(strNameWith3Authors, botanicCode, speciesRank);
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Assert.assertFalse("No problems should exist", name.hasProblem());
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Assert.assertEquals("Name should not include reference part", "Abies alba Mess., L. & Mill.", name.getTitleCache());
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Assert.assertEquals("Name should have authorship with 2 authors", 3, ((Team)name.getCombinationAuthorship()).getTeamMembers().size());
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Assert.assertEquals("Mess., L. & Mill. 1987: Sp. Pl., ed. 3.", name.getNomenclaturalReference().getTitleCache());
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}
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@Test
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public final void testParseSimpleName() {
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//Uninomials
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IZoologicalName milichiidae = (IZoologicalName)parser.parseSimpleName("Milichiidae", NomenclaturalCode.ICZN, null);
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assertEquals("Family rank expected", Rank.FAMILY(), milichiidae.getRank());
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IBotanicalName crepidinae = (IBotanicalName)parser.parseSimpleName("Crepidinae", ICNAFP, null);
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assertEquals("Family rank expected", Rank.SUBTRIBE(), crepidinae.getRank());
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IBotanicalName abies = (IBotanicalName)parser.parseSimpleName("Abies", ICNAFP, null);
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assertEquals("Family rank expected", Rank.GENUS(), abies.getRank());
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abies.addParsingProblem(ParserProblem.CheckRank);
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parser.parseSimpleName(abies, "Abies", abies.getRank(), true);
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assertTrue(abies.getParsingProblems().contains(ParserProblem.CheckRank));
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IBotanicalName rosa = (IBotanicalName)parser.parseSimpleName("Rosaceae", ICNAFP, null);
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assertTrue("Rosaceae have rank family", rosa.getRank().equals(Rank.FAMILY()));
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assertTrue("Rosaceae must have a rank warning", rosa.hasProblem(ParserProblem.CheckRank));
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parser.parseSimpleName(rosa, "Rosaceaex", abies.getRank(), true);
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assertEquals("Rosaceaex have rank genus", Rank.GENUS(), rosa.getRank());
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assertTrue("Rosaceaex must have a rank warning", rosa.hasProblem(ParserProblem.CheckRank));
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//repeat but remove warning after first parse
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rosa = (IBotanicalName)parser.parseSimpleName("Rosaceae", ICNAFP, null);
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assertTrue("Rosaceae have rank family", rosa.getRank().equals(Rank.FAMILY()));
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assertTrue("Rosaceae must have a rank warning", rosa.hasProblem(ParserProblem.CheckRank));
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rosa.removeParsingProblem(ParserProblem.CheckRank);
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parser.parseSimpleName(rosa, "Rosaceaex", rosa.getRank(), true);
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assertEquals("Rosaceaex have rank family", Rank.FAMILY(), rosa.getRank());
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assertFalse("Rosaceaex must have no rank warning", rosa.hasProblem(ParserProblem.CheckRank));
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}
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@Test
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public final void testParseSubGenericFullName() {
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String zooSpeciesWithSubgenus = "Bacanius (Mullerister) rombophorus (Aube, 1843)";
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//zoo as fullName
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IZoologicalName zooName = parser.parseReferencedName(zooSpeciesWithSubgenus, NomenclaturalCode.ICZN, Rank.SPECIES());
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Assert.assertTrue(zooName.getParsingProblems().isEmpty());
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Assert.assertEquals("Mullerister", zooName.getInfraGenericEpithet());
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Assert.assertEquals(Integer.valueOf(1843), zooName.getOriginalPublicationYear());
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//zoo as referenced name
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zooName = (IZoologicalName)parser.parseFullName(zooSpeciesWithSubgenus, NomenclaturalCode.ICZN, Rank.SPECIES());
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Assert.assertTrue(zooName.getParsingProblems().isEmpty());
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Assert.assertEquals("Mullerister", zooName.getInfraGenericEpithet());
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Assert.assertEquals(Integer.valueOf(1843), zooName.getOriginalPublicationYear());
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//bot as full Name
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String botSpeciesWithSubgenus = "Bacanius (Mullerister) rombophorus (Aube) Mill.";
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IBotanicalName botName = (IBotanicalName)parser.parseFullName(botSpeciesWithSubgenus, NomenclaturalCode.ICNAFP, Rank.GENUS());
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Assert.assertTrue(botName.getParsingProblems().isEmpty());
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Assert.assertEquals("Mullerister", botName.getInfraGenericEpithet());
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Assert.assertEquals("rombophorus", botName.getSpecificEpithet());
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Assert.assertEquals("Aube", botName.getBasionymAuthorship().getTitleCache());
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//bot as referenced Name
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botName = parser.parseReferencedName(botSpeciesWithSubgenus, NomenclaturalCode.ICNAFP, Rank.GENUS());
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Assert.assertTrue(botName.getParsingProblems().isEmpty());
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Assert.assertEquals("Mullerister", botName.getInfraGenericEpithet());
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Assert.assertEquals("rombophorus", botName.getSpecificEpithet());
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Assert.assertEquals("Aube", botName.getBasionymAuthorship().getTitleCache());
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//bot without author
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String botSpeciesWithSubgenusWithoutAuthor = "Bacanius (Mullerister) rombophorus";
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botName = parser.parseReferencedName(botSpeciesWithSubgenusWithoutAuthor, NomenclaturalCode.ICNAFP, Rank.GENUS());
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Assert.assertTrue(botName.getParsingProblems().isEmpty());
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Assert.assertEquals("Mullerister", botName.getInfraGenericEpithet());
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Assert.assertEquals("rombophorus", botName.getSpecificEpithet());
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Assert.assertEquals("", botName.getAuthorshipCache());
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}
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@Test
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public final void testParseSubGenericSimpleName() {
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logger.warn("Not yet implemented"); // TODO
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}
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@Test
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public final void testParseFullNameUnicode() {
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INonViralName nameAuthor = parser.parseFullName(strNameAbiesAuthor1Unicode, null, Rank.SPECIES());
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assertEquals("Abies", nameAuthor.getGenusOrUninomial());
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assertEquals("alba", nameAuthor.getSpecificEpithet());
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assertEquals("M\u00FCller", nameAuthor.getCombinationAuthorship().getNomenclaturalTitle());
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INonViralName nameBasionymAuthor = parser.parseFullName(strNameAbiesBasionymAuthor1Unicode, null, Rank.SPECIES());
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assertEquals("Abies", nameBasionymAuthor.getGenusOrUninomial());
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assertEquals("alba", nameBasionymAuthor.getSpecificEpithet());
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assertEquals("D'M\u00FCller", nameBasionymAuthor.getCombinationAuthorship().getNomenclaturalTitle());
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INomenclaturalAuthor basionymTeam = nameBasionymAuthor.getBasionymAuthorship();
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assertEquals("Ciardelli", basionymTeam.getNomenclaturalTitle());
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INonViralName nameBasionymExAuthor = parser.parseFullName(strNameAbiesBasionymExAuthor1Unicode, null, Rank.SPECIES());
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assertEquals("Abies", nameBasionymExAuthor.getGenusOrUninomial());
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assertEquals("alba", nameBasionymExAuthor.getSpecificEpithet());
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assertEquals("D'M\u00FCller", nameBasionymExAuthor.getExCombinationAuthorship().getNomenclaturalTitle());
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assertEquals("de Greuther", nameBasionymExAuthor.getCombinationAuthorship().getNomenclaturalTitle());
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INomenclaturalAuthor basionymTeam2 = nameBasionymExAuthor.getExBasionymAuthorship();
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assertEquals("Ciardelli", basionymTeam2.getNomenclaturalTitle());
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INomenclaturalAuthor exBasionymTeam2 = nameBasionymExAuthor.getBasionymAuthorship();
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assertEquals("D\u00F6ring", exBasionymTeam2.getNomenclaturalTitle());
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IBotanicalName nameBasionymExAuthor2 = (IBotanicalName)parser.parseFullName("Washingtonia filifera (Linden ex Andre) H.Wendl. ex de Bary", null, Rank.SPECIES());
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assertEquals("Washingtonia", nameBasionymExAuthor2.getGenusOrUninomial());
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assertEquals("filifera", nameBasionymExAuthor2.getSpecificEpithet());
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assertEquals("H.Wendl.", nameBasionymExAuthor2.getExCombinationAuthorship().getNomenclaturalTitle());
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assertEquals("de Bary", nameBasionymExAuthor2.getCombinationAuthorship().getNomenclaturalTitle());
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INomenclaturalAuthor basionymTeam3 = nameBasionymExAuthor2.getBasionymAuthorship();
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assertEquals("Andre", basionymTeam3.getNomenclaturalTitle());
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INomenclaturalAuthor exBasionymTeam3 = nameBasionymExAuthor2.getExBasionymAuthorship();
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assertEquals("Linden", exBasionymTeam3.getNomenclaturalTitle());
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String title = nameBasionymExAuthor2.getTitleCache();
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assertEquals("Washingtonia filifera (Linden ex Andre) H.Wendl. ex de Bary", title);
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}
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@Test
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public final void testParseFullName() {
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try {
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Method parseMethod = parser.getClass().getDeclaredMethod("parseFullName", String.class, NomenclaturalCode.class, Rank.class);
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testName_StringNomcodeRank(parseMethod);
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} catch (Exception e) {
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e.printStackTrace();
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assertTrue(false);
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}
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//Team
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INonViralName nameTeam1 = parser.parseFullName(strNameTeam1);
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assertEquals( "Abies", nameTeam1.getGenusOrUninomial());
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assertEquals( "alba", nameTeam1.getSpecificEpithet());
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assertEquals("Mueller & L.", nameTeam1.getCombinationAuthorship().getNomenclaturalTitle());
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assertTrue(nameTeam1.getCombinationAuthorship() instanceof Team);
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Team team = (Team)nameTeam1.getCombinationAuthorship();
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assertEquals("Mueller", team.getTeamMembers().get(0).getNomenclaturalTitle());
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assertEquals("L.", team.getTeamMembers().get(1).getNomenclaturalTitle());
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//ZooName
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IZoologicalName nameZoo1 = (IZoologicalName)parser.parseFullName(strNameZoo1);
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assertEquals( "Abies", nameZoo1.getGenusOrUninomial());
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assertEquals( "alba", nameZoo1.getSpecificEpithet());
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assertEquals("Mueller & L.", nameZoo1.getCombinationAuthorship().getNomenclaturalTitle());
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assertEquals(NomenclaturalCode.ICZN, nameZoo1.getNameType() );
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assertEquals(Integer.valueOf(1822), nameZoo1.getPublicationYear());
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assertTrue(nameZoo1.getCombinationAuthorship() instanceof Team);
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Team teamZoo = (Team)nameZoo1.getCombinationAuthorship();
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assertEquals("Mueller", teamZoo.getTeamMembers().get(0).getNomenclaturalTitle());
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assertEquals("L.", teamZoo.getTeamMembers().get(1).getNomenclaturalTitle());
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IZoologicalName nameZoo2 = (IZoologicalName)parser.parseFullName(strNameZoo2);
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assertEquals(Integer.valueOf(2002), nameZoo2.getPublicationYear());
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assertEquals(Integer.valueOf(1822), nameZoo2.getOriginalPublicationYear());
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assertEquals("Mueller", nameZoo2.getBasionymAuthorship().getNomenclaturalTitle());
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|
287
|
assertEquals("Ciardelli", nameZoo2.getCombinationAuthorship().getNomenclaturalTitle());
|
|
288
|
|
|
289
|
//subsp
|
|
290
|
IZoologicalName nameZoo3 = (IZoologicalName)parser.parseFullName(strNameZoo3);
|
|
291
|
assertEquals("Ciardelli", nameZoo3.getCombinationAuthorship().getNomenclaturalTitle());
|
|
292
|
assertFalse("Subsp. without marker should be parsable", nameZoo3.hasProblem());
|
|
293
|
assertEquals("Variety should be recognized", Rank.SUBSPECIES(), nameZoo3.getRank());
|
|
294
|
|
|
295
|
IZoologicalName nameZoo4 = (IZoologicalName)parser.parseFullName(strNameZoo4);
|
|
296
|
assertEquals("Ciardelli", nameZoo4.getCombinationAuthorship().getNomenclaturalTitle());
|
|
297
|
assertFalse("Subsp. without marker should be parsable", nameZoo4.hasProblem());
|
|
298
|
assertEquals("Variety should be recognized", Rank.SUBSPECIES(), nameZoo4.getRank());
|
|
299
|
|
|
300
|
IZoologicalName nameZoo5 = (IZoologicalName)parser.parseFullName(strNameZoo5);
|
|
301
|
assertEquals("Ciardelli", nameZoo5.getCombinationAuthorship().getNomenclaturalTitle());
|
|
302
|
assertFalse("Subsp. without marker should be parsable", nameZoo5.hasProblem());
|
|
303
|
assertEquals("Variety should be recognized", Rank.VARIETY(), nameZoo5.getRank());
|
|
304
|
|
|
305
|
//empty
|
|
306
|
INonViralName nameEmpty = parser.parseFullName(strNameEmpty);
|
|
307
|
assertNotNull(nameEmpty);
|
|
308
|
assertEquals("", nameEmpty.getTitleCache());
|
|
309
|
|
|
310
|
//null
|
|
311
|
INonViralName nameNull = parser.parseFullName(strNameNull);
|
|
312
|
assertNull(nameNull);
|
|
313
|
|
|
314
|
//some authors
|
|
315
|
String fullNameString = "Abies alba (Greuther & L'Hiver & al. ex M\u00FCller & Schmidt)Clark ex Ciardelli";
|
|
316
|
INonViralName authorname = parser.parseFullName(fullNameString);
|
|
317
|
assertFalse(authorname.hasProblem());
|
|
318
|
assertEquals("Basionym author should have 3 authors", 2, ((Team)authorname.getExBasionymAuthorship()).getTeamMembers().size());
|
|
319
|
Assert.assertTrue("ExbasionymAuthorship must have more members'", ((Team)authorname.getExBasionymAuthorship()).isHasMoreMembers());
|
|
320
|
|
|
321
|
//author with 2 capitals
|
|
322
|
fullNameString = "Campanula rhodensis A. DC.";
|
|
323
|
INonViralName name = parser.parseFullName(fullNameString);
|
|
324
|
assertFalse(name.hasProblem());
|
|
325
|
|
|
326
|
//author with no space #5618
|
|
327
|
fullNameString = "Gordonia moaensis (Vict.)H. Keng";
|
|
328
|
name = parser.parseFullName(fullNameString);
|
|
329
|
assertFalse(name.hasProblem());
|
|
330
|
assertNotNull(name.getCombinationAuthorship());
|
|
331
|
assertEquals("H. Keng", name.getCombinationAuthorship().getNomenclaturalTitle());
|
|
332
|
|
|
333
|
//name without combination author , only to check if above fix for #5618 works correctly
|
|
334
|
fullNameString = "Gordonia moaensis (Vict.)";
|
|
335
|
name = parser.parseFullName(fullNameString);
|
|
336
|
assertFalse(name.hasProblem());
|
|
337
|
assertNull(name.getCombinationAuthorship());
|
|
338
|
assertNotNull(name.getBasionymAuthorship());
|
|
339
|
assertEquals("Vict.", name.getBasionymAuthorship().getNomenclaturalTitle());
|
|
340
|
|
|
341
|
}
|
|
342
|
|
|
343
|
@Test
|
|
344
|
public final void testAutonyms(){
|
|
345
|
TaxonName autonymName;
|
|
346
|
//infraspecific
|
|
347
|
autonymName = (TaxonName)parser.parseFullName("Abies alba Mill. var. alba", ICNAFP, null);
|
|
348
|
assertFalse("Autonym should be parsable", autonymName.hasProblem());
|
|
349
|
autonymName = parser.parseReferencedName("Abies alba Mill. var. alba", ICNAFP, null);
|
|
350
|
assertFalse("Autonym should be parsable", autonymName.hasProblem());
|
|
351
|
//infrageneric
|
|
352
|
autonymName = (TaxonName)parser.parseFullName("Abies Mill. sect. Abies", ICNAFP, null);
|
|
353
|
assertFalse("Genus autonym should be parsable", autonymName.hasProblem());
|
|
354
|
assertEquals("Rank should be section (bot.)", Rank.SECTION_BOTANY(), autonymName.getRank());
|
|
355
|
autonymName = parser.parseReferencedName("Achnanthes Bory sect. Achnanthes", ICNAFP, null);
|
|
356
|
assertFalse("Genus autonym should be parsable", autonymName.hasProblem());
|
|
357
|
assertEquals("Rank should be section (bot.)", Rank.SECTION_BOTANY(), autonymName.getRank());
|
|
358
|
}
|
|
359
|
|
|
360
|
@Test
|
|
361
|
public final void testEtAl() throws StringNotParsableException {
|
|
362
|
//some authors
|
|
363
|
String fullNameString = "Abies alba Greuther, Hiver & al.";
|
|
364
|
INonViralName authorname = parser.parseFullName(fullNameString);
|
|
365
|
assertFalse(authorname.hasProblem());
|
|
366
|
assertEquals("Basionym author should have 2 authors", 2, ((Team)authorname.getCombinationAuthorship()).getTeamMembers().size());
|
|
367
|
assertTrue("Basionym author team should have more authors", ((Team)authorname.getCombinationAuthorship()).isHasMoreMembers() );
|
|
368
|
|
|
369
|
//et al.
|
|
370
|
INonViralName nvn = TaxonNameFactory.NewZoologicalInstance(null);
|
|
371
|
parser.parseAuthors(nvn, "Eckweiler, Hand et al., 2003");
|
|
372
|
Team team = (Team)nvn.getCombinationAuthorship();
|
|
373
|
Assert.assertNotNull("Comb. author must not be null", team);
|
|
374
|
Assert.assertEquals("Must be team with 2 members", 2, team.getTeamMembers().size());
|
|
375
|
Assert.assertEquals("Second member must be 'Hand'", "Hand", team.getTeamMembers().get(1).getTitleCache());
|
|
376
|
Assert.assertTrue("Team must have more members'", team.isHasMoreMembers());
|
|
377
|
}
|
|
378
|
|
|
379
|
@Test
|
|
380
|
public final void testMultipleAuthors() {
|
|
381
|
//multiple authors for inReference
|
|
382
|
String fullTitleString = "Abies alba L. in Mill., Gregor & Behr., Sp. Pl. 173: 384. 1982.";
|
|
383
|
INonViralName multipleAuthorRefName = parser.parseReferencedName(fullTitleString, NomenclaturalCode.ICNAFP, Rank.SPECIES());
|
|
384
|
assertFalse(multipleAuthorRefName.hasProblem());
|
|
385
|
assertTrue("Combination author should be a person", multipleAuthorRefName.getCombinationAuthorship() instanceof Person);
|
|
386
|
assertEquals("Combination author should be L.", "L.", ((Person)multipleAuthorRefName.getCombinationAuthorship()).getNomenclaturalTitle());
|
|
387
|
Reference nomRef = multipleAuthorRefName.getNomenclaturalReference();
|
|
388
|
Assert.assertNotNull("nomRef must have inRef", nomRef.getInReference());
|
|
389
|
Reference inRef = nomRef.getInReference();
|
|
390
|
String abbrevTitle = inRef.getAbbrevTitle();
|
|
391
|
assertEquals("InRef title should be Sp. Pl.", "Sp. Pl.", abbrevTitle);
|
|
392
|
assertTrue(inRef.getAuthorship() instanceof Team);
|
|
393
|
Team team = (Team)inRef.getAuthorship();
|
|
394
|
assertEquals(3, team.getTeamMembers().size());
|
|
395
|
|
|
396
|
// multiple authors in Name
|
|
397
|
fullTitleString = "Abies alba Mill., Aber & Schwedt";
|
|
398
|
INonViralName multipleAuthorName = parser.parseReferencedName(fullTitleString, NomenclaturalCode.ICNAFP, Rank.SPECIES());
|
|
399
|
assertFalse(multipleAuthorName.hasProblem());
|
|
400
|
assertTrue("Combination author should be a team", multipleAuthorName.getCombinationAuthorship() instanceof Team);
|
|
401
|
team = (Team)multipleAuthorName.getCombinationAuthorship();
|
|
402
|
assertEquals(3, team.getTeamMembers().size());
|
|
403
|
assertEquals("Second team member should be Aber", "Aber", team.getTeamMembers().get(1).getTitleCache());
|
|
404
|
|
|
405
|
// multiple authors in Name with reference
|
|
406
|
fullTitleString = "Abies alba Mill., Aber & Schwedt in L., Sp. Pl. 173: 384. 1982.";
|
|
407
|
multipleAuthorName = parser.parseReferencedName(fullTitleString, NomenclaturalCode.ICNAFP, Rank.SPECIES());
|
|
408
|
assertFalse(multipleAuthorName.hasProblem());
|
|
409
|
assertTrue("Combination author should be a team", multipleAuthorName.getCombinationAuthorship() instanceof Team);
|
|
410
|
team = (Team)multipleAuthorName.getCombinationAuthorship();
|
|
411
|
assertEquals(3, team.getTeamMembers().size());
|
|
412
|
assertEquals("Second team member should be Aber", "Aber", team.getTeamMembers().get(1).getTitleCache());
|
|
413
|
nomRef = multipleAuthorName.getNomenclaturalReference();
|
|
414
|
Assert.assertNotNull("nomRef must have inRef", nomRef.getInReference());
|
|
415
|
inRef = nomRef.getInReference();
|
|
416
|
abbrevTitle = inRef.getAbbrevTitle();
|
|
417
|
assertEquals("InRef title should be Sp. Pl.", "Sp. Pl.", abbrevTitle);
|
|
418
|
assertTrue(inRef.getAuthorship() instanceof Person);
|
|
419
|
Person person = (Person)inRef.getAuthorship();
|
|
420
|
assertEquals("Book author should be L.", "L.", person.getNomenclaturalTitle());
|
|
421
|
|
|
422
|
|
|
423
|
fullTitleString = "Abies alba Mill., Aber & Schwedt, Sp. Pl. 173: 384. 1982.";
|
|
424
|
multipleAuthorName = parser.parseReferencedName(fullTitleString, NomenclaturalCode.ICNAFP, Rank.SPECIES());
|
|
425
|
assertFalse(multipleAuthorName.hasProblem());
|
|
426
|
assertTrue("Combination author should be a team", multipleAuthorName.getCombinationAuthorship() instanceof Team);
|
|
427
|
team = (Team)multipleAuthorName.getCombinationAuthorship();
|
|
428
|
assertEquals(3, team.getTeamMembers().size());
|
|
429
|
assertEquals("Second team member should be Aber", "Aber", team.getTeamMembers().get(1).getTitleCache());
|
|
430
|
nomRef = multipleAuthorName.getNomenclaturalReference();
|
|
431
|
Assert.assertNull("nomRef must not have inRef as it is a book itself", nomRef.getInReference());
|
|
432
|
abbrevTitle = nomRef.getAbbrevTitle();
|
|
433
|
assertEquals("InRef title should be Sp. Pl.", "Sp. Pl.", abbrevTitle);
|
|
434
|
assertTrue(nomRef.getAuthorship() instanceof Team);
|
|
435
|
team = (Team)nomRef.getAuthorship();
|
|
436
|
assertEquals(3, team.getTeamMembers().size());
|
|
437
|
assertEquals("Second team member should be Schwedt", "Schwedt", team.getTeamMembers().get(2).getTitleCache());
|
|
438
|
|
|
439
|
//et al.
|
|
440
|
INonViralName nvn = TaxonNameFactory.NewZoologicalInstance(null);
|
|
441
|
parser.parseReferencedName (nvn, "Marmota marmota Eckweiler, Hand et al., 2003", Rank.SPECIES(),true);
|
|
442
|
assertTrue("Combination author should be a team", nvn.getCombinationAuthorship() instanceof Team);
|
|
443
|
team = (Team)nvn.getCombinationAuthorship();
|
|
444
|
Assert.assertNotNull("Comb. author must not be null", team);
|
|
445
|
Assert.assertEquals("Must be team with 2 members", 2, team.getTeamMembers().size());
|
|
446
|
Assert.assertEquals("Second member must be 'Hand'", "Hand", team.getTeamMembers().get(1).getTitleCache());
|
|
447
|
Assert.assertTrue("Team must have more members'", team.isHasMoreMembers());
|
|
448
|
|
|
449
|
}
|
|
450
|
|
|
451
|
@Test
|
|
452
|
public final void testHybrids() {
|
|
453
|
INonViralName name1;
|
|
454
|
|
|
455
|
//Infrageneric hybrid
|
|
456
|
name1 = parser.parseFullName("Aegilops nothosubg. Insulae Scholz", botanicCode, null);
|
|
457
|
assertTrue("Name must have binom hybrid bit set", name1.isBinomHybrid());
|
|
458
|
assertFalse("Name must not have monom hybrid bit set", name1.isMonomHybrid());
|
|
459
|
assertFalse("Name must not have trinom hybrid bit set", name1.isTrinomHybrid());
|
|
460
|
assertEquals("Infrageneric epithet must be 'Insulae'", "Insulae", name1.getInfraGenericEpithet());
|
|
461
|
|
|
462
|
//Species hybrid
|
|
463
|
// INonViralName nameTeam1 = parser.parseFullName("Aegilops \u00D7insulae-cypri H. Scholz");
|
|
464
|
name1 = parser.parseFullName("Aegilops \u00D7insulae Scholz", botanicCode, null);
|
|
465
|
assertTrue("Name must have binom hybrid bit set", name1.isBinomHybrid());
|
|
466
|
assertFalse("Name must not have monom hybrid bit set", name1.isMonomHybrid());
|
|
467
|
assertFalse("Name must not have trinom hybrid bit set", name1.isTrinomHybrid());
|
|
468
|
assertEquals("Species epithet must be 'insulae'", "insulae", name1.getSpecificEpithet());
|
|
469
|
|
|
470
|
name1 = parser.parseFullName("Aegilops \u00D7 insulae Scholz", botanicCode, null);
|
|
471
|
assertTrue("Name must have binom hybrid bit set", name1.isBinomHybrid());
|
|
472
|
assertFalse("Name must not have monom hybrid bit set", name1.isMonomHybrid());
|
|
473
|
assertFalse("Name must not have trinom hybrid bit set", name1.isTrinomHybrid());
|
|
474
|
assertEquals("Species epithet must be 'insulae'", "insulae", name1.getSpecificEpithet());
|
|
475
|
|
|
476
|
//Uninomial hybrid
|
|
477
|
name1 = parser.parseFullName("x Aegilops Scholz", botanicCode, null);
|
|
478
|
assertTrue("Name must have monom hybrid bit set", name1.isMonomHybrid());
|
|
479
|
assertFalse("Name must not have binom hybrid bit set", name1.isBinomHybrid());
|
|
480
|
assertFalse("Name must not have trinom hybrid bit set", name1.isTrinomHybrid());
|
|
481
|
assertEquals("Uninomial must be 'Aegilops'", "Aegilops", name1.getGenusOrUninomial());
|
|
482
|
|
|
483
|
//Subspecies hybrid with hybrid sign
|
|
484
|
//maybe false: see https://dev.e-taxonomy.eu/redmine/issues/3868
|
|
485
|
name1 = parser.parseFullName("Aegilops insulae subsp. X abies Scholz", botanicCode, null);
|
|
486
|
assertFalse("Name must not have monom hybrid bit set", name1.isMonomHybrid());
|
|
487
|
assertFalse("Name must not have binom hybrid bit set", name1.isBinomHybrid());
|
|
488
|
assertTrue("Name must have trinom hybrid bit set", name1.isTrinomHybrid());
|
|
489
|
assertEquals("Infraspecific epithet must be 'abies'", "abies", name1.getInfraSpecificEpithet());
|
|
490
|
|
|
491
|
//Subspecies hybrid with notho / n
|
|
492
|
name1 = parser.parseFullName("Aegilops insulae nothosubsp. abies Scholz", botanicCode, null);
|
|
493
|
assertFalse("Name must not have monom hybrid bit set", name1.isMonomHybrid());
|
|
494
|
assertFalse("Name must not have binom hybrid bit set", name1.isBinomHybrid());
|
|
495
|
assertFalse("Name must not be protected", name1.isProtectedTitleCache());
|
|
496
|
assertTrue("Name must have trinom hybrid bit set", name1.isTrinomHybrid());
|
|
497
|
assertEquals("Infraspecific epithet must be 'abies'", "abies", name1.getInfraSpecificEpithet());
|
|
498
|
|
|
499
|
name1 = parser.parseFullName("Aegilops insulae nsubsp. abies Scholz", botanicCode, null);
|
|
500
|
assertFalse("Name must not have monom hybrid bit set", name1.isMonomHybrid());
|
|
501
|
assertFalse("Name must not have binom hybrid bit set", name1.isBinomHybrid());
|
|
502
|
assertFalse("Name must not be protected", name1.isProtectedTitleCache());
|
|
503
|
assertTrue("Name must have trinom hybrid bit set", name1.isTrinomHybrid());
|
|
504
|
assertEquals("Infraspecific epithet must be 'abies'", "abies", name1.getInfraSpecificEpithet());
|
|
505
|
|
|
506
|
//
|
|
507
|
String nameStr = "Dactylorhiza \u00D7incarnata nothosubsp. versicolor";
|
|
508
|
name1 = parser.parseFullName(nameStr);
|
|
509
|
assertFalse("Name must not have monom hybrid bit set", name1.isMonomHybrid());
|
|
510
|
assertTrue("Name must have binom hybrid bit set", name1.isBinomHybrid());
|
|
511
|
assertTrue("Name must have trinom hybrid bit set", name1.isTrinomHybrid());
|
|
512
|
assertFalse("Name must not be protected", name1.isProtectedTitleCache());
|
|
513
|
assertEquals(nameStr, name1.getTitleCache()); //we expect the cache strategy to create the same result
|
|
514
|
|
|
515
|
nameStr = "Dactylorhiza \u00D7incarnata nothosubsp. versicolor";
|
|
516
|
name1 = parser.parseFullName(nameStr);
|
|
517
|
assertFalse("Name must not have monom hybrid bit set", name1.isMonomHybrid());
|
|
518
|
assertTrue("Name must have binom hybrid bit set", name1.isBinomHybrid());
|
|
519
|
assertTrue("Name must have trinom hybrid bit set", name1.isTrinomHybrid());
|
|
520
|
assertFalse("Name must not be protected", name1.isProtectedTitleCache());
|
|
521
|
assertEquals(nameStr, name1.getTitleCache()); //we expect the cache strategy to create the same result
|
|
522
|
|
|
523
|
//nothovar.
|
|
524
|
nameStr = "Dactylorhiza incarnata nothovar. versicolor";
|
|
525
|
name1 = parser.parseFullName(nameStr);
|
|
526
|
assertFalse("Name must not have monom hybrid bit set", name1.isMonomHybrid());
|
|
527
|
assertFalse("Name must not have binom hybrid bit set", name1.isBinomHybrid());
|
|
528
|
assertTrue("Name must have trinom hybrid bit set", name1.isTrinomHybrid());
|
|
529
|
assertFalse("Name must not be protected", name1.isProtectedTitleCache());
|
|
530
|
assertEquals(nameStr, name1.getNameCache()); //we expect the cache strategy to create the same result
|
|
531
|
|
|
532
|
//hybrid autonym #6656
|
|
533
|
nameStr = "Ophrys \u00D7kastelli E. Klein nothosubsp. kastelli";
|
|
534
|
name1 = parser.parseFullName(nameStr);
|
|
535
|
assertFalse("Name must not have monom hybrid bit set", name1.isMonomHybrid());
|
|
536
|
assertTrue("Name must have binom hybrid bit set", name1.isBinomHybrid());
|
|
537
|
assertTrue("Name must have trinom hybrid bit set", name1.isTrinomHybrid());
|
|
538
|
assertFalse("Name must not be protected", name1.isProtectedTitleCache());
|
|
539
|
assertEquals(nameStr, name1.getTitleCache()); //we expect the cache strategy to create the same result
|
|
540
|
|
|
541
|
name1 = parser.parseReferencedName(nameStr);
|
|
542
|
assertFalse("Name must not have monom hybrid bit set", name1.isMonomHybrid());
|
|
543
|
assertTrue("Name must have binom hybrid bit set", name1.isBinomHybrid());
|
|
544
|
assertTrue("Name must have trinom hybrid bit set", name1.isTrinomHybrid());
|
|
545
|
assertFalse("Name must not be protected", name1.isProtectedTitleCache());
|
|
546
|
assertEquals(nameStr, name1.getTitleCache()); //we expect the cache strategy to create the same result
|
|
547
|
|
|
548
|
//remove space since #7094
|
|
549
|
parser.setRemoveSpaceAfterDot(true);
|
|
550
|
name1 = parser.parseReferencedName(nameStr);
|
|
551
|
assertEquals(nameStr.replace("E. Kl", "E.Kl"), name1.getTitleCache()); //we expect the cache strategy to create the same result
|
|
552
|
parser.setRemoveSpaceAfterDot(false);
|
|
553
|
}
|
|
554
|
|
|
555
|
@Test
|
|
556
|
public final void testHybridFormulars() {
|
|
557
|
try {
|
|
558
|
Method parseMethod = parser.getClass().getDeclaredMethod("parseFullName", String.class, NomenclaturalCode.class, Rank.class);
|
|
559
|
testName_StringNomcodeRank(parseMethod);
|
|
560
|
} catch (Exception e) {
|
|
561
|
e.printStackTrace();
|
|
562
|
assertTrue(false);
|
|
563
|
}
|
|
564
|
|
|
565
|
//Species hybrid
|
|
566
|
String hybridCache = "Abies alba "+UTF8.HYBRID+" Pinus bus";
|
|
567
|
INonViralName name1 = parser.parseFullName(hybridCache, botanicCode, null);
|
|
568
|
assertTrue("Name must have hybrid formula bit set", name1.isHybridFormula());
|
|
569
|
assertEquals("Name must have 2 hybrid parents", 2, name1.getHybridChildRelations().size());
|
|
570
|
assertEquals("Title cache must be correct", hybridCache, name1.getTitleCache());
|
|
571
|
List<HybridRelationship> orderedRels = name1.getOrderedChildRelationships();
|
|
572
|
assertEquals("Name must have 2 hybrid parents in ordered list", 2, orderedRels.size());
|
|
573
|
TaxonName firstParent = orderedRels.get(0).getParentName();
|
|
574
|
assertEquals("Name must have Abies alba as first hybrid parent", "Abies alba", firstParent.getTitleCache());
|
|
575
|
TaxonName secondParent = orderedRels.get(1).getParentName();
|
|
576
|
assertEquals("Name must have Pinus bus as second hybrid parent", "Pinus bus", secondParent.getTitleCache());
|
|
577
|
assertEquals("Hybrid name must have the lowest rank ('species') as rank", Rank.SPECIES(), name1.getRank());
|
|
578
|
assertNull("Name must not have a genus eptithet", name1.getGenusOrUninomial());
|
|
579
|
assertNull("Name must not have a specific eptithet", name1.getSpecificEpithet());
|
|
580
|
assertFalse("Name must not have parsing problems", name1.hasProblem());
|
|
581
|
|
|
582
|
name1 = parser.parseReferencedName(hybridCache, botanicCode, null);
|
|
583
|
assertFalse("Name must not have parsing problems", name1.hasProblem());
|
|
584
|
|
|
585
|
//x-sign
|
|
586
|
hybridCache = "Abies alba x Pinus bus";
|
|
587
|
name1 = parser.parseFullName(hybridCache, botanicCode, null);
|
|
588
|
assertFalse("Name must be parsable", name1.hasProblem());
|
|
589
|
assertTrue("Name must have hybrid formula bit set", name1.isHybridFormula());
|
|
590
|
assertFalse("Name must not have parsing problems", name1.hasProblem());
|
|
591
|
|
|
592
|
//Genus //#6030
|
|
593
|
hybridCache = "Orchis "+UTF8.HYBRID+" Platanthera";
|
|
594
|
name1 = parser.parseFullName(hybridCache, botanicCode, null);
|
|
595
|
assertFalse("Name must be parsable", name1.hasProblem());
|
|
596
|
assertTrue("Name must have hybrid formula bit set", name1.isHybridFormula());
|
|
597
|
assertFalse("Name must not have parsing problems", name1.hasProblem());
|
|
598
|
assertEquals("Title cache must be correct", hybridCache, name1.getTitleCache());
|
|
599
|
orderedRels = name1.getOrderedChildRelationships();
|
|
600
|
assertEquals("Name must have 2 hybrid parents in ordered list", 2, orderedRels.size());
|
|
601
|
firstParent = orderedRels.get(0).getParentName();
|
|
602
|
assertEquals("Name must have Orchis as first hybrid parent", "Orchis", firstParent.getTitleCache());
|
|
603
|
secondParent = orderedRels.get(1).getParentName();
|
|
604
|
assertEquals("Name must have Platanthera as second hybrid parent", "Platanthera", secondParent.getTitleCache());
|
|
605
|
assertEquals("Hybrid name must have genus as rank", Rank.GENUS(), name1.getRank());
|
|
606
|
|
|
607
|
name1 = parser.parseReferencedName(hybridCache, botanicCode, null);
|
|
608
|
assertFalse("Name must not have parsing problems", name1.hasProblem());
|
|
609
|
|
|
610
|
//Subspecies first hybrid
|
|
611
|
name1 = parser.parseFullName("Abies alba subsp. beta "+UTF8.HYBRID+" Pinus bus", botanicCode, null);
|
|
612
|
assertTrue("Name must have hybrid formula bit set", name1.isHybridFormula());
|
|
613
|
assertEquals("Name must have 2 hybrid parents", 2, name1.getHybridChildRelations().size());
|
|
614
|
assertEquals("Title cache must be correct", "Abies alba subsp. beta "+UTF8.HYBRID+" Pinus bus", name1.getTitleCache());
|
|
615
|
orderedRels = name1.getOrderedChildRelationships();
|
|
616
|
assertEquals("Name must have 2 hybrid parents in ordered list", 2, orderedRels.size());
|
|
617
|
firstParent = orderedRels.get(0).getParentName();
|
|
618
|
assertEquals("Name must have Abies alba subsp. beta as first hybrid parent", "Abies alba subsp. beta", firstParent.getTitleCache());
|
|
619
|
secondParent = orderedRels.get(1).getParentName();
|
|
620
|
assertEquals("Name must have Pinus bus as second hybrid parent", "Pinus bus", secondParent.getTitleCache());
|
|
621
|
assertEquals("Hybrid name must have the lower rank ('subspecies') as rank", Rank.SUBSPECIES(), name1.getRank());
|
|
622
|
|
|
623
|
//variety second hybrid
|
|
624
|
name1 = parser.parseFullName("Abies alba \u00D7 Pinus bus var. beta", botanicCode, null);
|
|
625
|
assertTrue("Name must have hybrid formula bit set", name1.isHybridFormula());
|
|
626
|
assertEquals("Name must have 2 hybrid parents", 2, name1.getHybridChildRelations().size());
|
|
627
|
assertEquals("Title cache must be correct", "Abies alba \u00D7 Pinus bus var. beta", name1.getTitleCache());
|
|
628
|
assertEquals("Hybrid name must have the lower rank ('variety') as rank", Rank.VARIETY(), name1.getRank());
|
|
629
|
|
|
630
|
//hybrids with authors //happens but questionable
|
|
631
|
name1 = parser.parseFullName("Abies alba L. \u00D7 Pinus bus Mill.", botanicCode, null);
|
|
632
|
assertTrue("Name must have hybrid formula bit set", name1.isHybridFormula());
|
|
633
|
assertEquals("Name must have 2 hybrid parents", 2, name1.getHybridChildRelations().size());
|
|
634
|
assertEquals("Title cache must be correct", "Abies alba L. \u00D7 Pinus bus Mill.", name1.getTitleCache());
|
|
635
|
orderedRels = name1.getOrderedChildRelationships();
|
|
636
|
assertEquals("Name must have 2 hybrid parents in ordered list", 2, orderedRels.size());
|
|
637
|
firstParent = orderedRels.get(0).getParentName();
|
|
638
|
assertEquals("Name must have Abies alba L. as first hybrid parent", "Abies alba L.", firstParent.getTitleCache());
|
|
639
|
secondParent = orderedRels.get(1).getParentName();
|
|
640
|
assertEquals("Name must have Pinus bus Mill. as second hybrid parent", "Pinus bus Mill.", secondParent.getTitleCache());
|
|
641
|
assertEquals("Hybrid name must have the lower rank ('species') as rank", Rank.SPECIES(), name1.getRank());
|
|
642
|
|
|
643
|
//abbreviated genus hybrid formula #6410 / #5983
|
|
644
|
String nameStr = "Nepenthes mirabilis \u00D7 N. alata";
|
|
645
|
name1 = parser.parseFullName(nameStr, botanicCode, null);
|
|
646
|
assertTrue("Name must have hybrid formula bit set", name1.isHybridFormula());
|
|
647
|
assertEquals("Name must have 2 hybrid parents", 2, name1.getHybridChildRelations().size());
|
|
648
|
//could also be N. or no genus at all, depends on formatter
|
|
649
|
assertEquals("Title cache must be correct", "Nepenthes mirabilis \u00D7 Nepenthes alata", name1.getTitleCache());
|
|
650
|
orderedRels = name1.getOrderedChildRelationships();
|
|
651
|
assertEquals("Name must have 2 hybrid parents in ordered list", 2, orderedRels.size());
|
|
652
|
firstParent = orderedRels.get(0).getParentName();
|
|
653
|
//to be discussed as usually they should be ordered alphabetically
|
|
654
|
assertEquals("Name must have Nepenthes mirabilis as first hybrid parent", "Nepenthes mirabilis", firstParent.getTitleCache());
|
|
655
|
secondParent = orderedRels.get(1).getParentName();
|
|
656
|
assertEquals("Name must have Nepenthes alata as second hybrid parent", "Nepenthes alata", secondParent.getTitleCache());
|
|
657
|
assertEquals("Hybrid name must have the lower rank ('species') as rank", Rank.SPECIES(), name1.getRank());
|
|
658
|
|
|
659
|
//missing genus hybrid formula #5983
|
|
660
|
nameStr = "Nepenthes mirabilis \u00D7 alata";
|
|
661
|
name1 = parser.parseFullName(nameStr, botanicCode, null);
|
|
662
|
assertTrue("Name must have hybrid formula bit set", name1.isHybridFormula());
|
|
663
|
assertEquals("Name must have 2 hybrid parents", 2, name1.getHybridChildRelations().size());
|
|
664
|
//could also be N. or no genus at all, depends on formatter
|
|
665
|
assertEquals("Title cache must be correct", "Nepenthes mirabilis \u00D7 Nepenthes alata", name1.getTitleCache());
|
|
666
|
orderedRels = name1.getOrderedChildRelationships();
|
|
667
|
assertEquals("Name must have 2 hybrid parents in ordered list", 2, orderedRels.size());
|
|
668
|
firstParent = orderedRels.get(0).getParentName();
|
|
669
|
//to be discussed as usually they should be ordered alphabetically
|
|
670
|
assertEquals("Name must have Nepenthes mirabilis as first hybrid parent", "Nepenthes mirabilis", firstParent.getTitleCache());
|
|
671
|
secondParent = orderedRels.get(1).getParentName();
|
|
672
|
assertEquals("Name must have Nepenthes alata as second hybrid parent", "Nepenthes alata", secondParent.getTitleCache());
|
|
673
|
assertEquals("Hybrid name must have the lower rank ('species') as rank", Rank.SPECIES(), name1.getRank());
|
|
674
|
|
|
675
|
//#5983 subsp. with species and missing genus
|
|
676
|
nameStr = "Orchis coriophora subsp. fragrans \u00D7 sancta";
|
|
677
|
name1 = parser.parseFullName(nameStr, botanicCode, null);
|
|
678
|
assertTrue("Name must have hybrid formula bit set", name1.isHybridFormula());
|
|
679
|
assertEquals("Name must have 2 hybrid parents", 2, name1.getHybridChildRelations().size());
|
|
680
|
//could also be N. or no genus at all, depends on formatter
|
|
681
|
assertEquals("Title cache must be correct", "Orchis coriophora subsp. fragrans \u00D7 Orchis sancta", name1.getTitleCache());
|
|
682
|
orderedRels = name1.getOrderedChildRelationships();
|
|
683
|
assertEquals("Name must have 2 hybrid parents in ordered list", 2, orderedRels.size());
|
|
684
|
firstParent = orderedRels.get(0).getParentName();
|
|
685
|
assertEquals("Name must have Orchis coriophora subsp. fragrans as first hybrid parent", "Orchis coriophora subsp. fragrans", firstParent.getTitleCache());
|
|
686
|
secondParent = orderedRels.get(1).getParentName();
|
|
687
|
assertEquals("Name must have Orchis sancta as second hybrid parent", "Orchis sancta", secondParent.getTitleCache());
|
|
688
|
assertEquals("Hybrid name must have the lower rank ('subspecies') as rank", Rank.SUBSPECIES(), name1.getRank());
|
|
689
|
|
|
690
|
//2 subspecies with missing genus part #5983
|
|
691
|
nameStr = "Orchis morio subsp. syriaca \u00D7 papilionacea subsp. schirvanica";
|
|
692
|
name1 = parser.parseFullName(nameStr, botanicCode, null);
|
|
693
|
assertTrue("Name must have hybrid formula bit set", name1.isHybridFormula());
|
|
694
|
assertEquals("Name must have 2 hybrid parents", 2, name1.getHybridChildRelations().size());
|
|
695
|
//could also be N. or no genus at all, depends on formatter
|
|
696
|
assertEquals("Title cache must be correct", "Orchis morio subsp. syriaca \u00D7 Orchis papilionacea subsp. schirvanica", name1.getTitleCache());
|
|
697
|
orderedRels = name1.getOrderedChildRelationships();
|
|
698
|
assertEquals("Name must have 2 hybrid parents in ordered list", 2, orderedRels.size());
|
|
699
|
firstParent = orderedRels.get(0).getParentName();
|
|
700
|
assertEquals("Name must have Orchis morio subsp. syriaca as first hybrid parent", "Orchis morio subsp. syriaca", firstParent.getTitleCache());
|
|
701
|
secondParent = orderedRels.get(1).getParentName();
|
|
702
|
assertEquals("Name must have Orchis papilionacea subsp. schirvanica as second hybrid parent", "Orchis papilionacea subsp. schirvanica", secondParent.getTitleCache());
|
|
703
|
assertEquals("Hybrid name must have the lower rank ('subspecies') as rank", Rank.SUBSPECIES(), name1.getRank());
|
|
704
|
|
|
705
|
//subspecies and variety with missing genus part
|
|
706
|
nameStr = "Orchis morio subsp. syriaca \u00D7 papilionacea var. schirvanica";
|
|
707
|
name1 = parser.parseFullName(nameStr, botanicCode, null);
|
|
708
|
assertTrue("Name must have hybrid formula bit set", name1.isHybridFormula());
|
|
709
|
assertEquals("Name must have 2 hybrid parents", 2, name1.getHybridChildRelations().size());
|
|
710
|
//could also be N. or no genus at all, depends on formatter
|
|
711
|
assertEquals("Title cache must be correct", "Orchis morio subsp. syriaca \u00D7 Orchis papilionacea var. schirvanica", name1.getTitleCache());
|
|
712
|
orderedRels = name1.getOrderedChildRelationships();
|
|
713
|
assertEquals("Name must have 2 hybrid parents in ordered list", 2, orderedRels.size());
|
|
714
|
firstParent = orderedRels.get(0).getParentName();
|
|
715
|
assertEquals("Name must have Orchis morio subsp. syriaca as first hybrid parent", "Orchis morio subsp. syriaca", firstParent.getTitleCache());
|
|
716
|
secondParent = orderedRels.get(1).getParentName();
|
|
717
|
assertEquals("Name must have Orchis papilionacea var. schirvanica as second hybrid parent", "Orchis papilionacea var. schirvanica", secondParent.getTitleCache());
|
|
718
|
assertEquals("Hybrid name must have the lower rank ('variety') as rank", Rank.VARIETY(), name1.getRank());
|
|
719
|
|
|
720
|
//subspecies and variety with genus part
|
|
721
|
nameStr = "Orchis morio subsp. syriaca \u00D7 Test papilionacea var. schirvanica";
|
|
722
|
name1 = parser.parseFullName(nameStr, botanicCode, null);
|
|
723
|
assertTrue("Name must have hybrid formula bit set", name1.isHybridFormula());
|
|
724
|
assertEquals("Name must have 2 hybrid parents", 2, name1.getHybridChildRelations().size());
|
|
725
|
//could also be N. or no genus at all, depends on formatter
|
|
726
|
assertEquals("Title cache must be correct", "Orchis morio subsp. syriaca \u00D7 Test papilionacea var. schirvanica", name1.getTitleCache());
|
|
727
|
orderedRels = name1.getOrderedChildRelationships();
|
|
728
|
assertEquals("Name must have 2 hybrid parents in ordered list", 2, orderedRels.size());
|
|
729
|
firstParent = orderedRels.get(0).getParentName();
|
|
730
|
assertEquals("Name must have Orchis morio subsp. syriaca as first hybrid parent", "Orchis morio subsp. syriaca", firstParent.getTitleCache());
|
|
731
|
secondParent = orderedRels.get(1).getParentName();
|
|
732
|
assertEquals("Name must have Orchis papilionacea var. schirvanica as second hybrid parent", "Test papilionacea var. schirvanica", secondParent.getTitleCache());
|
|
733
|
assertEquals("Hybrid name must have the lower rank ('variety') as rank", Rank.VARIETY(), name1.getRank());
|
|
734
|
|
|
735
|
//2 subspecies with missing genus and species part #5983
|
|
736
|
nameStr = "Orchis morio subsp. syriaca \u00D7 subsp. schirvanica";
|
|
737
|
name1 = parser.parseFullName(nameStr, botanicCode, null);
|
|
738
|
assertTrue("Name must have hybrid formula bit set", name1.isHybridFormula());
|
|
739
|
assertEquals("Name must have 2 hybrid parents", 2, name1.getHybridChildRelations().size());
|
|
740
|
//could also be N. or no genus at all, depends on formatter
|
|
741
|
assertEquals("Title cache must be correct", "Orchis morio subsp. syriaca \u00D7 Orchis morio subsp. schirvanica", name1.getTitleCache());
|
|
742
|
orderedRels = name1.getOrderedChildRelationships();
|
|
743
|
assertEquals("Name must have 2 hybrid parents in ordered list", 2, orderedRels.size());
|
|
744
|
firstParent = orderedRels.get(0).getParentName();
|
|
745
|
assertEquals("Name must have Orchis morio subsp. syriaca as first hybrid parent", "Orchis morio subsp. syriaca", firstParent.getTitleCache());
|
|
746
|
secondParent = orderedRels.get(1).getParentName();
|
|
747
|
assertEquals("Name must have Orchis morio subsp. schirvanica as second hybrid parent", "Orchis morio subsp. schirvanica", secondParent.getTitleCache());
|
|
748
|
assertEquals("Hybrid name must have the lower rank ('subspecies') as rank", Rank.SUBSPECIES(), name1.getRank());
|
|
749
|
|
|
750
|
//subspecies and variety with missing genus and species part #5983
|
|
751
|
nameStr = "Orchis morio subsp. syriaca \u00D7 var. schirvanica";
|
|
752
|
name1 = parser.parseFullName(nameStr, botanicCode, null);
|
|
753
|
assertTrue("Name must have hybrid formula bit set", name1.isHybridFormula());
|
|
754
|
assertEquals("Name must have 2 hybrid parents", 2, name1.getHybridChildRelations().size());
|
|
755
|
//could also be N. or no genus at all, depends on formatter
|
|
756
|
assertEquals("Title cache must be correct", "Orchis morio subsp. syriaca \u00D7 Orchis morio var. schirvanica", name1.getTitleCache());
|
|
757
|
orderedRels = name1.getOrderedChildRelationships();
|
|
758
|
assertEquals("Name must have 2 hybrid parents in ordered list", 2, orderedRels.size());
|
|
759
|
firstParent = orderedRels.get(0).getParentName();
|
|
760
|
assertEquals("Name must have Orchis morio subsp. syriaca as first hybrid parent", "Orchis morio subsp. syriaca", firstParent.getTitleCache());
|
|
761
|
secondParent = orderedRels.get(1).getParentName();
|
|
762
|
assertEquals("Name must have Orchis morio subsp. schirvanica as second hybrid parent", "Orchis morio var. schirvanica", secondParent.getTitleCache());
|
|
763
|
assertEquals("Hybrid name must have the lower rank ('variety') as rank", Rank.VARIETY(), name1.getRank());
|
|
764
|
}
|
|
765
|
|
|
766
|
|
|
767
|
@Test
|
|
768
|
public final void testUninomials() {
|
|
769
|
String uninomial = "Anserineae"; //this, in reality is a tribe but the parser should recognize a suborder as the suborder ending -ineae is more specific then the tribe ending -eae
|
|
770
|
INonViralName name = parser.parseFullName(uninomial, botanicCode, null);
|
|
771
|
assertEquals(Rank.SUBORDER(), name.getRank());
|
|
772
|
}
|
|
773
|
|
|
774
|
@Test
|
|
775
|
public final void testUnrankedNames() {
|
|
776
|
try {
|
|
777
|
Method parseMethod = parser.getClass().getDeclaredMethod("parseFullName", String.class, NomenclaturalCode.class, Rank.class);
|
|
778
|
testName_StringNomcodeRank(parseMethod);
|
|
779
|
} catch (Exception e) {
|
|
780
|
e.printStackTrace();
|
|
781
|
assertTrue(false);
|
|
782
|
}
|
|
783
|
|
|
784
|
//unranked infraspecific
|
|
785
|
String infraspecificUnranked = "Genus species [unranked] infraspecific";
|
|
786
|
INonViralName name = parser.parseFullName(infraspecificUnranked);
|
|
787
|
assertEquals( "Genus", name.getGenusOrUninomial());
|
|
788
|
assertEquals( "species", name.getSpecificEpithet());
|
|
789
|
assertEquals( "infraspecific", name.getInfraSpecificEpithet());
|
|
790
|
assertEquals( "Unranked rank should be parsed", Rank.INFRASPECIFICTAXON(), name.getRank());
|
|
791
|
|
|
792
|
//'ranglos' infraspecific
|
|
793
|
infraspecificUnranked = "Genus species [ranglos] infraspecific";
|
|
794
|
name = parser.parseFullName(infraspecificUnranked);
|
|
795
|
assertEquals( "Genus", name.getGenusOrUninomial());
|
|
796
|
assertEquals( "species", name.getSpecificEpithet());
|
|
797
|
assertEquals( "infraspecific", name.getInfraSpecificEpithet());
|
|
798
|
assertEquals( "Unranked rank should be parsed", Rank.INFRASPECIFICTAXON(), name.getRank());
|
|
799
|
|
|
800
|
//unranked infrageneric
|
|
801
|
String infraGenericUnranked = "Genus [unranked] Infragen";
|
|
802
|
INonViralName name2 = parser.parseFullName(infraGenericUnranked);
|
|
803
|
assertEquals( "Genus", name2.getGenusOrUninomial());
|
|
804
|
assertEquals( null, name2.getSpecificEpithet());
|
|
805
|
assertEquals( "Infragen", name2.getInfraGenericEpithet());
|
|
806
|
assertEquals( "Unranked rank should be parsed", Rank.INFRAGENERICTAXON(), name2.getRank());
|
|
807
|
|
|
808
|
//unranked infrageneric
|
|
809
|
infraGenericUnranked = "Genus [ranglos] Infragen";
|
|
810
|
name2 = parser.parseFullName(infraGenericUnranked);
|
|
811
|
assertEquals( "Genus", name2.getGenusOrUninomial());
|
|
812
|
assertEquals( null, name2.getSpecificEpithet());
|
|
813
|
assertEquals( "Infragen", name2.getInfraGenericEpithet());
|
|
814
|
assertEquals( "Ranglos rank should be parsed", Rank.INFRAGENERICTAXON(), name2.getRank());
|
|
815
|
|
|
816
|
}
|
|
817
|
|
|
818
|
@Test
|
|
819
|
public final void testOldRanks() {
|
|
820
|
try {
|
|
821
|
Method parseMethod = parser.getClass().getDeclaredMethod("parseFullName", String.class, NomenclaturalCode.class, Rank.class);
|
|
822
|
testName_StringNomcodeRank(parseMethod);
|
|
823
|
} catch (Exception e) {
|
|
824
|
e.printStackTrace();
|
|
825
|
assertTrue(false);
|
|
826
|
}
|
|
827
|
|
|
828
|
//proles
|
|
829
|
String infraspecificUnranked = "Genus species proles infraspecific";
|
|
830
|
INonViralName name = parser.parseFullName(infraspecificUnranked);
|
|
831
|
assertEquals( "Genus", name.getGenusOrUninomial());
|
|
832
|
assertEquals( "species", name.getSpecificEpithet());
|
|
833
|
assertEquals( "infraspecific", name.getInfraSpecificEpithet());
|
|
834
|
assertEquals( "Proles should be parsed", Rank.PROLES(), name.getRank());
|
|
835
|
|
|
836
|
//sublusus
|
|
837
|
infraspecificUnranked = "Genus species sublusus infraspecific";
|
|
838
|
name = parser.parseFullName(infraspecificUnranked);
|
|
839
|
assertEquals( "Genus", name.getGenusOrUninomial());
|
|
840
|
assertEquals( "species", name.getSpecificEpithet());
|
|
841
|
assertEquals( "infraspecific", name.getInfraSpecificEpithet());
|
|
842
|
assertEquals( "Sublusus should be parsed", Rank.SUBLUSUS(), name.getRank());
|
|
843
|
|
|
844
|
//race
|
|
845
|
infraspecificUnranked = "Genus species race infraspecific";
|
|
846
|
name = parser.parseFullName(infraspecificUnranked);
|
|
847
|
assertEquals( "Genus", name.getGenusOrUninomial());
|
|
848
|
assertEquals( "species", name.getSpecificEpithet());
|
|
849
|
assertEquals( "infraspecific", name.getInfraSpecificEpithet());
|
|
850
|
assertEquals( "Race should be parsed", Rank.RACE(), name.getRank());
|
|
851
|
}
|
|
852
|
|
|
853
|
@Test
|
|
854
|
public final void testTemp(){
|
|
855
|
|
|
856
|
// String nameStr = "Mentha aquatica L. x Mentha spicata L.";
|
|
857
|
// INonViralName name = parser.parseFullName(nameStr, botanicCode, null);
|
|
858
|
// Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
859
|
// assertFalse( name.getHybridChildRelations().isEmpty());
|
|
860
|
// for (HybridRelationship rel : name.getHybridChildRelations()){
|
|
861
|
// TaxonName parent = rel.getParentName();
|
|
862
|
// System.out.println(parent.getTitleCache());
|
|
863
|
// }
|
|
864
|
}
|
|
865
|
|
|
866
|
@Test
|
|
867
|
public final void testHybridsRemoval(){
|
|
868
|
//if the parser input already has hybridrelationships they need to be removed
|
|
869
|
//Create input
|
|
870
|
String hybridCache = "Abies alba "+UTF8.HYBRID+" Pinus bus";
|
|
871
|
INonViralName name1 = parser.parseFullName(hybridCache, botanicCode, null);
|
|
872
|
assertFalse("Name must not have parsing problems", name1.hasProblem());
|
|
873
|
assertTrue("", name1.getHybridChildRelations().size() == 2);
|
|
874
|
|
|
875
|
hybridCache = "Abieta albana "+UTF8.HYBRID+" Pinuta custa";
|
|
876
|
boolean makeEmpty = true;
|
|
877
|
parser.parseFullName(name1, hybridCache, Rank.SPECIES(), makeEmpty);
|
|
878
|
assertEquals("After parsing another string there should still be 2 parents, but different ones", 2, name1.getHybridChildRelations().size());
|
|
879
|
assertFalse("Name must not have parsing problems", name1.hasProblem());
|
|
880
|
|
|
881
|
|
|
882
|
hybridCache = "Calendula arvensis Mill.";
|
|
883
|
makeEmpty = true;
|
|
884
|
parser.parseFullName(name1, hybridCache, Rank.SPECIES(), makeEmpty);
|
|
885
|
assertTrue("", name1.getHybridChildRelations().isEmpty());
|
|
886
|
assertFalse("Name must not have parsing problems", name1.hasProblem());
|
|
887
|
|
|
888
|
|
|
889
|
//AND the same for reference parsing
|
|
890
|
hybridCache = "Abies alba "+UTF8.HYBRID+" Pinus bus";
|
|
891
|
name1 = parser.parseReferencedName(hybridCache, botanicCode, null);
|
|
892
|
assertFalse("Name must not have parsing problems", name1.hasProblem());
|
|
893
|
assertTrue("", name1.getHybridChildRelations().size() == 2);
|
|
894
|
|
|
895
|
hybridCache = "Abieta albana "+UTF8.HYBRID+" Pinuta custa";
|
|
896
|
makeEmpty = true;
|
|
897
|
parser.parseReferencedName(name1, hybridCache, Rank.SPECIES(), makeEmpty);
|
|
898
|
assertEquals("After parsing another string there should still be 2 parents, but different ones", 2, name1.getHybridChildRelations().size());
|
|
899
|
assertFalse("Name must not have parsing problems", name1.hasProblem());
|
|
900
|
|
|
901
|
hybridCache = "Calendula arvensis Mill.";
|
|
902
|
makeEmpty = true;
|
|
903
|
parser.parseReferencedName(name1, hybridCache, Rank.SPECIES(), makeEmpty);
|
|
904
|
assertTrue("", name1.getHybridChildRelations().isEmpty());
|
|
905
|
assertFalse("Name must not have parsing problems", name1.hasProblem());
|
|
906
|
}
|
|
907
|
|
|
908
|
private void testName_StringNomcodeRank(Method parseMethod)
|
|
909
|
throws InvocationTargetException, IllegalAccessException {
|
|
910
|
INonViralName name1 = (INonViralName)parseMethod.invoke(parser, strNameAbies1, null, Rank.SPECIES());
|
|
911
|
//parser.parseFullName(strNameAbies1, null, Rank.SPECIES());
|
|
912
|
assertEquals("Abies", name1.getGenusOrUninomial());
|
|
913
|
assertEquals("alba", name1.getSpecificEpithet());
|
|
914
|
|
|
915
|
INonViralName nameAuthor = (INonViralName)parseMethod.invoke(parser, strNameAbiesAuthor1, null, Rank.SPECIES());
|
|
916
|
assertEquals("Abies", nameAuthor.getGenusOrUninomial());
|
|
917
|
assertEquals("alba", nameAuthor.getSpecificEpithet());
|
|
918
|
assertEquals("Mueller", nameAuthor.getCombinationAuthorship().getNomenclaturalTitle());
|
|
919
|
|
|
920
|
INonViralName nameBasionymAuthor = (INonViralName)parseMethod.invoke(parser, strNameAbiesBasionymAuthor1, null, Rank.SPECIES());
|
|
921
|
assertEquals("Abies", nameBasionymAuthor.getGenusOrUninomial());
|
|
922
|
assertEquals("alba", nameBasionymAuthor.getSpecificEpithet());
|
|
923
|
assertEquals("D'Mueller", nameBasionymAuthor.getCombinationAuthorship().getNomenclaturalTitle());
|
|
924
|
assertEquals("Ciardelli", nameBasionymAuthor.getBasionymAuthorship().getNomenclaturalTitle());
|
|
925
|
|
|
926
|
INonViralName nameBasionymExAuthor = (INonViralName)parseMethod.invoke(parser, strNameAbiesBasionymExAuthor1, null, Rank.SPECIES());
|
|
927
|
assertEquals("Abies", nameBasionymExAuthor.getGenusOrUninomial());
|
|
928
|
assertEquals("alba", nameBasionymExAuthor.getSpecificEpithet());
|
|
929
|
assertEquals("D'Mueller", nameBasionymExAuthor.getExCombinationAuthorship().getNomenclaturalTitle());
|
|
930
|
assertEquals("de Greuther", nameBasionymExAuthor.getCombinationAuthorship().getNomenclaturalTitle());
|
|
931
|
assertEquals("Ciardelli", nameBasionymExAuthor.getExBasionymAuthorship().getNomenclaturalTitle());
|
|
932
|
assertEquals("Doering", nameBasionymExAuthor.getBasionymAuthorship().getNomenclaturalTitle());
|
|
933
|
|
|
934
|
INonViralName name2 = (INonViralName)parseMethod.invoke(parser, strNameAbiesSub1, null, Rank.SPECIES());
|
|
935
|
assertEquals("Abies", name2.getGenusOrUninomial());
|
|
936
|
assertEquals("alba", name2.getSpecificEpithet());
|
|
937
|
assertEquals("beta", name2.getInfraSpecificEpithet());
|
|
938
|
assertEquals(Rank.SUBSPECIES(), name2.getRank());
|
|
939
|
|
|
940
|
|
|
941
|
// unparseable *********
|
|
942
|
String problemString = "sdfjlös wer eer wer";
|
|
943
|
INonViralName nameProblem = (INonViralName)parseMethod.invoke(parser, problemString, null, Rank.SPECIES());
|
|
944
|
List<ParserProblem> list = nameProblem.getParsingProblems();
|
|
945
|
assertTrue(nameProblem.getParsingProblem()!=0);
|
|
946
|
assertEquals(problemString, nameProblem.getTitleCache());
|
|
947
|
}
|
|
948
|
|
|
949
|
|
|
950
|
/**
|
|
951
|
* Test method for {@link eu.etaxonomy.cdm.strategy.parser.NonViralNameParserImpl#parseReferencedName(NonViralName, java.lang.String, eu.etaxonomy.cdm.model.name.Rank, boolean)(, )}.
|
|
952
|
*/
|
|
953
|
@Test
|
|
954
|
public final void testParseNomStatus() {
|
|
955
|
//nom. ambig.
|
|
956
|
String strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. ambig.";
|
|
957
|
INonViralName nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
958
|
assertFullRefStandard(nameTestStatus);
|
|
959
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
960
|
assertEquals( NomenclaturalStatusType.AMBIGUOUS(), nameTestStatus.getStatus().iterator().next().getType());
|
|
961
|
|
|
962
|
//nom. inval.
|
|
963
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. inval.";
|
|
964
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
965
|
assertFullRefStandard(nameTestStatus);
|
|
966
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
967
|
assertEquals( NomenclaturalStatusType.INVALID(), nameTestStatus.getStatus().iterator().next().getType());
|
|
968
|
|
|
969
|
//nom. dub.
|
|
970
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. dub.";
|
|
971
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
972
|
assertFullRefStandard(nameTestStatus);
|
|
973
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
974
|
assertEquals( NomenclaturalStatusType.DOUBTFUL(), nameTestStatus.getStatus().iterator().next().getType());
|
|
975
|
|
|
976
|
//nom. confus.
|
|
977
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. confus.";
|
|
978
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
979
|
assertFullRefStandard(nameTestStatus);
|
|
980
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
981
|
assertEquals( NomenclaturalStatusType.CONFUSUM(), nameTestStatus.getStatus().iterator().next().getType());
|
|
982
|
|
|
983
|
//nom. illeg.
|
|
984
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. illeg.";
|
|
985
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
986
|
assertFullRefStandard(nameTestStatus);
|
|
987
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
988
|
assertEquals( NomenclaturalStatusType.ILLEGITIMATE(), nameTestStatus.getStatus().iterator().next().getType());
|
|
989
|
|
|
990
|
//nom. superfl.
|
|
991
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. superfl.";
|
|
992
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
993
|
assertFullRefStandard(nameTestStatus);
|
|
994
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
995
|
assertEquals( NomenclaturalStatusType.SUPERFLUOUS(), nameTestStatus.getStatus().iterator().next().getType());
|
|
996
|
|
|
997
|
//nom. rej.
|
|
998
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. rej.";
|
|
999
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1000
|
assertFullRefStandard(nameTestStatus);
|
|
1001
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1002
|
assertEquals( NomenclaturalStatusType.REJECTED(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1003
|
|
|
1004
|
//nom. utique rej.
|
|
1005
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. utique rej.";
|
|
1006
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1007
|
assertFullRefStandard(nameTestStatus);
|
|
1008
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1009
|
assertEquals( NomenclaturalStatusType.UTIQUE_REJECTED(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1010
|
|
|
1011
|
//nom. cons. prop.
|
|
1012
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. cons. prop.";
|
|
1013
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1014
|
assertFullRefStandard(nameTestStatus);
|
|
1015
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1016
|
assertEquals( NomenclaturalStatusType.CONSERVED_PROP(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1017
|
|
|
1018
|
//nom. orth. cons. prop.
|
|
1019
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, orth. cons. prop.";
|
|
1020
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1021
|
assertFullRefStandard(nameTestStatus);
|
|
1022
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1023
|
assertEquals( NomenclaturalStatusType.ORTHOGRAPHY_CONSERVED_PROP(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1024
|
|
|
1025
|
//nom. cons. prop.
|
|
1026
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. cons. des.";
|
|
1027
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1028
|
assertFullRefStandard(nameTestStatus);
|
|
1029
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1030
|
assertEquals( NomenclaturalStatusType.CONSERVED_DESIG(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1031
|
|
|
1032
|
//nom. legit.
|
|
1033
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. legit.";
|
|
1034
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1035
|
assertFullRefStandard(nameTestStatus);
|
|
1036
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1037
|
assertEquals( NomenclaturalStatusType.LEGITIMATE(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1038
|
|
|
1039
|
//nom. altern.
|
|
1040
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. altern.";
|
|
1041
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1042
|
assertFullRefStandard(nameTestStatus);
|
|
1043
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1044
|
assertEquals( NomenclaturalStatusType.ALTERNATIVE(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1045
|
|
|
1046
|
//nom. alternativ.
|
|
1047
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. alternativ.";
|
|
1048
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1049
|
assertFullRefStandard(nameTestStatus);
|
|
1050
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1051
|
assertEquals( NomenclaturalStatusType.ALTERNATIVE(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1052
|
|
|
1053
|
//nom. nov.
|
|
1054
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. nov.";
|
|
1055
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1056
|
assertFullRefStandard(nameTestStatus);
|
|
1057
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1058
|
assertEquals( NomenclaturalStatusType.NOVUM(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1059
|
|
|
1060
|
//nom. utique rej. prop.
|
|
1061
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. utique rej. prop.";
|
|
1062
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1063
|
assertFullRefStandard(nameTestStatus);
|
|
1064
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1065
|
assertEquals( NomenclaturalStatusType.UTIQUE_REJECTED_PROP(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1066
|
|
|
1067
|
//nom. orth. cons.
|
|
1068
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, orth. cons.";
|
|
1069
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1070
|
assertFullRefStandard(nameTestStatus);
|
|
1071
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1072
|
assertEquals( NomenclaturalStatusType.ORTHOGRAPHY_CONSERVED(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1073
|
|
|
1074
|
//nom. rej. prop.
|
|
1075
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. rej. prop.";
|
|
1076
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1077
|
assertFullRefStandard(nameTestStatus);
|
|
1078
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1079
|
assertEquals( NomenclaturalStatusType.REJECTED_PROP(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1080
|
|
|
1081
|
//nom. cons.
|
|
1082
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. cons.";
|
|
1083
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1084
|
assertFullRefStandard(nameTestStatus);
|
|
1085
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1086
|
assertEquals( NomenclaturalStatusType.CONSERVED(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1087
|
|
|
1088
|
//nom. sanct.
|
|
1089
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. sanct.";
|
|
1090
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1091
|
assertFullRefStandard(nameTestStatus);
|
|
1092
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1093
|
assertEquals( NomenclaturalStatusType.SANCTIONED(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1094
|
|
|
1095
|
//nom. nud.
|
|
1096
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. nud.";
|
|
1097
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1098
|
assertFullRefStandard(nameTestStatus);
|
|
1099
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1100
|
assertEquals( NomenclaturalStatusType.NUDUM(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1101
|
|
|
1102
|
//comb. inval.
|
|
1103
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, comb. inval.";
|
|
1104
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1105
|
assertFullRefStandard(nameTestStatus);
|
|
1106
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1107
|
assertEquals( NomenclaturalStatusType.COMBINATION_INVALID(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1108
|
|
|
1109
|
//comb. illeg.
|
|
1110
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, comb. illeg.";
|
|
1111
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1112
|
assertFullRefStandard(nameTestStatus);
|
|
1113
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1114
|
assertEquals( NomenclaturalStatusType.COMBINATION_ILLEGITIMATE(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1115
|
|
|
1116
|
//nom. provis.
|
|
1117
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. provis.";
|
|
1118
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1119
|
assertFullRefStandard(nameTestStatus);
|
|
1120
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1121
|
assertEquals( NomenclaturalStatusType.PROVISIONAL(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1122
|
|
|
1123
|
//nom. val.
|
|
1124
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. val.";
|
|
1125
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1126
|
assertFullRefStandard(nameTestStatus);
|
|
1127
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1128
|
assertEquals( NomenclaturalStatusType.VALID(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1129
|
|
|
1130
|
//nom. subnud.
|
|
1131
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, nom. subnud.";
|
|
1132
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1133
|
assertFullRefStandard(nameTestStatus);
|
|
1134
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1135
|
assertEquals( NomenclaturalStatusType.SUBNUDUM(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1136
|
|
|
1137
|
//opus. utique oppr.
|
|
1138
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, op. utique oppr.";
|
|
1139
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1140
|
assertFullRefStandard(nameTestStatus);
|
|
1141
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1142
|
assertEquals( NomenclaturalStatusType.OPUS_UTIQUE_OPPR(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1143
|
|
|
1144
|
//comb. nov.
|
|
1145
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, comb. nov.";
|
|
1146
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1147
|
assertFullRefStandard(nameTestStatus);
|
|
1148
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1149
|
assertEquals( NomenclaturalStatusType.COMB_NOV(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1150
|
|
|
1151
|
//orth. rej.
|
|
1152
|
strTestStatus = "Abies alba Mill., Sp. Pl. 4: 455. 1987, orth. rej.";
|
|
1153
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1154
|
assertFullRefStandard(nameTestStatus);
|
|
1155
|
assertTrue(nameTestStatus.getStatus().size()== 1);
|
|
1156
|
assertEquals( NomenclaturalStatusType.ORTHOGRAPHY_REJECTED(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1157
|
|
|
1158
|
//ined.
|
|
1159
|
strTestStatus = "Houstonia macvaughii (Terrell), ined.";
|
|
1160
|
nameTestStatus = parser.parseReferencedName(strTestStatus, null, Rank.SPECIES());
|
|
1161
|
assertEquals("Houstonia", nameTestStatus.getGenusOrUninomial());
|
|
1162
|
assertEquals("macvaughii", nameTestStatus.getSpecificEpithet());
|
|
1163
|
assertEquals("(Terrell)", nameTestStatus.getAuthorshipCache());
|
|
1164
|
assertEquals(1, nameTestStatus.getStatus().size());
|
|
1165
|
assertEquals( NomenclaturalStatusType.INED(), nameTestStatus.getStatus().iterator().next().getType());
|
|
1166
|
|
|
1167
|
//not yet parsed "not avail."
|
|
1168
|
}
|
|
1169
|
|
|
1170
|
/**
|
|
1171
|
* Test method for {@link eu.etaxonomy.cdm.strategy.parser.NonViralNameParserImpl#parseReferencedName(NonViralName, java.lang.String, eu.etaxonomy.cdm.model.name.Rank, boolean)(, )}.
|
|
1172
|
*/
|
|
1173
|
@Test
|
|
1174
|
public final void testParseReferencedName() {
|
|
1175
|
try {
|
|
1176
|
Method parseMethod = parser.getClass().getDeclaredMethod("parseReferencedName", String.class, NomenclaturalCode.class, Rank.class);
|
|
1177
|
testName_StringNomcodeRank(parseMethod);
|
|
1178
|
} catch (Exception e) {
|
|
1179
|
e.printStackTrace();
|
|
1180
|
assertTrue(false);
|
|
1181
|
}
|
|
1182
|
|
|
1183
|
//null
|
|
1184
|
String strNull = null;
|
|
1185
|
Rank rankSpecies = Rank.SPECIES();
|
|
1186
|
INonViralName nameNull = parser.parseReferencedName(strNull, null, rankSpecies);
|
|
1187
|
assertNull(nameNull);
|
|
1188
|
|
|
1189
|
//Empty
|
|
1190
|
String strEmpty = "";
|
|
1191
|
INonViralName nameEmpty = parser.parseReferencedName(strEmpty, null, rankSpecies);
|
|
1192
|
assertFalse(nameEmpty.hasProblem());
|
|
1193
|
assertEquals(strEmpty, nameEmpty.getFullTitleCache());
|
|
1194
|
assertNull(nameEmpty.getNomenclaturalMicroReference());
|
|
1195
|
|
|
1196
|
|
|
1197
|
//Whitespaces
|
|
1198
|
String strFullWhiteSpcaceAndDot = "Abies alba Mill., Sp. Pl. 4: 455 . 1987 .";
|
|
1199
|
INonViralName namefullWhiteSpcaceAndDot = parser.parseReferencedName(strFullWhiteSpcaceAndDot, null, rankSpecies);
|
|
1200
|
assertFullRefStandard(namefullWhiteSpcaceAndDot);
|
|
1201
|
assertTrue(namefullWhiteSpcaceAndDot.getNomenclaturalReference().getType().equals(eu.etaxonomy.cdm.model.reference.ReferenceType.Book));
|
|
1202
|
assertEquals( "Abies alba Mill., Sp. Pl. 4: 455. 1987", namefullWhiteSpcaceAndDot.getFullTitleCache());
|
|
1203
|
|
|
1204
|
//Book
|
|
1205
|
String fullReference = "Abies alba Mill., Sp. Pl. 4: 455. 1987";
|
|
1206
|
INonViralName name1 = parser.parseReferencedName(fullReference, null, rankSpecies);
|
|
1207
|
assertFullRefStandard(name1);
|
|
1208
|
assertTrue(name1.getNomenclaturalReference().getType().equals(eu.etaxonomy.cdm.model.reference.ReferenceType.Book));
|
|
1209
|
assertEquals(fullReference, name1.getFullTitleCache());
|
|
1210
|
assertTrue("Name author and reference author should be the same", name1.getCombinationAuthorship() == name1.getNomenclaturalReference().getAuthorship());
|
|
1211
|
|
|
1212
|
//Book Section
|
|
1213
|
fullReference = "Abies alba Mill. in Otto, Sp. Pl. 4(6): 455. 1987";
|
|
1214
|
INonViralName name2 = parser.parseReferencedName(fullReference + ".", null, rankSpecies);
|
|
1215
|
assertFullRefNameStandard(name2);
|
|
1216
|
assertEquals(fullReference, name2.getFullTitleCache());
|
|
1217
|
assertFalse(name2.hasProblem());
|
|
1218
|
INomenclaturalReference ref = name2.getNomenclaturalReference();
|
|
1219
|
assertEquals(ReferenceType.BookSection, ((Reference)ref).getType());
|
|
1220
|
IBookSection bookSection = (IBookSection) ref;
|
|
1221
|
IBook inBook = bookSection.getInBook();
|
|
1222
|
assertNotNull(inBook);
|
|
1223
|
assertNotNull(inBook.getAuthorship());
|
|
1224
|
assertEquals("Otto", inBook.getAuthorship().getTitleCache());
|
|
1225
|
assertEquals("Otto: Sp. Pl. 4(6).", inBook.getTitleCache());
|
|
1226
|
assertEquals("Sp. Pl.", inBook.getAbbrevTitle());
|
|
1227
|
assertEquals("4(6)", inBook.getVolume());
|
|
1228
|
assertTrue("Name author and reference author should be the same", name2.getCombinationAuthorship() == name2.getNomenclaturalReference().getAuthorship());
|
|
1229
|
|
|
1230
|
//Article
|
|
1231
|
fullReference = "Abies alba Mill. in Sp. Pl. 4(6): 455. 1987";
|
|
1232
|
INonViralName name3 = parser.parseReferencedName(fullReference, null, rankSpecies);
|
|
1233
|
assertFullRefNameStandard(name3);
|
|
1234
|
name3.setTitleCache(null);
|
|
1235
|
assertEquals(fullReference, name3.getFullTitleCache());
|
|
1236
|
assertFalse(name3.hasProblem());
|
|
1237
|
ref = name3.getNomenclaturalReference();
|
|
1238
|
assertEquals(eu.etaxonomy.cdm.model.reference.ReferenceType.Article, ref.getType());
|
|
1239
|
//Article article = (Article)ref;
|
|
1240
|
IJournal journal = ((IArticle)ref).getInJournal();
|
|
1241
|
assertNotNull(journal);
|
|
1242
|
//assertEquals("Sp. Pl. 4(6)", inBook.getTitleCache());
|
|
1243
|
assertEquals("Sp. Pl.",((Reference) journal).getTitleCache());
|
|
1244
|
assertEquals("Sp. Pl.", journal.getAbbrevTitle());
|
|
1245
|
assertEquals("4(6)",((IArticle)ref).getVolume());
|
|
1246
|
assertTrue("Name author and reference author should be the same", name3.getCombinationAuthorship() == name3.getNomenclaturalReference().getAuthorship());
|
|
1247
|
|
|
1248
|
//Article with volume range
|
|
1249
|
fullReference = "Abies alba Mill. in Sp. Pl. 4(1-2): 455. 1987";
|
|
1250
|
INonViralName name3a = parser.parseReferencedName(fullReference, null, rankSpecies);
|
|
1251
|
name3a.setTitleCache(null);
|
|
1252
|
assertEquals(fullReference, name3a.getFullTitleCache());
|
|
1253
|
assertFalse(name3a.hasProblem());
|
|
1254
|
ref = name3a.getNomenclaturalReference();
|
|
1255
|
assertEquals(eu.etaxonomy.cdm.model.reference.ReferenceType.Article, ref.getType());
|
|
1256
|
assertEquals("4(1-2)",((IArticle)ref).getVolume());
|
|
1257
|
|
|
1258
|
//SoftArticle - having "," on position > 4
|
|
1259
|
String journalTitle = "Bull. Soc. Bot.France. Louis., Roi";
|
|
1260
|
String yearPart = " 1987 - 1989";
|
|
1261
|
String parsedYear = "1987-1989";
|
|
1262
|
String parsedYearFormatted = "1987"+SEP+"1989";
|
|
1263
|
String fullReferenceWithoutYear = "Abies alba Mill. in " + journalTitle + " 4(6): 455.";
|
|
1264
|
fullReference = fullReferenceWithoutYear + yearPart;
|
|
1265
|
String fullReferenceWithEnd = fullReference + ".";
|
|
1266
|
INonViralName name4 = parser.parseReferencedName(fullReferenceWithEnd, null, rankSpecies);
|
|
1267
|
assertFalse(name4.hasProblem());
|
|
1268
|
assertFullRefNameStandard(name4);
|
|
1269
|
assertEquals(fullReferenceWithoutYear + " " + parsedYearFormatted, name4.getFullTitleCache());
|
|
1270
|
ref = name4.getNomenclaturalReference();
|
|
1271
|
assertEquals(ReferenceType.Article, ref.getType());
|
|
1272
|
//article = (Article)ref;
|
|
1273
|
assertEquals(parsedYearFormatted, ref.getYear());
|
|
1274
|
journal = ((IArticle)ref).getInJournal();
|
|
1275
|
assertNotNull(journal);
|
|
1276
|
assertEquals(journalTitle, ((Reference) journal).getTitleCache());
|
|
1277
|
assertEquals(journalTitle, journal.getAbbrevTitle());
|
|
1278
|
assertEquals("4(6)", ((IArticle)ref).getVolume());
|
|
1279
|
|
|
1280
|
//Zoo name
|
|
1281
|
String strNotParsableZoo = "Abies alba M., 1923, Sp. P. xxwer4352, nom. inval.";
|
|
1282
|
IZoologicalName nameZooRefNotParsabel = parser.parseReferencedName(strNotParsableZoo, null, null);
|
|
1283
|
assertTrue(nameZooRefNotParsabel.hasProblem());
|
|
1284
|
List<ParserProblem> list = nameZooRefNotParsabel.getParsingProblems();
|
|
1285
|
assertTrue("List must contain detail and year warning ", list.contains(ParserProblem.CheckDetailOrYear));
|
|
1286
|
assertEquals(21, nameZooRefNotParsabel.getProblemStarts());
|
|
1287
|
assertEquals(37, nameZooRefNotParsabel.getProblemEnds());
|
|
1288
|
assertTrue(nameZooRefNotParsabel.getNomenclaturalReference().hasProblem());
|
|
1289
|
list = nameZooRefNotParsabel.getNomenclaturalReference().getParsingProblems();
|
|
1290
|
assertTrue("List must contain detail and year warning ", list.contains(ParserProblem.CheckDetailOrYear));
|
|
1291
|
|
|
1292
|
assertEquals(NomenclaturalCode.ICZN, nameZooRefNotParsabel.getNameType());
|
|
1293
|
assertEquals(Integer.valueOf(1923), nameZooRefNotParsabel.getPublicationYear());
|
|
1294
|
assertEquals(1, nameZooRefNotParsabel.getStatus().size());
|
|
1295
|
|
|
1296
|
String strZooNameSineYear = "Homo sapiens L., 1758, Sp. An. 3: 345";
|
|
1297
|
IZoologicalName nameZooNameSineYear = parser.parseReferencedName(strZooNameSineYear);
|
|
1298
|
assertFalse(nameZooNameSineYear.hasProblem());
|
|
1299
|
assertEquals("Name without reference year must have year", (Integer)1758, nameZooNameSineYear.getPublicationYear());
|
|
1300
|
assertEquals("Name without reference year must have year", "1758", nameZooNameSineYear.getNomenclaturalReference().getYear());
|
|
1301
|
|
|
1302
|
String strZooNameNewCombination = "Homo sapiens (L., 1758) Mill., 1830, Sp. An. 3: 345";
|
|
1303
|
IZoologicalName nameZooNameNewCombination = parser.parseReferencedName(strZooNameNewCombination);
|
|
1304
|
assertTrue(nameZooNameNewCombination.hasProblem());
|
|
1305
|
list = nameZooNameNewCombination.getParsingProblems();
|
|
1306
|
assertTrue("List must contain new combination has publication warning ", list.contains(ParserProblem.NewCombinationHasPublication));
|
|
1307
|
assertEquals(35, nameZooNameNewCombination.getProblemStarts());
|
|
1308
|
assertEquals(51, nameZooNameNewCombination.getProblemEnds());
|
|
1309
|
|
|
1310
|
//Special MicroRefs
|
|
1311
|
String strSpecDetail1 = "Abies alba Mill. in Sp. Pl. 4(6): [455]. 1987";
|
|
1312
|
INonViralName nameSpecDet1 = parser.parseReferencedName(strSpecDetail1 + ".", null, rankSpecies);
|
|
1313
|
assertFalse(nameSpecDet1.hasProblem());
|
|
1314
|
assertEquals(strSpecDetail1, nameSpecDet1.getFullTitleCache());
|
|
1315
|
assertEquals("[455]", nameSpecDet1.getNomenclaturalMicroReference());
|
|
1316
|
|
|
1317
|
//Special MicroRefs
|
|
1318
|
String strSpecDetail2 = "Abies alba Mill. in Sp. Pl. 4(6): couv. 2. 1987";
|
|
1319
|
INonViralName nameSpecDet2 = parser.parseReferencedName(strSpecDetail2 + ".", null, rankSpecies);
|
|
1320
|
assertFalse(nameSpecDet2.hasProblem());
|
|
1321
|
assertEquals(strSpecDetail2, nameSpecDet2.getFullTitleCache());
|
|
1322
|
assertEquals("couv. 2", nameSpecDet2.getNomenclaturalMicroReference());
|
|
1323
|
|
|
1324
|
//Special MicroRefs
|
|
1325
|
String strSpecDetail3 = "Abies alba Mill. in Sp. Pl. 4(6): fig. 455. 1987";
|
|
1326
|
INonViralName nameSpecDet3 = parser.parseReferencedName(strSpecDetail3 + ".", null, rankSpecies);
|
|
1327
|
assertFalse(nameSpecDet3.hasProblem());
|
|
1328
|
assertEquals(strSpecDetail3, nameSpecDet3.getFullTitleCache());
|
|
1329
|
assertEquals("fig. 455", nameSpecDet3.getNomenclaturalMicroReference());
|
|
1330
|
|
|
1331
|
//Special MicroRefs
|
|
1332
|
String strSpecDetail4 = "Abies alba Mill. in Sp. Pl. 4(6): fig. 455-567. 1987";
|
|
1333
|
fullReference = strSpecDetail4 + ".";
|
|
1334
|
INonViralName nameSpecDet4 = parser.parseReferencedName(fullReference, null, rankSpecies);
|
|
1335
|
assertFalse(nameSpecDet4.hasProblem());
|
|
1336
|
assertEquals(strSpecDetail4, nameSpecDet4.getFullTitleCache());
|
|
1337
|
assertEquals("fig. 455-567", nameSpecDet4.getNomenclaturalMicroReference());
|
|
1338
|
|
|
1339
|
//Special MicroRefs
|
|
1340
|
String strSpecDetail5 = "Abies alba Mill. in Sp. Pl. 4(6): Gard n\u00B0 4. 1987";
|
|
1341
|
fullReference = strSpecDetail5 + ".";
|
|
1342
|
INonViralName nameSpecDet5 = parser.parseReferencedName(fullReference, null, rankSpecies);
|
|
1343
|
assertFalse(nameSpecDet5.hasProblem());
|
|
1344
|
assertEquals(strSpecDetail5, nameSpecDet5.getFullTitleCache());
|
|
1345
|
assertEquals("Gard n\u00B0 4", nameSpecDet5.getNomenclaturalMicroReference());
|
|
1346
|
|
|
1347
|
//Special MicroRefs
|
|
1348
|
String strSpecDetail6 = "Abies alba Mill. in Sp. Pl. 4(6): 455a. 1987";
|
|
1349
|
fullReference = strSpecDetail6 + ".";
|
|
1350
|
INonViralName nameSpecDet6 = parser.parseReferencedName(fullReference, null, rankSpecies);
|
|
1351
|
assertFalse(nameSpecDet6.hasProblem());
|
|
1352
|
assertEquals(strSpecDetail6, nameSpecDet6.getFullTitleCache());
|
|
1353
|
assertEquals("455a", nameSpecDet6.getNomenclaturalMicroReference());
|
|
1354
|
|
|
1355
|
//Special MicroRefs
|
|
1356
|
String strSpecDetail7 = "Abies alba Mill. in Sp. Pl. 4(6): pp.455-457. 1987";
|
|
1357
|
fullReference = strSpecDetail7 + ".";
|
|
1358
|
INonViralName nameSpecDet7 = parser.parseReferencedName(fullReference, null, rankSpecies);
|
|
1359
|
assertFalse(nameSpecDet7.hasProblem());
|
|
1360
|
assertEquals(strSpecDetail7, nameSpecDet7.getFullTitleCache());
|
|
1361
|
assertEquals("pp.455-457", nameSpecDet7.getNomenclaturalMicroReference());
|
|
1362
|
|
|
1363
|
//Special MicroRefs
|
|
1364
|
String strSpecDetail8 = "Abies alba Mill. in Sp. Pl. 4(6): ppp.455-457. 1987";
|
|
1365
|
INonViralName nameSpecDet8 = parser.parseReferencedName(strSpecDetail8, null, rankSpecies);
|
|
1366
|
assertTrue(nameSpecDet8.hasProblem());
|
|
1367
|
assertEquals(20, nameSpecDet8.getProblemStarts()); //TODO better start behind :
|
|
1368
|
assertEquals(51, nameSpecDet8.getProblemEnds()); //TODO better stop after -457
|
|
1369
|
|
|
1370
|
|
|
1371
|
//Special MicroRefs
|
|
1372
|
String strSpecDetail9 = "Abies alba Mill. in Sp. Pl. 4(6): pp. 455 - 457. 1987";
|
|
1373
|
INonViralName nameSpecDet9 = parser.parseReferencedName(strSpecDetail9, null, rankSpecies);
|
|
1374
|
assertFalse(nameSpecDet9.hasProblem());
|
|
1375
|
assertEquals(strSpecDetail9, nameSpecDet9.getFullTitleCache());
|
|
1376
|
assertEquals("pp. 455 - 457", nameSpecDet9.getNomenclaturalMicroReference());
|
|
1377
|
|
|
1378
|
//Special MicroRefs
|
|
1379
|
String strSpecDetail10 = "Abies alba Mill. in Sp. Pl. 4(6): p 455. 1987";
|
|
1380
|
INonViralName nameSpecDet10 = parser.parseReferencedName(strSpecDetail10, null, rankSpecies);
|
|
1381
|
assertFalse(nameSpecDet10.hasProblem());
|
|
1382
|
assertEquals(strSpecDetail10, nameSpecDet10.getFullTitleCache());
|
|
1383
|
assertEquals("p 455", nameSpecDet10.getNomenclaturalMicroReference());
|
|
1384
|
|
|
1385
|
//Special MicroRefs
|
|
1386
|
String strSpecDetail11 = "Abies alba Mill. in Sp. Pl. 4(6): p. 455 - 457. 1987";
|
|
1387
|
INonViralName nameSpecDet11 = parser.parseReferencedName(strSpecDetail11, null, rankSpecies);
|
|
1388
|
assertTrue(nameSpecDet11.hasProblem());
|
|
1389
|
list = nameSpecDet11.getParsingProblems();
|
|
1390
|
assertTrue("Problem is Detail. Must be pp.", list.contains(ParserProblem.CheckDetailOrYear));
|
|
1391
|
assertEquals(20, nameSpecDet8.getProblemStarts()); //TODO better start behind :
|
|
1392
|
assertEquals(51, nameSpecDet8.getProblemEnds()); //TODO better stop after - 457
|
|
1393
|
|
|
1394
|
|
|
1395
|
//no volume, no edition
|
|
1396
|
String strNoVolume = "Abies alba Mill., Sp. Pl.: 455. 1987";
|
|
1397
|
INonViralName nameNoVolume = parser.parseReferencedName(strNoVolume, null, rankSpecies);
|
|
1398
|
assertFalse(nameNoVolume.hasProblem());
|
|
1399
|
assertEquals(strNoVolume, nameNoVolume.getFullTitleCache());
|
|
1400
|
assertEquals(null, ((IVolumeReference)(nameNoVolume.getNomenclaturalReference())).getVolume());
|
|
1401
|
assertEquals(null, ((IBook)nameNoVolume.getNomenclaturalReference()).getEdition());
|
|
1402
|
|
|
1403
|
//volume, no edition
|
|
1404
|
strNoVolume = "Abies alba Mill., Sp. Pl. 2: 455. 1987";
|
|
1405
|
nameNoVolume = parser.parseReferencedName(strNoVolume, null, rankSpecies);
|
|
1406
|
assertFalse(nameNoVolume.hasProblem());
|
|
1407
|
assertEquals(strNoVolume, nameNoVolume.getFullTitleCache());
|
|
1408
|
assertEquals("2", ((IVolumeReference)(nameNoVolume.getNomenclaturalReference())).getVolume());
|
|
1409
|
assertEquals(null, ((IBook)(nameNoVolume.getNomenclaturalReference())).getEdition());
|
|
1410
|
|
|
1411
|
//no volume, edition
|
|
1412
|
strNoVolume = "Abies alba Mill., Sp. Pl., ed. 3: 455. 1987";
|
|
1413
|
nameNoVolume = parser.parseReferencedName(strNoVolume, null, rankSpecies);
|
|
1414
|
assertFalse(nameNoVolume.hasProblem());
|
|
1415
|
assertEquals(strNoVolume, nameNoVolume.getFullTitleCache());
|
|
1416
|
assertEquals(null, ((IVolumeReference)(nameNoVolume.getNomenclaturalReference())).getVolume());
|
|
1417
|
assertEquals("3", ((IBook)(nameNoVolume.getNomenclaturalReference())).getEdition());
|
|
1418
|
|
|
1419
|
//volume, edition
|
|
1420
|
strNoVolume = "Abies alba Mill., Sp. Pl. ed. 3, 4(5): 455. 1987";
|
|
1421
|
nameNoVolume = parser.parseReferencedName(strNoVolume, null, rankSpecies);
|
|
1422
|
assertFalse(nameNoVolume.hasProblem());
|
|
1423
|
assertEquals(strNoVolume.replace(" ed.", ", ed."), nameNoVolume.getFullTitleCache());
|
|
1424
|
assertEquals("4(5)", ((IVolumeReference)(nameNoVolume.getNomenclaturalReference())).getVolume());
|
|
1425
|
assertEquals("3", ((IBook)(nameNoVolume.getNomenclaturalReference())).getEdition());
|
|
1426
|
|
|
1427
|
String strUnparsableInRef = "Abies alba Mill. in -er46: 455. 1987";
|
|
1428
|
INonViralName nameUnparsableInRef = parser.parseReferencedName(strUnparsableInRef, null, rankSpecies);
|
|
1429
|
assertTrue(nameUnparsableInRef.hasProblem());
|
|
1430
|
list = nameUnparsableInRef.getParsingProblems();
|
|
1431
|
assertTrue("Unparsable title", list.contains(ParserProblem.UnparsableReferenceTitle));
|
|
1432
|
assertEquals(strUnparsableInRef, nameUnparsableInRef.getFullTitleCache());
|
|
1433
|
assertEquals(20, nameUnparsableInRef.getProblemStarts());
|
|
1434
|
assertEquals(25, nameUnparsableInRef.getProblemEnds());
|
|
1435
|
|
|
1436
|
|
|
1437
|
//volume, edition
|
|
1438
|
String strNoSeparator = "Abies alba Mill. Sp. Pl. ed. 3, 4(5): 455. 1987";
|
|
1439
|
INonViralName nameNoSeparator = parser.parseReferencedName(strNoSeparator, ICNAFP, rankSpecies);
|
|
1440
|
assertTrue(nameNoSeparator.hasProblem());
|
|
1441
|
list = nameNoSeparator.getParsingProblems();
|
|
1442
|
assertTrue("Problem is missing name-reference separator", list.contains(ParserProblem.NameReferenceSeparation));
|
|
1443
|
assertEquals(strNoSeparator, nameNoSeparator.getFullTitleCache());
|
|
1444
|
assertEquals(10, nameNoSeparator.getProblemStarts()); //TODO better start behind Mill. (?)
|
|
1445
|
assertEquals(47, nameNoSeparator.getProblemEnds()); //TODO better stop before :
|
|
1446
|
|
|
1447
|
String strUnparsableInRef2 = "Hieracium pepsicum L., My Bookkkk 1. 1903";
|
|
1448
|
INonViralName nameUnparsableInRef2 = parser.parseReferencedName(strUnparsableInRef2, null, rankSpecies);
|
|
1449
|
assertTrue(nameUnparsableInRef2.hasProblem());
|
|
1450
|
list = nameUnparsableInRef2.getParsingProblems();
|
|
1451
|
assertTrue("Problem detail", list.contains(ParserProblem.CheckDetailOrYear));
|
|
1452
|
assertEquals(strUnparsableInRef2, nameUnparsableInRef2.getFullTitleCache());
|
|
1453
|
assertEquals(23, nameUnparsableInRef2.getProblemStarts());
|
|
1454
|
assertEquals(41, nameUnparsableInRef2.getProblemEnds());
|
|
1455
|
|
|
1456
|
|
|
1457
|
String strUnparsableInRef3 = "Hieracium pespcim N., My Bookkkk 1. 1902";
|
|
1458
|
INonViralName nameUnparsableInRef3 = parser.parseReferencedName(strUnparsableInRef3, null, null);
|
|
1459
|
assertTrue(nameUnparsableInRef3.hasProblem());
|
|
1460
|
list = nameUnparsableInRef3.getParsingProblems();
|
|
1461
|
assertTrue("Problem detail", list.contains(ParserProblem.CheckDetailOrYear));
|
|
1462
|
assertEquals(strUnparsableInRef3, nameUnparsableInRef3.getFullTitleCache());
|
|
1463
|
assertEquals(22, nameUnparsableInRef3.getProblemStarts());
|
|
1464
|
assertEquals(40, nameUnparsableInRef3.getProblemEnds());
|
|
1465
|
|
|
1466
|
String strUnparsableInRef4 = "Hieracium pepsicum (Hsllreterto) L., My Bookkkk 1. 1903";
|
|
1467
|
INonViralName nameUnparsableInRef4 = parser.parseReferencedName(strUnparsableInRef4, null, null);
|
|
1468
|
assertTrue(nameUnparsableInRef4.hasProblem());
|
|
1469
|
list = nameUnparsableInRef4.getParsingProblems();
|
|
1470
|
assertTrue("Problem detail", list.contains(ParserProblem.CheckDetailOrYear));
|
|
1471
|
assertEquals(strUnparsableInRef4, nameUnparsableInRef4.getFullTitleCache());
|
|
1472
|
assertEquals(37, nameUnparsableInRef4.getProblemStarts());
|
|
1473
|
assertEquals(55, nameUnparsableInRef4.getProblemEnds());
|
|
1474
|
|
|
1475
|
String strSameName = "Hieracium pepcum (Hsllreterto) L., My Bokkk 1. 1903";
|
|
1476
|
INonViralName nameSameName = nameUnparsableInRef4;
|
|
1477
|
parser.parseReferencedName(nameSameName, strSameName, null, true);
|
|
1478
|
assertTrue(nameSameName.hasProblem());
|
|
1479
|
list = nameSameName.getParsingProblems();
|
|
1480
|
assertTrue("Problem detail", list.contains(ParserProblem.CheckDetailOrYear));
|
|
1481
|
assertEquals(strSameName, nameSameName.getFullTitleCache());
|
|
1482
|
assertEquals(35, nameSameName.getProblemStarts());
|
|
1483
|
assertEquals(51, nameSameName.getProblemEnds());
|
|
1484
|
|
|
1485
|
String strGenusUnparse = "Hieracium L., jlklk";
|
|
1486
|
INonViralName nameGenusUnparse =
|
|
1487
|
parser.parseReferencedName(strGenusUnparse, null, null);
|
|
1488
|
assertTrue(nameGenusUnparse.hasProblem());
|
|
1489
|
list = nameGenusUnparse.getParsingProblems();
|
|
1490
|
assertTrue("Problem detail", list.contains(ParserProblem.CheckDetailOrYear));
|
|
1491
|
assertTrue("Problem uninomial", list.contains(ParserProblem.CheckRank));
|
|
1492
|
assertEquals(strGenusUnparse, nameGenusUnparse.getFullTitleCache());
|
|
1493
|
assertEquals(0, nameGenusUnparse.getProblemStarts());
|
|
1494
|
assertEquals(19, nameGenusUnparse.getProblemEnds());
|
|
1495
|
|
|
1496
|
String strGenusUnparse2 = "Hieracium L., Per Luigi: 44. 1987";
|
|
1497
|
INonViralName nameGenusUnparse2 =
|
|
1498
|
parser.parseReferencedName(strGenusUnparse2, null, Rank.FAMILY());
|
|
1499
|
assertFalse(nameGenusUnparse2.hasProblem());
|
|
1500
|
assertEquals(strGenusUnparse2, nameGenusUnparse2.getFullTitleCache());
|
|
1501
|
assertEquals(-1, nameGenusUnparse2.getProblemStarts());
|
|
1502
|
assertEquals(-1, nameGenusUnparse2.getProblemEnds());
|
|
1503
|
|
|
1504
|
String strBookSection2 = "Hieracium vulgatum subsp. acuminatum (Jord.) Zahn in Schinz & Keller, Fl. Schweiz, ed. 2, 2: 288. 1905-1907";
|
|
1505
|
String strBookSection2NoComma = "Hieracium vulgatum subsp. acuminatum (Jord.) Zahn in Schinz & Keller, Fl. Schweiz ed. 2, 2: 288. 1905-1907";
|
|
1506
|
INonViralName nameBookSection2 =
|
|
1507
|
parser.parseReferencedName(strBookSection2, null, null);
|
|
1508
|
assertFalse(nameBookSection2.hasProblem());
|
|
1509
|
nameBookSection2.setFullTitleCache(null, false);
|
|
1510
|
assertEquals(strBookSection2NoComma.replace(" ed.", ", ed.").replace("-",SEP), nameBookSection2.getFullTitleCache());
|
|
1511
|
assertEquals(-1, nameBookSection2.getProblemStarts());
|
|
1512
|
assertEquals(-1, nameBookSection2.getProblemEnds());
|
|
1513
|
assertNull((nameBookSection2.getNomenclaturalReference()).getDatePublished().getStart());
|
|
1514
|
assertEquals("1905"+SEP+"1907", ((IBookSection)nameBookSection2.getNomenclaturalReference()).getInBook().getDatePublished().getYear());
|
|
1515
|
|
|
1516
|
String strBookSection = "Hieracium vulgatum subsp. acuminatum (Jord.) Zahn in Schinz & Keller, Fl. Schweiz ed. 2, 2: 288. 1905";
|
|
1517
|
INonViralName nameBookSection =
|
|
1518
|
parser.parseReferencedName(strBookSection, null, null);
|
|
1519
|
assertFalse(nameBookSection.hasProblem());
|
|
1520
|
assertEquals(strBookSection.replace(" ed.", ", ed."), nameBookSection.getFullTitleCache());
|
|
1521
|
assertEquals(-1, nameBookSection.getProblemStarts());
|
|
1522
|
assertEquals(-1, nameBookSection.getProblemEnds());
|
|
1523
|
assertNull(((IBookSection)nameBookSection.getNomenclaturalReference()).getInBook().getDatePublished().getStart());
|
|
1524
|
assertEquals("1905", ((IBookSection)nameBookSection.getNomenclaturalReference()).getDatePublished().getYear());
|
|
1525
|
|
|
1526
|
String strXXXs = "Abies alba, Soer der 1987";
|
|
1527
|
INonViralName problemName = parser.parseReferencedName(strXXXs, null, null);
|
|
1528
|
assertTrue(problemName.hasProblem());
|
|
1529
|
list = problemName.getParsingProblems();
|
|
1530
|
assertTrue("Problem must be name-reference separation", list.contains(ParserProblem.NameReferenceSeparation));
|
|
1531
|
parser.parseReferencedName(problemName, strBookSection, null, true);
|
|
1532
|
assertFalse(problemName.hasProblem());
|
|
1533
|
|
|
1534
|
problemName = parser.parseFullName(strXXXs, null, null);
|
|
1535
|
assertTrue(problemName.hasProblem());
|
|
1536
|
list = problemName.getParsingProblems();
|
|
1537
|
assertTrue("Name part must be unparsable", list.contains(ParserProblem.UnparsableNamePart));
|
|
1538
|
|
|
1539
|
|
|
1540
|
String testParsable = "Pithecellobium macrostachyum Benth.";
|
|
1541
|
assertTrue(isParsable(testParsable, ICNAFP));
|
|
1542
|
|
|
1543
|
testParsable = "Pithecellobium macrostachyum (Benth.)";
|
|
1544
|
assertTrue(isParsable(testParsable, ICNAFP));
|
|
1545
|
|
|
1546
|
testParsable = "Pithecellobium macrostachyum (Benth., 1845)";
|
|
1547
|
assertTrue(isParsable(testParsable, NomenclaturalCode.ICZN));
|
|
1548
|
|
|
1549
|
testParsable = "Pithecellobium macrostachyum L., Sp. Pl. 3: n\u00B0 123. 1753."; //00B0 is degree character
|
|
1550
|
assertTrue(isParsable(testParsable, ICNAFP));
|
|
1551
|
|
|
1552
|
testParsable = "Hieracium lachenalii subsp. acuminatum (Jord.) Zahn in Hegi, Ill. Fl. Mitt.-Eur. 6: 1285. 1929";
|
|
1553
|
assertTrue("Reference title should support special characters as separators like - and &", isParsable(testParsable, ICNAFP));
|
|
1554
|
|
|
1555
|
testParsable = "Hieracium lachenalii subsp. acuminatum (Jord.) Zahn in Hegi, Ill. Fl. Mitt.&Eur. 6: 1285. 1929";
|
|
1556
|
assertTrue("Reference title should support special characters as separators like - and &", isParsable(testParsable, ICNAFP));
|
|
1557
|
|
|
1558
|
testParsable = "Hieracium lachenalii subsp. acuminatum (Jord.) Zahn in Hegi, Ill. Fl. Mitt.-Eur.& 6: 1285. 1929";
|
|
1559
|
assertFalse("Reference title should not support special characters like - and & at the end of the title", isParsable(testParsable, ICNAFP));
|
|
1560
|
assertTrue("Problem must be reference title", getProblems(testParsable, ICNAFP).
|
|
1561
|
contains(ParserProblem.UnparsableReferenceTitle));
|
|
1562
|
|
|
1563
|
testParsable = "Hieracium lachenalii subsp. acuminatum (Jord.) Zahn in Hegi, Ill. Fl. Mitt.:Eur. 6: 1285. 1929";
|
|
1564
|
assertFalse("Reference title should not support detail separator", isParsable(testParsable, ICNAFP));
|
|
1565
|
assertTrue("Problem must be reference title", getProblems(testParsable, ICNAFP).
|
|
1566
|
contains(ParserProblem.UnparsableReferenceTitle));
|
|
1567
|
|
|
1568
|
testParsable = "Hieracium lachenalii subsp. acuminatum (Jord.) Zahn in Hegi, Ill. Fl. (Mitt.) 6: 1285. 1929";
|
|
1569
|
assertTrue("Reference title should support brackets", isParsable(testParsable, ICNAFP));
|
|
1570
|
|
|
1571
|
testParsable = "Hieracium lachenalii subsp. acuminatum (Jord.) Zahn in Hegi, Ill. Fl. (Mitt.) 6: 1285. 1929";
|
|
1572
|
assertTrue("Reference title should support brackets", isParsable(testParsable, ICNAFP));
|
|
1573
|
|
|
1574
|
testParsable = "Hieracium lachenalii Zahn, nom. illeg.";
|
|
1575
|
assertTrue("Reference should not be obligatory if a nom status exist", isParsable(testParsable, ICNAFP));
|
|
1576
|
|
|
1577
|
testParsable = "Hieracium lachenalii, nom. illeg.";
|
|
1578
|
assertTrue("Authorship should not be obligatory if followed by nom status", isParsable(testParsable, ICNAFP));
|
|
1579
|
|
|
1580
|
testParsable = "Hieracium lachenalii, Ill. Fl. (Mitt.) 6: 1285. 1929";
|
|
1581
|
assertFalse("Author is obligatory if followed by reference", isParsable(testParsable, ICNAFP));
|
|
1582
|
assertTrue("Problem must be name-reference separation", getProblems(testParsable, ICNAFP).
|
|
1583
|
contains(ParserProblem.NameReferenceSeparation));
|
|
1584
|
|
|
1585
|
testParsable = "Hieracium lachenalii in Hegi, Ill. Fl. (Mitt.) 6: 1285. 1929";
|
|
1586
|
assertFalse("Author is obligatory if followed by reference", isParsable(testParsable, ICNAFP));
|
|
1587
|
assertTrue("Problem must be name-reference separation", getProblems(testParsable, ICNAFP).
|
|
1588
|
contains(ParserProblem.NameReferenceSeparation));
|
|
1589
|
|
|
1590
|
testParsable = "Abies alba Mill. var. alba";
|
|
1591
|
assertTrue("Autonym problem", isParsable(testParsable, ICNAFP));
|
|
1592
|
|
|
1593
|
testParsable = "Scleroblitum abc Ulbr. in Engler & Prantl, Nat. Pflanzenfam., ed. 2, 16c: 495. 1934.";
|
|
1594
|
assertTrue("Volume with subdivision", isParsable(testParsable, ICNAFP));
|
|
1595
|
|
|
1596
|
|
|
1597
|
testParsable = "Hieracium antarcticum d'Urv. in M\u00E9m. Soc. Linn. Paris 4: 608. 1826";
|
|
1598
|
// testParsable = "Hieracium antarcticum Urv. in M\u00E9m. Soc. Linn. Paris 4: 608. 1826";
|
|
1599
|
assertTrue("Name with apostrophe is not parsable", isParsable(testParsable, ICNAFP));
|
|
1600
|
|
|
1601
|
testParsable = "Cichorium intybus subsp. glaucum (Hoffmanns. & Link) Tzvelev in Komarov, Fl. SSSR 29: 17. 1964";
|
|
1602
|
assertTrue("Reference containing a word in uppercase is not parsable", isParsable(testParsable, ICNAFP));
|
|
1603
|
|
|
1604
|
|
|
1605
|
}
|
|
1606
|
|
|
1607
|
|
|
1608
|
/**
|
|
1609
|
* Test author with name parts van, von, de, de la, d', da, del.
|
|
1610
|
* See also https://dev.e-taxonomy.eu/redmine/issues/3373
|
|
1611
|
*/
|
|
1612
|
@Test
|
|
1613
|
public final void testComposedAuthorNames(){
|
|
1614
|
|
|
1615
|
//van author (see https://dev.e-taxonomy.eu/redmine/issues/3373)
|
|
1616
|
String testParsable = "Aphelocoma unicolor subsp. griscomi van Rossem, 1928";
|
|
1617
|
assertTrue("Author with 'van' should be parsable", isParsable(testParsable, ICZN));
|
|
1618
|
|
|
1619
|
//von author (see https://dev.e-taxonomy.eu/redmine/issues/3373)
|
|
1620
|
testParsable = "Aphelocoma unicolor subsp. griscomi von Rossem, 1928";
|
|
1621
|
assertTrue("Author with 'von' should be parsable", isParsable(testParsable, ICZN));
|
|
1622
|
|
|
1623
|
//de author (see https://dev.e-taxonomy.eu/redmine/issues/3373)
|
|
1624
|
testParsable = "Aphelocoma unicolor subsp. griscomi de Rossem, 1928";
|
|
1625
|
assertTrue("Author with 'de' should be parsable", isParsable(testParsable, ICZN));
|
|
1626
|
|
|
1627
|
//de la author (see https://dev.e-taxonomy.eu/redmine/issues/3373)
|
|
1628
|
testParsable = "Aphelocoma unicolor subsp. griscomi de la Rossem, 1928";
|
|
1629
|
assertTrue("Author with 'de la' should be parsable", isParsable(testParsable, ICZN));
|
|
1630
|
|
|
1631
|
//d' author (see https://dev.e-taxonomy.eu/redmine/issues/3373)
|
|
1632
|
testParsable = "Aphelocoma unicolor subsp. griscomi d'Rossem, 1928";
|
|
1633
|
assertTrue("Author with \"'d'\" should be parsable", isParsable(testParsable, ICZN));
|
|
1634
|
|
|
1635
|
//da author (see https://dev.e-taxonomy.eu/redmine/issues/3373)
|
|
1636
|
testParsable = "Aphelocoma unicolor subsp. griscomi da Rossem, 1928";
|
|
1637
|
assertTrue("Author with 'da' should be parsable", isParsable(testParsable, ICZN));
|
|
1638
|
|
|
1639
|
//del author (see https://dev.e-taxonomy.eu/redmine/issues/3373)
|
|
1640
|
testParsable = "Aphelocoma unicolor subsp. griscomi del Rossem, 1928";
|
|
1641
|
assertTrue("Author with 'del' should be parsable", isParsable(testParsable, ICZN));
|
|
1642
|
|
|
1643
|
//O' author (see https://dev.e-taxonomy.eu/redmine/issues/4759)
|
|
1644
|
testParsable = "Aphelocoma unicolor subsp. griscomi O'Connor, 1928";
|
|
1645
|
assertTrue("Author with 'O'' should be parsable", isParsable(testParsable, ICZN));
|
|
1646
|
|
|
1647
|
//del author (see https://dev.e-taxonomy.eu/redmine/issues/4759)
|
|
1648
|
testParsable = "Aphelocoma unicolor subsp. griscomi zur Strassen, 1928";
|
|
1649
|
assertTrue("Author with 'zur' should be parsable", isParsable(testParsable, ICZN));
|
|
1650
|
|
|
1651
|
}
|
|
1652
|
|
|
1653
|
|
|
1654
|
|
|
1655
|
/**
|
|
1656
|
* @param testParsable
|
|
1657
|
* @param icbn
|
|
1658
|
* @return
|
|
1659
|
*/
|
|
1660
|
private List<ParserProblem> getProblems(String string, NomenclaturalCode code) {
|
|
1661
|
List<ParserProblem> result = parser.parseReferencedName(string, code, null).getParsingProblems();
|
|
1662
|
return result;
|
|
1663
|
}
|
|
1664
|
|
|
1665
|
private boolean isParsable(String string, NomenclaturalCode code){
|
|
1666
|
INonViralName name = parser.parseReferencedName(string, code, null);
|
|
1667
|
return ! name.hasProblem();
|
|
1668
|
}
|
|
1669
|
|
|
1670
|
private void assertFullRefNameStandard(INonViralName name){
|
|
1671
|
assertEquals("Abies", name.getGenusOrUninomial());
|
|
1672
|
assertEquals("alba", name.getSpecificEpithet());
|
|
1673
|
assertEquals("Mill.", name.getAuthorshipCache());
|
|
1674
|
assertEquals("455", name.getNomenclaturalMicroReference());
|
|
1675
|
assertNotNull(name.getNomenclaturalReference());
|
|
1676
|
}
|
|
1677
|
|
|
1678
|
private void assertFullRefStandard(INonViralName name){
|
|
1679
|
assertEquals("Abies", name.getGenusOrUninomial());
|
|
1680
|
assertEquals("alba", name.getSpecificEpithet());
|
|
1681
|
assertEquals("Mill.", name.getAuthorshipCache());
|
|
1682
|
assertEquals("455", name.getNomenclaturalMicroReference());
|
|
1683
|
assertNotNull(name.getNomenclaturalReference());
|
|
1684
|
INomenclaturalReference ref = name.getNomenclaturalReference();
|
|
1685
|
assertEquals("1987", ref.getYear());
|
|
1686
|
assertEquals("Sp. Pl.", ref.getAbbrevTitle());
|
|
1687
|
}
|
|
1688
|
|
|
1689
|
|
|
1690
|
@Test
|
|
1691
|
public void testNeverEndingParsing(){
|
|
1692
|
//some full titles result in never ending parsing process https://dev.e-taxonomy.eu/redmine/issues/1556
|
|
1693
|
|
|
1694
|
String irinaExample = "Milichiidae Sharp, 1899, Insects. Part II. Hymenopteracontinued (Tubulifera and Aculeata), Coleoptera, Strepsiptera, Lepidoptera, Diptera, Aphaniptera, Thysanoptera, Hemiptera, Anoplura 6: 504. 1899";
|
|
1695
|
// irinaExample = "Milichiidae Sharp, 1899, Insects. Part II. Uiuis Iuiui Hymenopteracontinued (Tubulifera and Aculeata), Coleoptera, Strepsiptera, Lepidoptera, Diptera, Aphaniptera, Thysanoptera, Hemiptera, Anoplura 6: 504. 1899";
|
|
1696
|
INonViralName nvn = this.parser.parseReferencedName(irinaExample, NomenclaturalCode.ICZN, null);
|
|
1697
|
int parsingProblem = nvn.getParsingProblem();
|
|
1698
|
Assert.assertEquals("Name should have only rank warning", 1, parsingProblem);
|
|
1699
|
Assert.assertEquals("Titlecache", "Milichiidae Sharp, 1899", nvn.getTitleCache());
|
|
1700
|
Assert.assertEquals("If this line reached everything should be ok", "Milichiidae", nvn.getGenusOrUninomial());
|
|
1701
|
|
|
1702
|
String anotherExample = "Scorzonera hispanica var. brevifolia Boiss. & Balansa in Boissier, Diagn. Pl. Orient., ser. 2 6: 119. 1859.";
|
|
1703
|
nvn = this.parser.parseReferencedName(anotherExample, ICNAFP, null);
|
|
1704
|
parsingProblem = nvn.getParsingProblem();
|
|
1705
|
Assert.assertEquals("Problem should be 0", 0, parsingProblem);
|
|
1706
|
Assert.assertEquals("Titlecache", "Scorzonera hispanica var. brevifolia Boiss. & Balansa", nvn.getTitleCache());
|
|
1707
|
Assert.assertEquals("If this line reached everything should be ok", "Scorzonera", nvn.getGenusOrUninomial());
|
|
1708
|
|
|
1709
|
String unparsable = "Taraxacum nevskii L., Trudy Bot. Inst. Nauk S.S.S.R., Ser. 1, Fl. Sist. Vyssh. Rast. 4: 293. 1937.";
|
|
1710
|
// String unparsableA = "Taraxacum nevskii L. in Trudy Bot. Inst. Nauk: 293. 1937.";
|
|
1711
|
nvn = this.parser.parseReferencedName(unparsable, ICNAFP, null);
|
|
1712
|
Assert.assertEquals("Titlecache", "Taraxacum nevskii L.", nvn.getTitleCache());
|
|
1713
|
Assert.assertEquals("If this line reached everything should be ok", "Taraxacum", nvn.getGenusOrUninomial());
|
|
1714
|
parsingProblem = nvn.getParsingProblem();
|
|
1715
|
Assert.assertEquals("Name should no warnings or errors", 0, parsingProblem);
|
|
1716
|
|
|
1717
|
String unparsable2 = "Hieracium pxxx Dahlst., Kongl. Svenska Vetensk. Acad. Handl. ser. 2, 26(3): 255. 1894";
|
|
1718
|
// String unparsable2A = "Hieracium pxxx Dahlst., Kongl Svenska Vetensk Acad Handl, 26: 255. 1894.";
|
|
1719
|
nvn = this.parser.parseReferencedName(unparsable2, ICNAFP, null);
|
|
1720
|
Assert.assertEquals("Titlecache", "Hieracium pxxx Dahlst.", nvn.getTitleCache());
|
|
1721
|
Assert.assertEquals("If this line reached everything should be ok", "Hieracium", nvn.getGenusOrUninomial());
|
|
1722
|
parsingProblem = nvn.getParsingProblem();
|
|
1723
|
Assert.assertEquals("Name should no warnings or errors", 0, parsingProblem);
|
|
1724
|
|
|
1725
|
|
|
1726
|
String again = "Adiantum emarginatum Bory ex. Willd., Species Plantarum, ed. 4,5,1: 449,450. 1810";
|
|
1727
|
nvn = this.parser.parseReferencedName(again, ICNAFP, null);
|
|
1728
|
Assert.assertEquals("Titlecache", "Adiantum emarginatum Bory ex Willd.", nvn.getTitleCache());
|
|
1729
|
Assert.assertEquals("If this line reached everything should be ok", "Adiantum", nvn.getGenusOrUninomial());
|
|
1730
|
|
|
1731
|
}
|
|
1732
|
|
|
1733
|
|
|
1734
|
@Test
|
|
1735
|
public final void testSeries(){
|
|
1736
|
String parseStr = "Mazus pumilus (Burm.f.) Steenis in Nova Guinea, n.s., 9: 31. 1958";
|
|
1737
|
INonViralName name = parser.parseReferencedName(parseStr);
|
|
1738
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1739
|
Reference nomRef = name.getNomenclaturalReference();
|
|
1740
|
Assert.assertFalse("Reference should be parsable", nomRef.isProtectedTitleCache());
|
|
1741
|
|
|
1742
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
1743
|
assertEquals(name.getNomenclaturalMicroReference(), "31");
|
|
1744
|
assertEquals("Nova Guinea", nomRef.getInJournal().getAbbrevTitle());
|
|
1745
|
assertEquals("n.s.", nomRef.getSeriesPart());
|
|
1746
|
}
|
|
1747
|
|
|
1748
|
@Test
|
|
1749
|
@Ignore
|
|
1750
|
public final void testRussian(){
|
|
1751
|
String parseStr = "Cortusa turkestanica Losinsk. in Тр. Бот. инст. Aкад. наук СССР, сер. 1, 3: 239. 1936";
|
|
1752
|
INonViralName name = parser.parseReferencedName(parseStr);
|
|
1753
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1754
|
Reference nomRef = name.getNomenclaturalReference();
|
|
1755
|
Assert.assertFalse("Reference should be parsable", nomRef.isProtectedTitleCache());
|
|
1756
|
|
|
1757
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
1758
|
assertEquals(name.getNomenclaturalMicroReference(), "239");
|
|
1759
|
assertEquals("Тр. Бот. инст. Aкад. наук СССР", nomRef.getInJournal().getAbbrevTitle());
|
|
1760
|
assertEquals("сер. 1", nomRef.getSeriesPart());
|
|
1761
|
}
|
|
1762
|
|
|
1763
|
@Test
|
|
1764
|
public final void testDetails(){
|
|
1765
|
//s.p.
|
|
1766
|
String parseStr = "Xiphion filifolium var. latifolium Baker, Gard. Chron. 1876: s.p.. 1876";
|
|
1767
|
INonViralName name = parser.parseReferencedName(parseStr);
|
|
1768
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1769
|
Reference nomRef = name.getNomenclaturalReference();
|
|
1770
|
assertEquals(ReferenceType.Book, nomRef.getType());
|
|
1771
|
assertEquals(name.getNomenclaturalMicroReference(), "s.p.");
|
|
1772
|
|
|
1773
|
//roman
|
|
1774
|
parseStr = "Ophrys lutea subsp. pseudospeculum (DC.) Kergu\u00e9len, Collect. Partim. Nat. 8: xv. 1993";
|
|
1775
|
name = parser.parseReferencedName(parseStr);
|
|
1776
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1777
|
nomRef = name.getNomenclaturalReference();
|
|
1778
|
assertEquals(ReferenceType.Book, nomRef.getType());
|
|
1779
|
assertEquals(name.getNomenclaturalMicroReference(), "xv");
|
|
1780
|
|
|
1781
|
//n. 1
|
|
1782
|
parseStr = "Olea gallica Mill., Gard. Dict. ed. 8: n. 1. 1768";
|
|
1783
|
name = parser.parseReferencedName(parseStr);
|
|
1784
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1785
|
nomRef = name.getNomenclaturalReference();
|
|
1786
|
assertEquals(ReferenceType.Book, nomRef.getType());
|
|
1787
|
assertEquals(name.getNomenclaturalMicroReference(), "n. 1");
|
|
1788
|
|
|
1789
|
parseStr = "Lavandula canariensis Mill., Gard. Dict. ed. 8: Lavandula no. 4. 1768";
|
|
1790
|
name = parser.parseReferencedName(parseStr);
|
|
1791
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1792
|
nomRef = name.getNomenclaturalReference();
|
|
1793
|
assertEquals(ReferenceType.Book, nomRef.getType());
|
|
1794
|
assertEquals(name.getNomenclaturalMicroReference(), "Lavandula no. 4");
|
|
1795
|
|
|
1796
|
parseStr = "Aceras anthropomorphum (Pers.) Sm. in Rees, Cycl. 39(1): Aceras n. 2. 1818";
|
|
1797
|
name = parser.parseReferencedName(parseStr);
|
|
1798
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1799
|
nomRef = name.getNomenclaturalReference();
|
|
1800
|
assertEquals(ReferenceType.BookSection, nomRef.getType());
|
|
1801
|
assertEquals(name.getNomenclaturalMicroReference(), "Aceras n. 2");
|
|
1802
|
|
|
1803
|
parseStr = "Chlorolepis Nutt. in Trans. Amer. Philos. Soc., n.s., 7: errata. 1841";
|
|
1804
|
name = parser.parseReferencedName(parseStr);
|
|
1805
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1806
|
nomRef = name.getNomenclaturalReference();
|
|
1807
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
1808
|
assertEquals(name.getNomenclaturalMicroReference(), "errata");
|
|
1809
|
|
|
1810
|
parseStr = "Yermoloffia B\u00e9l., Voy. Indes Or.: t. s.n.. 1846";
|
|
1811
|
name = parser.parseReferencedName(parseStr);
|
|
1812
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1813
|
nomRef = name.getNomenclaturalReference();
|
|
1814
|
assertEquals(ReferenceType.Book, nomRef.getType());
|
|
1815
|
assertEquals(name.getNomenclaturalMicroReference(), "t. s.n.");
|
|
1816
|
|
|
1817
|
parseStr = "Gagea mauritanica Durieu, Expl. Sci. Alg\u00e9rie, Atlas: t. 45bis, f. 4. 1850";
|
|
1818
|
name = parser.parseReferencedName(parseStr);
|
|
1819
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1820
|
nomRef = name.getNomenclaturalReference();
|
|
1821
|
assertEquals(ReferenceType.Book, nomRef.getType());
|
|
1822
|
assertEquals(name.getNomenclaturalMicroReference(), "t. 45bis, f. 4");
|
|
1823
|
|
|
1824
|
parseStr = "Orchis latifolia f. blyttii Rchb. f. in Reichenbach, Icon. Fl. Germ. Helv. 13-14: 60, t. 59, f. III. 1851";
|
|
1825
|
name = parser.parseReferencedName(parseStr);
|
|
1826
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1827
|
nomRef = name.getNomenclaturalReference();
|
|
1828
|
assertEquals(ReferenceType.BookSection, nomRef.getType());
|
|
1829
|
assertEquals(name.getNomenclaturalMicroReference(), "60, t. 59, f. III");
|
|
1830
|
|
|
1831
|
parseStr = "Ephedra alata var. decaisnei Stapf in Denkschr. Kaiserl. Akad. Wiss., Wien. Math.-Naturwiss. Kl. 56(2): t. 1/1. 1889";
|
|
1832
|
name = parser.parseReferencedName(parseStr);
|
|
1833
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1834
|
nomRef = name.getNomenclaturalReference();
|
|
1835
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
1836
|
assertEquals(name.getNomenclaturalMicroReference(), "t. 1/1");
|
|
1837
|
}
|
|
1838
|
|
|
1839
|
@Test
|
|
1840
|
public final void testEditionVolumeSeries(){
|
|
1841
|
//ed. 2, 2(1)
|
|
1842
|
String parseStr = "Sieberia albida (L.) Spreng., Anleit. Kenntn. Gew., ed. 2, 2(1): 282. 1817";
|
|
1843
|
INonViralName name = parser.parseReferencedName(parseStr);
|
|
1844
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1845
|
Reference nomRef = name.getNomenclaturalReference();
|
|
1846
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
1847
|
assertEquals(ReferenceType.Book, nomRef.getType());
|
|
1848
|
assertEquals("2", nomRef.getEdition());
|
|
1849
|
assertEquals("2(1)", nomRef.getVolume());
|
|
1850
|
|
|
1851
|
parseStr = "Gagea glacialis var. joannis (Grossh.) Grossh., Fl. Kavkaza, ed. 2, 2: 105. 1940";
|
|
1852
|
name = parser.parseReferencedName(parseStr);
|
|
1853
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1854
|
nomRef = name.getNomenclaturalReference();
|
|
1855
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
1856
|
assertEquals(ReferenceType.Book, nomRef.getType());
|
|
1857
|
assertEquals("2", nomRef.getEdition());
|
|
1858
|
assertEquals("2", nomRef.getVolume());
|
|
1859
|
|
|
1860
|
//14-15
|
|
1861
|
parseStr = "Semele gayae (Webb & Berthel.) Svent. & Kunkel, Cuad. Bot. Canaria 14-15: 81. 1972";
|
|
1862
|
name = parser.parseReferencedName(parseStr);
|
|
1863
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1864
|
nomRef = name.getNomenclaturalReference();
|
|
1865
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
1866
|
assertEquals(ReferenceType.Book, nomRef.getType());
|
|
1867
|
assertEquals("14-15", nomRef.getVolume());
|
|
1868
|
|
|
1869
|
//35-37(2)
|
|
1870
|
parseStr = "Lavandula multifida var. heterotricha Sauvage in Bull. Soc. Sci. Nat. Maroc 35-37(2): 392. 1947";
|
|
1871
|
name = parser.parseReferencedName(parseStr);
|
|
1872
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1873
|
nomRef = name.getNomenclaturalReference();
|
|
1874
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
1875
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
1876
|
assertNull(nomRef.getEdition());
|
|
1877
|
assertEquals("35-37(2)", nomRef.getVolume());
|
|
1878
|
|
|
1879
|
//Sér. 7
|
|
1880
|
parseStr = "Oxynepeta involucrata Bunge, M\u00E9m. Acad. Imp. Sci. Saint P\u00E9tersbourg, S\u00E9r. 7, 21(1): 59. 1878";
|
|
1881
|
name = parser.parseReferencedName(parseStr);
|
|
1882
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1883
|
nomRef = name.getNomenclaturalReference();
|
|
1884
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
1885
|
assertEquals(ReferenceType.Book, nomRef.getType());
|
|
1886
|
assertNull(nomRef.getEdition());
|
|
1887
|
assertEquals("21(1)", nomRef.getVolume());
|
|
1888
|
//Currently we do not put the series part into the series field, this may change in future
|
|
1889
|
// assertEquals("Sér. 7", nomRef.getSeriesPart());
|
|
1890
|
|
|
1891
|
//Suppl. 1
|
|
1892
|
parseStr = "Dissorhynchium Schauer, Nov. Actorum Acad. Caes. Leop.-Carol. Nat. Cur. 19(Suppl. 1): 434. 1843";
|
|
1893
|
name = parser.parseReferencedName(parseStr);
|
|
1894
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1895
|
nomRef = name.getNomenclaturalReference();
|
|
1896
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
1897
|
assertEquals(ReferenceType.Book, nomRef.getType());
|
|
1898
|
assertNull(nomRef.getEdition());
|
|
1899
|
assertEquals("19(Suppl. 1)", nomRef.getVolume());
|
|
1900
|
|
|
1901
|
//54*B*
|
|
1902
|
parseStr = "Thymus chaubardii var. boeoticus (Heinr. Braun) Ronniger in Beih. Bot. Centralbl. 54B: 662. 1936";
|
|
1903
|
name = parser.parseReferencedName(parseStr);
|
|
1904
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1905
|
nomRef = name.getNomenclaturalReference();
|
|
1906
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
1907
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
1908
|
assertNull(nomRef.getEdition());
|
|
1909
|
assertEquals("54B", nomRef.getVolume());
|
|
1910
|
|
|
1911
|
|
|
1912
|
//1, Erg.
|
|
1913
|
Pattern seriesPattern = Pattern.compile(NonViralNameParserImplRegExBase.volume);
|
|
1914
|
Matcher matcher = seriesPattern.matcher("12(1, Erg.)");
|
|
1915
|
Assert.assertTrue("12(1, Erg.) should match", matcher.matches());
|
|
1916
|
|
|
1917
|
parseStr = "Scilla amethystina Vis. in Flora Abt Awer Ser 12(1, Erg.): 11. 1829";
|
|
1918
|
name = parser.parseReferencedName(parseStr);
|
|
1919
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1920
|
nomRef = name.getNomenclaturalReference();
|
|
1921
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
1922
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
1923
|
assertNull(nomRef.getEdition());
|
|
1924
|
assertEquals("12(1, Erg.)", nomRef.getVolume());
|
|
1925
|
|
|
1926
|
// jubilee ed.
|
|
1927
|
parseStr = "Orchis sambucina var. bracteata (M. Schulze) Harz, Fl. Deutschl., jubilee ed., 4: 271. 1895";
|
|
1928
|
name = parser.parseReferencedName(parseStr);
|
|
1929
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1930
|
nomRef = name.getNomenclaturalReference();
|
|
1931
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
1932
|
assertEquals(ReferenceType.Book, nomRef.getType());
|
|
1933
|
assertEquals("jubilee ed.",nomRef.getEdition());
|
|
1934
|
assertEquals("4", nomRef.getVolume());
|
|
1935
|
assertEquals(parseStr, name.getFullTitleCache());
|
|
1936
|
|
|
1937
|
//nouv. ed.
|
|
1938
|
parseStr = "Fraxinus polemonifolia Poir. in Duhamel du Monceau, Trait\u00E9 Arbr. Arbust., nouv. ed., 4: 66. 1809";
|
|
1939
|
name = parser.parseReferencedName(parseStr);
|
|
1940
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1941
|
nomRef = name.getNomenclaturalReference();
|
|
1942
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
1943
|
assertEquals(ReferenceType.BookSection, nomRef.getType());
|
|
1944
|
assertEquals("nouv. ed.",nomRef.getInReference().getEdition());
|
|
1945
|
assertEquals("4", nomRef.getInReference().getVolume());
|
|
1946
|
assertEquals(parseStr, name.getFullTitleCache());
|
|
1947
|
|
|
1948
|
//ed. 3B
|
|
1949
|
parseStr = "Juncus supinus var. kochii (F. W. Schultz) Syme in Smith, Engl. Bot., ed. 3B, 10: 33. 1870";
|
|
1950
|
name = parser.parseReferencedName(parseStr);
|
|
1951
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1952
|
nomRef = name.getNomenclaturalReference();
|
|
1953
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
1954
|
assertEquals(ReferenceType.BookSection, nomRef.getType());
|
|
1955
|
//maybe we remove ed. for this case in future
|
|
1956
|
assertEquals("ed. 3B",nomRef.getInReference().getEdition());
|
|
1957
|
assertEquals("10", nomRef.getInReference().getVolume());
|
|
1958
|
assertEquals(parseStr, name.getFullTitleCache());
|
|
1959
|
|
|
1960
|
//ed. 15 bis
|
|
1961
|
parseStr = "Solanum persicum Willd. ex Roem. & Schult., Syst. Veg., ed. 15 bis, 4: 662. 1819";
|
|
1962
|
name = parser.parseReferencedName(parseStr);
|
|
1963
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1964
|
nomRef = name.getNomenclaturalReference();
|
|
1965
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
1966
|
assertEquals(ReferenceType.Book, nomRef.getType());
|
|
1967
|
//maybe we remove ed. for this case in future
|
|
1968
|
assertEquals("ed. 15 bis",nomRef.getEdition());
|
|
1969
|
assertEquals("4", nomRef.getVolume());
|
|
1970
|
assertEquals(parseStr, name.getFullTitleCache());
|
|
1971
|
|
|
1972
|
|
|
1973
|
// Epipactis helleborine subsp. ohwii (Fukuy.) H. J. Su in Fl. Taiwan, ed. 2, 5: 861. 2000
|
|
1974
|
}
|
|
1975
|
|
|
1976
|
@Test
|
|
1977
|
public final void testTitleBrackets(){
|
|
1978
|
//Bot. Zhurn. (Moscow & Leningrad)
|
|
1979
|
String parseStr = "Juncus subcompressus Zakirov & Novopokr. in Bot. Zhurn. (Moscow & Leningrad) 36(1): 77. 1951";
|
|
1980
|
TaxonName name = parser.parseReferencedName(parseStr);
|
|
1981
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1982
|
Reference nomRef = name.getNomenclaturalReference();
|
|
1983
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
1984
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
1985
|
assertEquals("Bot. Zhurn. (Moscow & Leningrad)", nomRef.getInReference().getAbbrevTitle());
|
|
1986
|
assertNull(nomRef.getEdition());
|
|
1987
|
assertEquals("36(1)", nomRef.getVolume());
|
|
1988
|
}
|
|
1989
|
|
|
1990
|
@Test
|
|
1991
|
public final void testTitleSpecials(){
|
|
1992
|
//Pt. 2 (currently handled as series part, may change in future
|
|
1993
|
String parseStr = "Iris pumila subsp. sintenisiiformis Prod\u00E1n in Ann. Sci. Univ. Jassy, Pt. 2, Sci. Nat. 27: 89. 1941";
|
|
1994
|
TaxonName name = parser.parseReferencedName(parseStr);
|
|
1995
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
1996
|
Reference nomRef = name.getNomenclaturalReference();
|
|
1997
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
1998
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
1999
|
assertEquals("Ann. Sci. Univ. Jassy, Pt. 2, Sci. Nat.", nomRef.getInReference().getAbbrevTitle());
|
|
2000
|
assertNull(nomRef.getEdition());
|
|
2001
|
assertEquals("27", nomRef.getVolume());
|
|
2002
|
|
|
2003
|
//same as Pt. 2, "Sect. xx" handled as series part but may change
|
|
2004
|
parseStr = "Quercus boissieri var. microphylla (A. Camus) Zohary in Bull. Res. Council Israel, Sect. D, Bot. 9: 169. 1961";
|
|
2005
|
name = parser.parseReferencedName(parseStr);
|
|
2006
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2007
|
nomRef = name.getNomenclaturalReference();
|
|
2008
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
2009
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2010
|
assertEquals("Bull. Res. Council Israel, Sect. D, Bot.", nomRef.getInReference().getAbbrevTitle());
|
|
2011
|
assertNull(nomRef.getEdition());
|
|
2012
|
assertEquals("9", nomRef.getVolume());
|
|
2013
|
|
|
2014
|
//see above
|
|
2015
|
parseStr = "Fimbristylis dichotoma var. annua (All.) T. Koyama in J. Fac. Sci. Univ. Tokyo, Sect. 3, Bot. 8: 111. 1961";
|
|
2016
|
name = parser.parseReferencedName(parseStr);
|
|
2017
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2018
|
nomRef = name.getNomenclaturalReference();
|
|
2019
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
2020
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2021
|
assertEquals("J. Fac. Sci. Univ. Tokyo, Sect. 3, Bot.", nomRef.getInReference().getAbbrevTitle());
|
|
2022
|
assertNull(nomRef.getEdition());
|
|
2023
|
assertEquals("8", nomRef.getVolume());
|
|
2024
|
|
|
2025
|
|
|
2026
|
// "- "
|
|
2027
|
parseStr = "Theresia tulipilfoia (M. Bieb.) Klatt in Hamburger Garten- Blumenzeitung 16: 438. 1860";
|
|
2028
|
name = parser.parseReferencedName(parseStr);
|
|
2029
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2030
|
nomRef = name.getNomenclaturalReference();
|
|
2031
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
2032
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2033
|
assertEquals("Hamburger Garten- Blumenzeitung", nomRef.getInReference().getAbbrevTitle());
|
|
2034
|
assertNull(nomRef.getEdition());
|
|
2035
|
assertEquals("16", nomRef.getVolume());
|
|
2036
|
|
|
2037
|
parseStr = "Hyssopus officinalis var. pilifer Pant. in Verh. Vereins Natur- Heilk. Presburg, n.s., 2: 61. 1874";
|
|
2038
|
name = parser.parseReferencedName(parseStr);
|
|
2039
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2040
|
nomRef = name.getNomenclaturalReference();
|
|
2041
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
2042
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2043
|
//, n.s., is not necessarily part of the title in future
|
|
2044
|
assertEquals("Verh. Vereins Natur- Heilk. Presburg", nomRef.getInReference().getAbbrevTitle());
|
|
2045
|
assertNull(nomRef.getEdition());
|
|
2046
|
assertEquals("n.s.", nomRef.getSeriesPart());
|
|
2047
|
assertEquals("2", nomRef.getVolume());
|
|
2048
|
|
|
2049
|
//Note: space in E+M, no space in IPNI; is it really a book?
|
|
2050
|
parseStr = "Amaryllis dubia Houtt., Handl. Pl.- Kruidk. 12: 181. 1780";
|
|
2051
|
name = parser.parseReferencedName(parseStr);
|
|
2052
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2053
|
nomRef = name.getNomenclaturalReference();
|
|
2054
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
2055
|
assertEquals(ReferenceType.Book, nomRef.getType());
|
|
2056
|
assertEquals("Handl. Pl.- Kruidk.", nomRef.getAbbrevTitle());
|
|
2057
|
assertNull(nomRef.getEdition());
|
|
2058
|
assertEquals("12", nomRef.getVolume());
|
|
2059
|
|
|
2060
|
// "..."
|
|
2061
|
parseStr = "Chamaesyce biramensis (Urb.) Alain in Contr. Ocas. Mus. Hist. Nat. Colegio \"De La Salle\" 11: 12. 1952";
|
|
2062
|
name = parser.parseReferencedName(parseStr);
|
|
2063
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2064
|
nomRef = name.getNomenclaturalReference();
|
|
2065
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
2066
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2067
|
assertEquals("Contr. Ocas. Mus. Hist. Nat. Colegio \"De La Salle\"", nomRef.getInReference().getAbbrevTitle());
|
|
2068
|
assertNull(nomRef.getEdition());
|
|
2069
|
assertEquals("11", nomRef.getVolume());
|
|
2070
|
|
|
2071
|
//' & '
|
|
2072
|
parseStr = "Mannaphorus Raf. in Amer. Monthly Mag. & Crit. Rev. 1: 175. 1818";
|
|
2073
|
name = parser.parseReferencedName(parseStr);
|
|
2074
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2075
|
nomRef = name.getNomenclaturalReference();
|
|
2076
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
2077
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2078
|
assertEquals("Amer. Monthly Mag. & Crit. Rev.", nomRef.getInReference().getAbbrevTitle());
|
|
2079
|
assertNull(nomRef.getEdition());
|
|
2080
|
assertEquals("1", nomRef.getVolume());
|
|
2081
|
|
|
2082
|
//only for debugging
|
|
2083
|
boolean matches;
|
|
2084
|
matches = "Flo & Amer. Fauna. Ab.".matches (NonViralNameParserImplRegExBase.referenceTitleFirstPart + "*");
|
|
2085
|
Assert.assertTrue("referenceTitleFirstPart", matches);
|
|
2086
|
|
|
2087
|
matches = "Fl. Amer. & Fauna. Ab. 101".matches (NonViralNameParserImplRegExBase.pSoftArticleReference);
|
|
2088
|
Assert.assertTrue("pSoftArticleReference", matches);
|
|
2089
|
//only for debugging end
|
|
2090
|
|
|
2091
|
parseStr = "Corallorhiza trifida subsp. virescens (Drejer) L\u00F8jtnant in Fl. & Fauna (Esbjerg) 101: 71. 1996";
|
|
2092
|
name = parser.parseReferencedName(parseStr);
|
|
2093
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2094
|
nomRef = name.getNomenclaturalReference();
|
|
2095
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
2096
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2097
|
assertEquals("Fl. & Fauna (Esbjerg)", nomRef.getInReference().getAbbrevTitle());
|
|
2098
|
assertNull(nomRef.getEdition());
|
|
2099
|
assertEquals("101", nomRef.getVolume());
|
|
2100
|
|
|
2101
|
parseStr = "Crocus isauricus Siehe ex Bowles, Handb. Crocus & Colch.: 126. 1924";
|
|
2102
|
name = parser.parseReferencedName(parseStr);
|
|
2103
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2104
|
nomRef = name.getNomenclaturalReference();
|
|
2105
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
2106
|
assertEquals(ReferenceType.Book, nomRef.getType());
|
|
2107
|
assertEquals("Handb. Crocus & Colch.", nomRef.getAbbrevTitle());
|
|
2108
|
assertNull(nomRef.getEdition());
|
|
2109
|
assertNull(nomRef.getVolume());
|
|
2110
|
|
|
2111
|
parseStr = "Ornithogalum bifolium (L.) Neck. in Hist. & Commentat. Acad. Elect. Sci. Theod.-Palat. 2: 461. 1770";
|
|
2112
|
name = parser.parseReferencedName(parseStr);
|
|
2113
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2114
|
nomRef = name.getNomenclaturalReference();
|
|
2115
|
Assert.assertFalse("nom.ref. should be parsable", nomRef.isProtectedTitleCache());
|
|
2116
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2117
|
assertEquals("Hist. & Commentat. Acad. Elect. Sci. Theod.-Palat.", nomRef.getInReference().getAbbrevTitle());
|
|
2118
|
assertNull(nomRef.getEdition());
|
|
2119
|
assertEquals("2", nomRef.getVolume());
|
|
2120
|
|
|
2121
|
}
|
|
2122
|
|
|
2123
|
@Test
|
|
2124
|
public final void testArticlePattern(){
|
|
2125
|
Pattern articlePattern = Pattern.compile(NonViralNameParserImplRegExBase.pArticleReference);
|
|
2126
|
Matcher matcher = articlePattern.matcher("Acta Bot. Hung. 46 (1-2)");
|
|
2127
|
Assert.assertTrue("", matcher.matches());
|
|
2128
|
matcher = articlePattern.matcher("Nova Guinea Bla 9");
|
|
2129
|
Assert.assertTrue("", matcher.matches());
|
|
2130
|
matcher = articlePattern.matcher("Nova Guinea Bla , n.s., 9");
|
|
2131
|
Assert.assertTrue("", matcher.matches());
|
|
2132
|
}
|
|
2133
|
|
|
2134
|
|
|
2135
|
@Test
|
|
2136
|
public final void testSeriesPart(){
|
|
2137
|
Pattern seriesPattern = Pattern.compile(NonViralNameParserImplRegExBase.pSeriesPart);
|
|
2138
|
Matcher matcher = seriesPattern.matcher(", ser. 2,");
|
|
2139
|
Assert.assertTrue("", matcher.matches());
|
|
2140
|
|
|
2141
|
matcher = seriesPattern.matcher("n.s.");
|
|
2142
|
Assert.assertTrue("", matcher.matches());
|
|
2143
|
|
|
2144
|
// matcher = seriesPattern.matcher("a.s.");
|
|
2145
|
// Assert.assertTrue("", matcher.matches());
|
|
2146
|
|
|
2147
|
//do NOT match edition //but there are such cases like "Vilm. Blumengärtn. ed. 3" according to TL-2
|
|
2148
|
matcher = seriesPattern.matcher("ed. 4");
|
|
2149
|
Assert.assertFalse("", matcher.matches());
|
|
2150
|
|
|
2151
|
matcher = seriesPattern.matcher("Ser. C");
|
|
2152
|
Assert.assertTrue("", matcher.matches());
|
|
2153
|
|
|
2154
|
matcher = seriesPattern.matcher("S\u00E9r. B 1");
|
|
2155
|
Assert.assertTrue("", matcher.matches());
|
|
2156
|
|
|
2157
|
matcher = seriesPattern.matcher("Jerusalem Ser.");
|
|
2158
|
Assert.assertTrue("", matcher.matches());
|
|
2159
|
|
|
2160
|
matcher = seriesPattern.matcher("nov. Ser.");
|
|
2161
|
Assert.assertTrue("", matcher.matches());
|
|
2162
|
}
|
|
2163
|
|
|
2164
|
@Test
|
|
2165
|
public final void testFullTeams() {
|
|
2166
|
logger.warn("Not yet implemented"); // TODO
|
|
2167
|
}
|
|
2168
|
|
|
2169
|
@Test
|
|
2170
|
public final void testParseAuthorsTaxonNameString() throws StringNotParsableException {
|
|
2171
|
INonViralName nvn = TaxonNameFactory.NewZoologicalInstance(null);
|
|
2172
|
parser.parseAuthors(nvn, "Eckweiler & ten Hagen, 2003");
|
|
2173
|
Team team = (Team)nvn.getCombinationAuthorship();
|
|
2174
|
Assert.assertNotNull("Comb. author must not be null", team);
|
|
2175
|
Assert.assertEquals("Must be team with 2 members", 2, team.getTeamMembers().size());
|
|
2176
|
Assert.assertEquals("Second member must be 'ten Hagen'", "ten Hagen", team.getTeamMembers().get(1).getTitleCache());
|
|
2177
|
|
|
2178
|
//Crosson du Cormier, 1964
|
|
2179
|
IZoologicalName zooName = TaxonNameFactory.NewZoologicalInstance(null);
|
|
2180
|
parser.parseAuthors(zooName, "Crosson du Cormier, 1964");
|
|
2181
|
Person person = (Person)zooName.getCombinationAuthorship();
|
|
2182
|
Assert.assertNotNull("Comb. author must not be null", person);
|
|
2183
|
Assert.assertEquals("Persons title must be 'Crosson du Cormier'", "Crosson du Cormier", person.getTitleCache());
|
|
2184
|
Assert.assertEquals("Year must be 1964", Integer.valueOf(1964), zooName.getPublicationYear() );
|
|
2185
|
|
|
2186
|
//(van der Hoeven, 1839)
|
|
2187
|
zooName = TaxonNameFactory.NewZoologicalInstance(null);
|
|
2188
|
parser.parseAuthors(zooName, "(van der Hoeven, 1839)");
|
|
2189
|
Assert.assertNull("Combination author must be null", zooName.getCombinationAuthorship());
|
|
2190
|
person = (Person)zooName.getBasionymAuthorship();
|
|
2191
|
Assert.assertNotNull("Basionym author must not be null", person);
|
|
2192
|
Assert.assertEquals("Persons title must be 'van der Hoeven'", "van der Hoeven", person.getTitleCache());
|
|
2193
|
Assert.assertEquals("Year must be 1839", Integer.valueOf(1839), zooName.getOriginalPublicationYear() );
|
|
2194
|
|
|
2195
|
//le Doux, 1931
|
|
2196
|
zooName = TaxonNameFactory.NewZoologicalInstance(null);
|
|
2197
|
parser.parseAuthors(zooName, "le Doux, 1931");
|
|
2198
|
person = (Person)zooName.getCombinationAuthorship();
|
|
2199
|
Assert.assertNotNull("Comb. author must not be null", person);
|
|
2200
|
Assert.assertEquals("Persons title must be 'le Doux'", "le Doux", person.getTitleCache());
|
|
2201
|
Assert.assertEquals("Year must be 1931", Integer.valueOf(1931), zooName.getPublicationYear() );
|
|
2202
|
|
|
2203
|
|
|
2204
|
}
|
|
2205
|
|
|
2206
|
@Test //#4764
|
|
2207
|
public void testParseSection(){
|
|
2208
|
//this test does not really test problematic cases where sect.idInVoc = "sect." instead of "sect.(bot.)"
|
|
2209
|
//however, by changing the csv file entry to sect. just for testing it can be used as a functional test
|
|
2210
|
String sectionNameStr = "Taraxacum sect. Testtaxa M\u00fcller, Incredible Taxa: 12. 2016";
|
|
2211
|
INonViralName sectionName = parser.parseReferencedName(sectionNameStr, NomenclaturalCode.ICNAFP, null);
|
|
2212
|
int parsingProblem = sectionName.getParsingProblem();
|
|
2213
|
Assert.assertEquals("Problem should be 0", 0, parsingProblem);
|
|
2214
|
Rank rank = sectionName.getRank();
|
|
2215
|
Assert.assertEquals("", Rank.SECTION_BOTANY(), rank );
|
|
2216
|
}
|
|
2217
|
|
|
2218
|
//#6577
|
|
2219
|
@Test
|
|
2220
|
public final void testParseSpNov(){
|
|
2221
|
//Canabio, issue with space
|
|
2222
|
INonViralName name = parser.parseFullName("Iresine sp. nov. 1");
|
|
2223
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2224
|
Assert.assertEquals("sp. nov. 1", name.getSpecificEpithet());
|
|
2225
|
|
|
2226
|
name = parser.parseFullName("Gomphichis sp. 22");
|
|
2227
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2228
|
Assert.assertEquals("sp. 22", name.getSpecificEpithet());
|
|
2229
|
|
|
2230
|
name = parser.parseFullName("Phleum sp. nov.");
|
|
2231
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2232
|
Assert.assertEquals("sp. nov.", name.getSpecificEpithet());
|
|
2233
|
|
|
2234
|
name = parser.parseFullName("Phleum sp.");
|
|
2235
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2236
|
Assert.assertEquals("sp.", name.getSpecificEpithet());
|
|
2237
|
|
|
2238
|
}
|
|
2239
|
|
|
2240
|
|
|
2241
|
@Test //#5072
|
|
2242
|
public final void testLongRunningParsingCapitals(){
|
|
2243
|
DateTime start = DateTime.now();
|
|
2244
|
String nameStr = "Nazeris fujianensis JIAYAO HU, LIZHEN LI, MEIJUN ZHAO,2010"; //name from CoL that created problems
|
|
2245
|
INonViralName name = parser.parseReferencedName(nameStr, NomenclaturalCode.ICZN, null);
|
|
2246
|
DateTime end = DateTime.now();
|
|
2247
|
Duration duration = new Duration(start, end);
|
|
2248
|
long seconds = duration.getStandardSeconds();
|
|
2249
|
//this is the critical part of the test that must not be changed
|
|
2250
|
Assert.assertTrue("Parsing of name should take less then 3 seconds but took " + seconds, seconds < 3);
|
|
2251
|
|
|
2252
|
}
|
|
2253
|
|
|
2254
|
@Test //#5072
|
|
2255
|
//http://www.regular-expressions.info/catastrophic.html
|
|
2256
|
public final void testLongRunningParsing(){
|
|
2257
|
|
|
2258
|
//name only
|
|
2259
|
String nameStr = "Dictyocoela berillonum R.S. Terry, J.E. Sm., R.G. Sharpe, T. Rigaud, D.T.J. Littlewood, J.E. Ironside, D. Rollinson & D. Bou";
|
|
2260
|
DateTime start = DateTime.now();
|
|
2261
|
INonViralName name = parser.parseReferencedName(nameStr, NomenclaturalCode.ICNAFP, null);
|
|
2262
|
DateTime end = DateTime.now();
|
|
2263
|
Duration duration = new Duration(start, end);
|
|
2264
|
long seconds = duration.getStandardSeconds();
|
|
2265
|
//this is the critical part of the test that must not be changed
|
|
2266
|
Assert.assertTrue("Parsing of name should take less then 3 seconds but took " + seconds, seconds < 3);
|
|
2267
|
//the following may be discussed
|
|
2268
|
Assert.assertFalse("Name should parse without problems",name.hasProblem());
|
|
2269
|
|
|
2270
|
|
|
2271
|
//with reference
|
|
2272
|
nameStr = "Dictyocoela berillonum R.S. Terry, J.E. Sm., R.G. Sharpe, T. Rigaud, D.T.J. Littlewood, J.E. Ironside, D. Rollinson & D. Bou in Species Fauna Atlantica Of Blues Animals 3: p.345. 1758.";
|
|
2273
|
start = DateTime.now();
|
|
2274
|
name = parser.parseReferencedName(nameStr, NomenclaturalCode.ICNAFP, null);
|
|
2275
|
end = DateTime.now();
|
|
2276
|
duration = new Duration(start, end);
|
|
2277
|
seconds = duration.getStandardSeconds();
|
|
2278
|
//this is the critical part of the test that must not be changed
|
|
2279
|
Assert.assertTrue("Parsing of name should take less then 3 seconds but took " + seconds, seconds < 3);
|
|
2280
|
//the following may be discussed
|
|
2281
|
Assert.assertFalse("Name should parse without problems",name.hasProblem());
|
|
2282
|
}
|
|
2283
|
|
|
2284
|
@Test //#5072
|
|
2285
|
public final void testLongRunningParsingAuthors(){
|
|
2286
|
//http://www.regular-expressions.info/catastrophic.html
|
|
2287
|
//
|
|
2288
|
//Länge des Nachnamens macht keinen Unterschied
|
|
2289
|
//Anzahl der "AuthorParts scheint entscheidend
|
|
2290
|
// & am Ende macht es langsamger (16s), als nur ","(6s))
|
|
2291
|
|
|
2292
|
String authorStr = "R.S. Terry J.E. Sm. R.G. Sharpe T. Rigaud T.H. Rigseaud D.T. Li, R.G. Sharpe, T. Rigaud, D.T.J. Littlewood & D. Bou";
|
|
2293
|
TeamOrPersonBase[] authorArray = new TeamOrPersonBase[4];
|
|
2294
|
try {
|
|
2295
|
DateTime start = DateTime.now();
|
|
2296
|
parser.fullAuthors(authorStr, authorArray, new Integer[]{1800, null, null, null}, NomenclaturalCode.ICNAFP);
|
|
2297
|
DateTime end = DateTime.now();
|
|
2298
|
Duration duration = new Duration(start, end);
|
|
2299
|
long seconds = duration.getStandardSeconds();
|
|
2300
|
// System.out.println(seconds);
|
|
2301
|
//this is the critical part of the test that must not be changed
|
|
2302
|
Assert.assertTrue("Parsing of name should take less then 3 seconds but took " + seconds, seconds < 3);
|
|
2303
|
} catch (StringNotParsableException e) {
|
|
2304
|
e.printStackTrace();
|
|
2305
|
Assert.fail("Authors should be parsable");
|
|
2306
|
}
|
|
2307
|
|
|
2308
|
}
|
|
2309
|
|
|
2310
|
|
|
2311
|
/**
|
|
2312
|
* Test method for {@link eu.etaxonomy.cdm.strategy.parser.NonViralNameParserImpl#AuthorshipAndEx(java.lang.String)}.
|
|
2313
|
*/
|
|
2314
|
@Test
|
|
2315
|
public final void testAuthorshipAndEx() {
|
|
2316
|
logger.warn("Not yet implemented"); // TODO
|
|
2317
|
}
|
|
2318
|
|
|
2319
|
/**
|
|
2320
|
* Test method for {@link eu.etaxonomy.cdm.strategy.parser.NonViralNameParserImpl#Authorship(java.lang.String)}.
|
|
2321
|
*/
|
|
2322
|
@Test
|
|
2323
|
public final void testAuthorship() {
|
|
2324
|
logger.warn("Not yet implemented"); // TODO
|
|
2325
|
}
|
|
2326
|
|
|
2327
|
/**
|
|
2328
|
* Test method for {@link eu.etaxonomy.cdm.strategy.parser.NonViralNameParserImpl#parseCultivar(java.lang.String)}.
|
|
2329
|
*/
|
|
2330
|
@Test
|
|
2331
|
public final void testParseCultivar() {
|
|
2332
|
logger.warn("Not yet implemented"); // TODO
|
|
2333
|
}
|
|
2334
|
|
|
2335
|
@Test
|
|
2336
|
public final void testNomenclaturalStatus() {
|
|
2337
|
IBotanicalName name = TaxonNameFactory.NewBotanicalInstance(Rank.FAMILY(), "Acanthopale", null, null, null, null, null, null, null);
|
|
2338
|
name.addStatus(NomenclaturalStatus.NewInstance(NomenclaturalStatusType.ALTERNATIVE()));
|
|
2339
|
IBotanicalName name2 = TaxonNameFactory.NewBotanicalInstance(Rank.FAMILY());
|
|
2340
|
parser.parseReferencedName(name2, name.getFullTitleCache(), name2.getRank(), true);
|
|
2341
|
parser.parseReferencedName(name2, name.getFullTitleCache(), name2.getRank(), true);
|
|
2342
|
Assert.assertEquals("Title cache should be same. No duplication of nom. status should take place", name.getFullTitleCache(), name2.getFullTitleCache());
|
|
2343
|
}
|
|
2344
|
|
|
2345
|
@Test
|
|
2346
|
public final void testSpecificAuthors(){
|
|
2347
|
//McVaugh
|
|
2348
|
INonViralName name = parser.parseFullName("Psidium longipes var. orbiculare (O.Berg) McVaugh");
|
|
2349
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2350
|
TeamOrPersonBase<?> combinationAuthor = name.getCombinationAuthorship();
|
|
2351
|
assertEquals( "McVaugh", combinationAuthor.getNomenclaturalTitle());
|
|
2352
|
TeamOrPersonBase<?> basionymAuthor = name.getBasionymAuthorship();
|
|
2353
|
assertEquals( "O.Berg", basionymAuthor.getNomenclaturalTitle());
|
|
2354
|
|
|
2355
|
// Campanula rhodensis A. DC.
|
|
2356
|
|
|
2357
|
}
|
|
2358
|
|
|
2359
|
@Test
|
|
2360
|
public final void testBookSectionAuthors(){
|
|
2361
|
INonViralName name;
|
|
2362
|
Reference nomRef;
|
|
2363
|
String title;
|
|
2364
|
String str;
|
|
2365
|
|
|
2366
|
str = "Pancratium sickenbergeri Asch. & Schweinf. in Barbey-Boissier & Barbey, Herb. Levant: 158. 1882";
|
|
2367
|
str = "Pancratium sickenbergeri Asch. & Schweinf. in Barbey-Boissier & Barbey, Herb. Levant: 158. 1882";
|
|
2368
|
name = parser.parseReferencedName(str);
|
|
2369
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2370
|
TeamOrPersonBase<?> combinationAuthor = name.getCombinationAuthorship();
|
|
2371
|
assertEquals( "Asch. & Schweinf.", combinationAuthor.getNomenclaturalTitle());
|
|
2372
|
nomRef = name.getNomenclaturalReference();
|
|
2373
|
assertEquals(ReferenceType.BookSection, nomRef.getType());
|
|
2374
|
assertEquals( "Barbey-Boissier & Barbey", nomRef.getInReference().getAuthorship().getNomenclaturalTitle());
|
|
2375
|
title = nomRef.getInReference().getAbbrevTitle();
|
|
2376
|
assertEquals( "Herb. Levant", title);
|
|
2377
|
|
|
2378
|
name = parser.parseReferencedName("Luzula multiflora subsp. pallescens (Sw.) Reichg. in Van Ooststroom & al., Fl. Neerl. 1: 208. 1964");
|
|
2379
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2380
|
assertEquals( "Reichg.", name.getCombinationAuthorship().getNomenclaturalTitle());
|
|
2381
|
nomRef = name.getNomenclaturalReference();
|
|
2382
|
assertEquals(ReferenceType.BookSection, nomRef.getType());
|
|
2383
|
assertEquals( "Van Ooststroom & al.", nomRef.getInReference().getAuthorship().getNomenclaturalTitle());
|
|
2384
|
title = nomRef.getInReference().getAbbrevTitle();
|
|
2385
|
assertEquals( "Fl. Neerl.", title);
|
|
2386
|
|
|
2387
|
str = "Salvia pratensis var. albiflora T. Durand in De Wildeman & Durand, Prodr. Fl. Belg. 3: 663. 1899";
|
|
2388
|
name = parser.parseReferencedName(str);
|
|
2389
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2390
|
assertEquals( "T. Durand", name.getCombinationAuthorship().getNomenclaturalTitle());
|
|
2391
|
nomRef = name.getNomenclaturalReference();
|
|
2392
|
assertEquals(ReferenceType.BookSection, nomRef.getType());
|
|
2393
|
assertEquals( "De Wildeman & Durand", nomRef.getInReference().getAuthorship().getNomenclaturalTitle());
|
|
2394
|
title = nomRef.getInReference().getAbbrevTitle();
|
|
2395
|
assertEquals( "Prodr. Fl. Belg.", title);
|
|
2396
|
|
|
2397
|
str = "Bravoa Lex. in La Llave & Lexarza, Nov. Veg. Desc. 1: 6. 1824";
|
|
2398
|
name = parser.parseReferencedName(str);
|
|
2399
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2400
|
assertEquals( "Lex.", name.getCombinationAuthorship().getNomenclaturalTitle());
|
|
2401
|
nomRef = name.getNomenclaturalReference();
|
|
2402
|
assertEquals(ReferenceType.BookSection, nomRef.getType());
|
|
2403
|
assertEquals( "La Llave & Lexarza", nomRef.getInReference().getAuthorship().getNomenclaturalTitle());
|
|
2404
|
title = nomRef.getInReference().getAbbrevTitle();
|
|
2405
|
assertEquals( "Nov. Veg. Desc.", title);
|
|
2406
|
|
|
2407
|
str = "Thymus trachselianus var. vallicola Heinr. Braun in Dalla Torre & Sarnthein, Fl. Tirol 6(3): 204. 1912";
|
|
2408
|
name = parser.parseReferencedName(str);
|
|
2409
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2410
|
nomRef = name.getNomenclaturalReference();
|
|
2411
|
assertEquals(ReferenceType.BookSection, nomRef.getType());
|
|
2412
|
assertEquals( "Dalla Torre & Sarnthein", nomRef.getInReference().getAuthorship().getNomenclaturalTitle());
|
|
2413
|
title = nomRef.getInReference().getAbbrevTitle();
|
|
2414
|
assertEquals( "Fl. Tirol", title);
|
|
2415
|
|
|
2416
|
//see #openIssues
|
|
2417
|
// str = "Iris xiphium var. lusitanica (Ker Gawl.) Franco in Amaral Franco & Rocha Afonso, Nova Fl. Portugal 3: 135. 1994";
|
|
2418
|
// name = parser.parseReferencedName(str);
|
|
2419
|
// Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2420
|
// nomRef = name.getNomenclaturalReference();
|
|
2421
|
// assertEquals(ReferenceType.BookSection, nomRef.getType());
|
|
2422
|
// assertEquals( "Amaral Franco & Rocha Afonso", nomRef.getInReference().getAuthorship().getNomenclaturalTitle());
|
|
2423
|
// title = nomRef.getInReference().getAbbrevTitle();
|
|
2424
|
// assertEquals( "Nova Fl. Portugal", title);
|
|
2425
|
//
|
|
2426
|
// str = "Fritillaria mutabilis Kamari in Strid & Kit Tan, Mount. Fl. Greece 2: 679. 1991";
|
|
2427
|
// name = parser.parseReferencedName(str);
|
|
2428
|
// Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2429
|
// nomRef = name.getNomenclaturalReference();
|
|
2430
|
// assertEquals(ReferenceType.BookSection, nomRef.getType());
|
|
2431
|
// assertEquals( "Strid & Kit Tan", nomRef.getInReference().getAuthorship().getNomenclaturalTitle());
|
|
2432
|
// title = nomRef.getInReference().getAbbrevTitle();
|
|
2433
|
// assertEquals( "Mount. Fl. Greece", title);
|
|
2434
|
|
|
2435
|
}
|
|
2436
|
|
|
2437
|
@Test
|
|
2438
|
public final void testDatePublished(){
|
|
2439
|
|
|
2440
|
INonViralName name = parser.parseReferencedName("Calamintha transsilvanica (J\u00e1v.) So\u00f3 in Acta Bot. Acad. Sci. Hung. 23: 382. 1977 publ. 1978");
|
|
2441
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2442
|
Reference nomRef = name.getNomenclaturalReference();
|
|
2443
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2444
|
assertEquals("1978 [\"1977\"]", nomRef.getDatePublished().toString());
|
|
2445
|
|
|
2446
|
name = parser.parseReferencedName("Calamintha transsilvanica (J\u00e1v.) So\u00f3 in Acta Bot. Acad. Sci. Hung. 23: 382. 4 Apr 1977");
|
|
2447
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2448
|
nomRef = name.getNomenclaturalReference();
|
|
2449
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2450
|
assertEquals("4 Apr 1977", nomRef.getDatePublished().toString());
|
|
2451
|
assertEquals(Integer.valueOf(4), nomRef.getDatePublished().getStartMonth());
|
|
2452
|
|
|
2453
|
name = parser.parseReferencedName("Calamintha transsilvanica (J\u00e1v.) So\u00f3 in Acta Bot. Acad. Sci. Hung. 23: 382. Feb-Apr 1977");
|
|
2454
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2455
|
nomRef = name.getNomenclaturalReference();
|
|
2456
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2457
|
assertEquals("Feb"+SEP+"Apr 1977", nomRef.getDatePublished().toString());
|
|
2458
|
assertEquals(Integer.valueOf(2), nomRef.getDatePublished().getStartMonth());
|
|
2459
|
assertEquals(Integer.valueOf(4), nomRef.getDatePublished().getEndMonth());
|
|
2460
|
assertEquals(Integer.valueOf(1977), nomRef.getDatePublished().getStartYear());
|
|
2461
|
assertEquals(Integer.valueOf(1977), nomRef.getDatePublished().getEndYear());
|
|
2462
|
assertNull(nomRef.getDatePublished().getStartDay());
|
|
2463
|
assertNull(nomRef.getDatePublished().getEndDay());
|
|
2464
|
}
|
|
2465
|
|
|
2466
|
|
|
2467
|
@Test
|
|
2468
|
public final void testExistingProblems(){
|
|
2469
|
//Canabio, issue with space
|
|
2470
|
INonViralName name = parser.parseReferencedName("Machaonia erythrocarpa var. hondurensis (Standl.) Borhidi"
|
|
2471
|
+ " in Acta Bot. Hung. 46 (1-2): 30. 2004");
|
|
2472
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2473
|
TeamOrPersonBase<?> combinationAuthor = name.getCombinationAuthorship();
|
|
2474
|
assertEquals( "Borhidi", combinationAuthor.getNomenclaturalTitle());
|
|
2475
|
Reference nomRef = name.getNomenclaturalReference();
|
|
2476
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2477
|
assertEquals("46 (1-2)", nomRef.getVolume());
|
|
2478
|
|
|
2479
|
//Canabio, detail with fig.
|
|
2480
|
name = parser.parseReferencedName("Didymaea floribunda Rzed."
|
|
2481
|
+ " in Bol. Soc. Bot. Mex. 44: 72, fig. 1. 1983");
|
|
2482
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2483
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2484
|
assertEquals( "Rzed.", combinationAuthor.getNomenclaturalTitle());
|
|
2485
|
nomRef = name.getNomenclaturalReference();
|
|
2486
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2487
|
assertEquals("44", nomRef.getVolume());
|
|
2488
|
assertEquals("72, fig. 1", name.getNomenclaturalMicroReference());
|
|
2489
|
|
|
2490
|
//fig with a-c and without dot
|
|
2491
|
name = parser.parseReferencedName("Deppea guerrerensis Dwyer & Lorence"
|
|
2492
|
+ " in Allertonia 4: 428. fig 4a-c. 1988"); //
|
|
2493
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2494
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2495
|
assertEquals( "Dwyer & Lorence", combinationAuthor.getNomenclaturalTitle());
|
|
2496
|
nomRef = name.getNomenclaturalReference();
|
|
2497
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2498
|
assertEquals("4", nomRef.getVolume());
|
|
2499
|
assertEquals("428. fig 4a-c", name.getNomenclaturalMicroReference());
|
|
2500
|
|
|
2501
|
//issue with EN_DASH (3–4)
|
|
2502
|
name = parser.parseReferencedName("Arachnothryx tacanensis (Lundell) Borhidi"
|
|
2503
|
+ " in Acta Bot. Hung. 33 (3" + UTF8.EN_DASH + "4): 303. 1987");
|
|
2504
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2505
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2506
|
assertEquals( "Borhidi", combinationAuthor.getNomenclaturalTitle());
|
|
2507
|
nomRef = name.getNomenclaturalReference();
|
|
2508
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2509
|
assertEquals("33 (3" + UTF8.EN_DASH + "4)", nomRef.getVolume());
|
|
2510
|
assertEquals("303", name.getNomenclaturalMicroReference());
|
|
2511
|
|
|
2512
|
//fig with f.
|
|
2513
|
name = parser.parseReferencedName("Stenotis Terrell"
|
|
2514
|
+ " in Sida 19(4): 901" + UTF8.EN_DASH + "911, f. 1" + UTF8.EN_DASH + "2. 2001");
|
|
2515
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2516
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2517
|
assertEquals( "Terrell", combinationAuthor.getNomenclaturalTitle());
|
|
2518
|
nomRef = name.getNomenclaturalReference();
|
|
2519
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2520
|
assertEquals("19(4)", nomRef.getVolume());
|
|
2521
|
assertEquals("901" + UTF8.EN_DASH + "911, f. 1" + UTF8.EN_DASH + "2", name.getNomenclaturalMicroReference());
|
|
2522
|
|
|
2523
|
//detail with figs
|
|
2524
|
name = parser.parseReferencedName("Randia sonorensis Wiggins"
|
|
2525
|
+ " in Contr. Dudley Herb. 3: 75, figs 4-6. 1940");
|
|
2526
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2527
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2528
|
assertEquals( "Wiggins", combinationAuthor.getNomenclaturalTitle());
|
|
2529
|
nomRef = name.getNomenclaturalReference();
|
|
2530
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2531
|
assertEquals("3", nomRef.getVolume());
|
|
2532
|
assertEquals("75, figs 4-6", name.getNomenclaturalMicroReference());
|
|
2533
|
|
|
2534
|
//detail with pl. and figs
|
|
2535
|
name = parser.parseReferencedName("Randia sonorensis Wiggins"
|
|
2536
|
+ " in Contr. Dudley Herb. 3: 75, pl. 19, figs 4-6. 1940");
|
|
2537
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2538
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2539
|
assertEquals( "Wiggins", combinationAuthor.getNomenclaturalTitle());
|
|
2540
|
nomRef = name.getNomenclaturalReference();
|
|
2541
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2542
|
assertEquals("3", nomRef.getVolume());
|
|
2543
|
assertEquals("75, pl. 19, figs 4-6", name.getNomenclaturalMicroReference());
|
|
2544
|
|
|
2545
|
//pl
|
|
2546
|
name = parser.parseReferencedName("Carapichea Aubl."
|
|
2547
|
+ " in Hist. Pl. Guiane 1: 167, pl. 64. 1775");
|
|
2548
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2549
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2550
|
assertEquals( "Aubl.", combinationAuthor.getNomenclaturalTitle());
|
|
2551
|
nomRef = name.getNomenclaturalReference();
|
|
2552
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2553
|
assertEquals("1", nomRef.getVolume());
|
|
2554
|
assertEquals("167, pl. 64", name.getNomenclaturalMicroReference());
|
|
2555
|
|
|
2556
|
//fig with ,
|
|
2557
|
name = parser.parseReferencedName("Hoffmannia ixtlanensis Lorence"
|
|
2558
|
+ " in Novon 4: 121. fig. 2a, b. 1994");
|
|
2559
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2560
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2561
|
assertEquals( "Lorence", combinationAuthor.getNomenclaturalTitle());
|
|
2562
|
nomRef = name.getNomenclaturalReference();
|
|
2563
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2564
|
assertEquals("4", nomRef.getVolume());
|
|
2565
|
assertEquals("121. fig. 2a, b", name.getNomenclaturalMicroReference());
|
|
2566
|
|
|
2567
|
//detail with , to number
|
|
2568
|
name = parser.parseReferencedName("Deppea martinez-calderonii Lorence"
|
|
2569
|
+ " in Allertonia 4: 399. figs 1e, 2. 1988");
|
|
2570
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2571
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2572
|
assertEquals( "Lorence", combinationAuthor.getNomenclaturalTitle());
|
|
2573
|
nomRef = name.getNomenclaturalReference();
|
|
2574
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2575
|
assertEquals("4", nomRef.getVolume());
|
|
2576
|
assertEquals("399. figs 1e, 2", name.getNomenclaturalMicroReference());
|
|
2577
|
|
|
2578
|
//(Suppl.)
|
|
2579
|
name = parser.parseReferencedName("Manettia costaricensis Wernham"
|
|
2580
|
+ " in J. Bot. 57(Suppl.): 38. 1919");
|
|
2581
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2582
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2583
|
assertEquals( "Wernham", combinationAuthor.getNomenclaturalTitle());
|
|
2584
|
nomRef = name.getNomenclaturalReference();
|
|
2585
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2586
|
assertEquals("57(Suppl.)", nomRef.getVolume());
|
|
2587
|
assertEquals("38", name.getNomenclaturalMicroReference());
|
|
2588
|
|
|
2589
|
//NY.
|
|
2590
|
name = parser.parseReferencedName("Crusea psyllioides (Kunth) W.R. Anderson"
|
|
2591
|
+ " in Mem. NY. Bot. Gard. 22: 75. 1972");
|
|
2592
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2593
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2594
|
assertEquals( "W.R. Anderson", combinationAuthor.getNomenclaturalTitle());
|
|
2595
|
nomRef = name.getNomenclaturalReference();
|
|
2596
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2597
|
assertEquals("22", nomRef.getVolume());
|
|
2598
|
assertEquals("75", name.getNomenclaturalMicroReference());
|
|
2599
|
|
|
2600
|
//apostroph word in title
|
|
2601
|
name = parser.parseReferencedName("Sabicea glabrescens Benth."
|
|
2602
|
+ " in Hooker's J. Bot. Kew Gard. Misc. 3: 219. 1841");
|
|
2603
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2604
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2605
|
assertEquals( "Benth.", combinationAuthor.getNomenclaturalTitle());
|
|
2606
|
nomRef = name.getNomenclaturalReference();
|
|
2607
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2608
|
assertEquals("3", nomRef.getVolume());
|
|
2609
|
assertEquals("219", name.getNomenclaturalMicroReference());
|
|
2610
|
|
|
2611
|
// place published e.g. (Hannover)
|
|
2612
|
name = parser.parseReferencedName("Pittoniotis trichantha Griseb."
|
|
2613
|
+ " in Bonplandia (Hannover) 6 (1): 8. 1858");
|
|
2614
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2615
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2616
|
assertEquals( "Griseb.", combinationAuthor.getNomenclaturalTitle());
|
|
2617
|
nomRef = name.getNomenclaturalReference();
|
|
2618
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2619
|
assertEquals("6 (1)", nomRef.getVolume());
|
|
2620
|
assertEquals("8", name.getNomenclaturalMicroReference());
|
|
2621
|
|
|
2622
|
//komplex / incorrect year without quotation marks
|
|
2623
|
name = parser.parseReferencedName("Javorkaea Borhidi & Jarai-Koml."
|
|
2624
|
+ " in Acta Bot. Hung. 29(1\u20134): 16, f. 1\u20132, t. 1-8. 1983 [1984]");
|
|
2625
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2626
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2627
|
assertEquals( "Borhidi & Jarai-Koml.", combinationAuthor.getNomenclaturalTitle());
|
|
2628
|
nomRef = name.getNomenclaturalReference();
|
|
2629
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2630
|
assertEquals("29(1\u20134)", nomRef.getVolume());
|
|
2631
|
assertEquals("16, f. 1\u20132, t. 1-8", name.getNomenclaturalMicroReference());
|
|
2632
|
assertEquals("1983 [1984]", nomRef.getDatePublishedString());
|
|
2633
|
// assertEquals("1984", nomRef.getYear()); //was like this, but is not necessarily correct, see #7429
|
|
2634
|
|
|
2635
|
//incorrect year with \u201e \u201f (s. eu.etaxonomy.cdm.common.UTF8.ENGLISH_QUOT_START
|
|
2636
|
name = parser.parseReferencedName("Javorkaea Borhidi & Jarai-Koml."
|
|
2637
|
+ " in Acta Bot. Hung. 29(1-4): 16, f. 1-2. \u201e1983\u201f [1984]");
|
|
2638
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2639
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2640
|
assertEquals( "Borhidi & Jarai-Koml.", combinationAuthor.getNomenclaturalTitle());
|
|
2641
|
nomRef = name.getNomenclaturalReference();
|
|
2642
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2643
|
assertEquals("29(1-4)", nomRef.getVolume());
|
|
2644
|
assertEquals("16, f. 1-2", name.getNomenclaturalMicroReference());
|
|
2645
|
assertEquals("1984 [\"1983\"]", nomRef.getDatePublishedString());
|
|
2646
|
assertEquals("1984", nomRef.getYear());
|
|
2647
|
|
|
2648
|
//incorrect year with "
|
|
2649
|
name = parser.parseReferencedName("Javorkaea Borhidi & Jarai-Koml."
|
|
2650
|
+ " in Acta Bot. Hung. 29(1-4): 16, f. 1-2. \"1983\" [1984]");
|
|
2651
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2652
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2653
|
assertEquals( "Borhidi & Jarai-Koml.", combinationAuthor.getNomenclaturalTitle());
|
|
2654
|
nomRef = name.getNomenclaturalReference();
|
|
2655
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2656
|
assertEquals("29(1-4)", nomRef.getVolume());
|
|
2657
|
assertEquals("16, f. 1-2", name.getNomenclaturalMicroReference());
|
|
2658
|
//changed from "1983" [1984] to 1984 ["1983"] after implementing #7429
|
|
2659
|
assertEquals("1984 [\"1983\"]", nomRef.getDatePublishedString());
|
|
2660
|
assertEquals("1984", nomRef.getYear());
|
|
2661
|
|
|
2662
|
//fig. a
|
|
2663
|
name = parser.parseReferencedName("Psychotria capitata Ruiz & Pav."
|
|
2664
|
+ " in Fl. Peruv. 2: 59, pl. 206, fig. a. 1799");
|
|
2665
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2666
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2667
|
assertEquals( "Ruiz & Pav.", combinationAuthor.getNomenclaturalTitle());
|
|
2668
|
nomRef = name.getNomenclaturalReference();
|
|
2669
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2670
|
assertEquals("2", nomRef.getVolume());
|
|
2671
|
assertEquals("59, pl. 206, fig. a", name.getNomenclaturalMicroReference());
|
|
2672
|
|
|
2673
|
//442A.
|
|
2674
|
name = parser.parseReferencedName("Rogiera elegans Planch."
|
|
2675
|
+ " in Fl. Serres Jard. Eur. 5: 442A. 1849");
|
|
2676
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2677
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2678
|
assertEquals( "Planch.", combinationAuthor.getNomenclaturalTitle());
|
|
2679
|
nomRef = name.getNomenclaturalReference();
|
|
2680
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2681
|
assertEquals("5", nomRef.getVolume());
|
|
2682
|
assertEquals("442A", name.getNomenclaturalMicroReference());
|
|
2683
|
|
|
2684
|
//f
|
|
2685
|
name = parser.parseReferencedName("Coussarea imitans L.O. Williams"
|
|
2686
|
+ " in Phytologia 26 (6): 488-489, f. 1973");
|
|
2687
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2688
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2689
|
assertEquals( "L.O. Williams", combinationAuthor.getNomenclaturalTitle());
|
|
2690
|
nomRef = name.getNomenclaturalReference();
|
|
2691
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2692
|
assertEquals("26 (6)", nomRef.getVolume());
|
|
2693
|
assertEquals("488-489, f", name.getNomenclaturalMicroReference());
|
|
2694
|
|
|
2695
|
//Phys.-Med.
|
|
2696
|
name = parser.parseReferencedName("Coccocypselum cordifolium Nees & Mart."
|
|
2697
|
+ " in Nova Acta Phys.-Med. Acad. Caes.\u2013Leop. Nat. Cur. 12: 14. 1824");
|
|
2698
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2699
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2700
|
assertEquals( "Nees & Mart.", combinationAuthor.getNomenclaturalTitle());
|
|
2701
|
nomRef = name.getNomenclaturalReference();
|
|
2702
|
assertEquals(ReferenceType.Article, nomRef.getType());
|
|
2703
|
assertEquals("Nova Acta Phys.-Med. Acad. Caes.\u2013Leop. Nat. Cur.", nomRef.getInReference().getAbbrevTitle());
|
|
2704
|
assertEquals("12", nomRef.getVolume());
|
|
2705
|
assertEquals("14", name.getNomenclaturalMicroReference());
|
|
2706
|
assertEquals("1824", nomRef.getYear());
|
|
2707
|
|
|
2708
|
//(ed. 10) wanted?
|
|
2709
|
// Syst. Nat. (ed. 10) 2: 930. 1759
|
|
2710
|
// name = parser.parseReferencedName("Erithalis fruticosa L."
|
|
2711
|
// + ", Syst. Nat. ed. 10, 2: 930. 1759");
|
|
2712
|
// Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2713
|
// combinationAuthor = name.getCombinationAuthorship();
|
|
2714
|
// assertEquals( "L.", combinationAuthor.getNomenclaturalTitle());
|
|
2715
|
// nomRef = (Reference)name.getNomenclaturalReference();
|
|
2716
|
// assertEquals(ReferenceType.Book, nomRef.getType());
|
|
2717
|
// assertEquals("2", nomRef.getVolume());
|
|
2718
|
// assertEquals("10", nomRef.getEdition());
|
|
2719
|
// assertEquals("930", name.getNomenclaturalMicroReference());
|
|
2720
|
// assertEquals("1759", nomRef.getYear());
|
|
2721
|
|
|
2722
|
//issue with letter "(1a)"
|
|
2723
|
name = parser.parseReferencedName("Arthraerua (Kuntze) Schinz,"
|
|
2724
|
+ " Nat. Pflanzenfam. 3(1a): 109. 1893");
|
|
2725
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2726
|
combinationAuthor = name.getCombinationAuthorship();
|
|
2727
|
assertEquals( "Schinz", combinationAuthor.getNomenclaturalTitle());
|
|
2728
|
nomRef = name.getNomenclaturalReference();
|
|
2729
|
Assert.assertFalse("Reference should be parsable", nomRef.isProtectedTitleCache());
|
|
2730
|
assertEquals(ReferenceType.Book, nomRef.getType());
|
|
2731
|
assertEquals("Nat. Pflanzenfam.", nomRef.getAbbrevTitle());
|
|
2732
|
assertEquals("3(1a)", nomRef.getVolume());
|
|
2733
|
assertEquals("109", name.getNomenclaturalMicroReference());
|
|
2734
|
assertEquals("1893", nomRef.getYear());
|
|
2735
|
|
|
2736
|
//Accent graph in author name #6057
|
|
2737
|
name = parser.parseReferencedName("Sedum plicatum O`Brian");
|
|
2738
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2739
|
assertEquals( "O`Brian", name.getCombinationAuthorship().getNomenclaturalTitle());
|
|
2740
|
|
|
2741
|
//-e- #6060
|
|
2742
|
name = parser.parseReferencedName("Thamniopsis stenodictyon (Sehnem) Oliveira-e-Silva & O.Yano");
|
|
2743
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2744
|
Team team = (Team)name.getCombinationAuthorship();
|
|
2745
|
assertEquals( "Oliveira-e-Silva", team.getTeamMembers().get(0).getNomenclaturalTitle());
|
|
2746
|
|
|
2747
|
//Vorabdr.
|
|
2748
|
name = parser.parseReferencedName("Ophrys hystera Kreutz & Ruedi Peter in J. Eur. Orchideen 30(Vorabdr.): 128. 1997");
|
|
2749
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2750
|
assertEquals( "30(Vorabdr.)", name.getNomenclaturalReference().getVolume());
|
|
2751
|
|
|
2752
|
//#6100 jun.
|
|
2753
|
String nameStr = "Swida \u00D7 friedlanderi (W.H.Wagner jun.) Holub";
|
|
2754
|
name = parser.parseFullName(nameStr, botanicCode, null); //fails with missing botanicCode, see open issues
|
|
2755
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2756
|
assertEquals( "W.H.Wagner jun.", name.getBasionymAuthorship().getTitleCache());
|
|
2757
|
|
|
2758
|
//#6100 bis /ter
|
|
2759
|
nameStr = "Schistidium aquaticum (R.Br.ter) Ochyra";
|
|
2760
|
name = parser.parseFullName(nameStr);
|
|
2761
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2762
|
assertEquals( "R.Br.ter", name.getBasionymAuthorship().getTitleCache());
|
|
2763
|
|
|
2764
|
nameStr = "Grimmia mitchellii R.Br.bis";
|
|
2765
|
name = parser.parseFullName(nameStr);
|
|
2766
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2767
|
assertEquals( "R.Br.bis", name.getCombinationAuthorship().getTitleCache());
|
|
2768
|
|
|
2769
|
//forma #6100
|
|
2770
|
nameStr = "Xerocomus parasiticus forma piperatoides (J. Blum) R. Mazza";
|
|
2771
|
name = parser.parseFullName(nameStr);
|
|
2772
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2773
|
assertEquals( "piperatoides", name.getInfraSpecificEpithet());
|
|
2774
|
assertEquals( Rank.FORM(), name.getRank());
|
|
2775
|
|
|
2776
|
//subgen. #6100
|
|
2777
|
nameStr = "Aliciella subgen. Gilmania (H.Mason & A.D.Grant) J.M.Porter";
|
|
2778
|
name = parser.parseFullName(nameStr);
|
|
2779
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2780
|
assertEquals( "Gilmania", name.getInfraGenericEpithet());
|
|
2781
|
assertEquals( Rank.SUBGENUS(), name.getRank());
|
|
2782
|
|
|
2783
|
//subgen. #6100
|
|
2784
|
nameStr = "Aliciella subgen. Gilmania J.M.Porter";
|
|
2785
|
name = parser.parseFullName(nameStr);
|
|
2786
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2787
|
assertEquals( "Gilmania", name.getInfraGenericEpithet());
|
|
2788
|
assertEquals( Rank.SUBGENUS(), name.getRank());
|
|
2789
|
assertEquals( "J.M.Porter", name.getCombinationAuthorship().getTitleCache());
|
|
2790
|
|
|
2791
|
//la Croix #6100
|
|
2792
|
nameStr = "Eulophia ovalis var. bainesii (Rolfe) P.J.Cribb & la Croix";
|
|
2793
|
name = parser.parseFullName(nameStr);
|
|
2794
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2795
|
assertEquals( "P.J.Cribb & la Croix", name.getCombinationAuthorship().getTitleCache());
|
|
2796
|
|
|
2797
|
//I = Yi #6100
|
|
2798
|
nameStr = "Parasenecio hwangshanicus (P.I Mao) C.I Peng";
|
|
2799
|
name = parser.parseFullName(nameStr);
|
|
2800
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2801
|
assertEquals("I (=Yi) should be an accepted ending", "C.I Peng", name.getCombinationAuthorship().getTitleCache());
|
|
2802
|
assertEquals("I (=Yi) should be an accepted ending", "P.I Mao", name.getBasionymAuthorship().getTitleCache());
|
|
2803
|
|
|
2804
|
//´t Hart #6100
|
|
2805
|
nameStr = "Sedum decipiens (Baker) Thiede & \u00B4t Hart"; //still does not work with "´", don't know what the difference is, see openIssues()
|
|
2806
|
name = parser.parseFullName(nameStr);
|
|
2807
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2808
|
assertEquals("All types of quotation marks should be accepted, though better match it to standard ' afterwards",
|
|
2809
|
"Thiede & \u00B4t Hart", name.getCombinationAuthorship().getTitleCache());
|
|
2810
|
|
|
2811
|
//Man in 't Veld #6100
|
|
2812
|
nameStr = "Phytophthora multivesiculata Ilieva, Man in 't Veld, Veenbaas-Rijks & Pieters";
|
|
2813
|
name = parser.parseFullName(nameStr);
|
|
2814
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2815
|
assertEquals("Ilieva, Man in 't Veld, Veenbaas-Rijks & Pieters",
|
|
2816
|
name.getCombinationAuthorship().getTitleCache());
|
|
2817
|
assertEquals("Ilieva, Man in 't Veld, Veenbaas-Rijks & Pieters",
|
|
2818
|
name.getCombinationAuthorship().getNomenclaturalTitle());
|
|
2819
|
|
|
2820
|
nameStr = "Thymus \u00D7 herberoi De la Torre, Vicedo, Alonso & Paya";
|
|
2821
|
name = parser.parseFullName(nameStr);
|
|
2822
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2823
|
//TODO may become ... Alonso & al. again in future
|
|
2824
|
assertEquals("Thymus \u00D7herberoi De la Torre, Vicedo, Alonso & Paya", name.getTitleCache());
|
|
2825
|
assertEquals("De la Torre, Vicedo, Alonso & Paya",
|
|
2826
|
name.getCombinationAuthorship().getTitleCache());
|
|
2827
|
assertEquals("De la Torre, Vicedo, Alonso & Paya",
|
|
2828
|
name.getCombinationAuthorship().getNomenclaturalTitle());
|
|
2829
|
|
|
2830
|
//Sant'Anna
|
|
2831
|
nameStr = "Coelosphaerium evidenter-marginatum M.T.P.Azevedo & Sant'Anna";
|
|
2832
|
name = parser.parseFullName(nameStr);
|
|
2833
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2834
|
assertEquals("M.T.P.Azevedo & Sant'Anna", name.getCombinationAuthorship().getTitleCache());
|
|
2835
|
|
|
2836
|
//Heft
|
|
2837
|
nameStr = "Nepenthes deaniana Macfarl. in Engl., Mein Pflanzenr. IV. 111 (Heft 36): 57. 1908.";
|
|
2838
|
name = parser.parseReferencedName(nameStr);
|
|
2839
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2840
|
Reference ref = name.getNomenclaturalReference();
|
|
2841
|
Assert.assertFalse("Reference should be parsable", ref.hasProblem());
|
|
2842
|
//or even better IV. 111 (Heft 36), but this is currently not implemented
|
|
2843
|
assertEquals("111 (Heft 36)", ref.getInReference().getVolume());
|
|
2844
|
|
|
2845
|
//journal with commata at pos 4
|
|
2846
|
nameStr = "Bufonia kotschyana subsp. densa Chrtek & Krisa in Acta Univ.Carol., Biol. 43(2): 105. 1999";
|
|
2847
|
name = parser.parseReferencedName(nameStr);
|
|
2848
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2849
|
String author = name.getAuthorshipCache();
|
|
2850
|
assertEquals("Chrtek & Krisa", author);
|
|
2851
|
ref = name.getNomenclaturalReference();
|
|
2852
|
Assert.assertNotNull("Nomenclatural reference should be an article and therefore have an in reference", ref.getInReference());
|
|
2853
|
Assert.assertEquals(ReferenceType.Journal, ref.getInReference().getType());
|
|
2854
|
|
|
2855
|
//Adansonia #9014, #9551
|
|
2856
|
nameStr = "Casearia annamensis (Gagnep.) Lescot & Sleumer in Adansonia, n.s., 10: 290. 1970";
|
|
2857
|
name = parser.parseReferencedName(nameStr);
|
|
2858
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2859
|
ref = name.getNomenclaturalReference();
|
|
2860
|
Assert.assertEquals(ReferenceType.Article, ref.getType());
|
|
2861
|
Assert.assertNotNull("Nomenclatural reference should be an article and therefore have an in reference", ref.getInReference());
|
|
2862
|
Assert.assertEquals(ReferenceType.Journal, ref.getInReference().getType());
|
|
2863
|
Assert.assertEquals("Adansonia", ref.getInReference().getAbbrevTitle());
|
|
2864
|
|
|
2865
|
//, Bot., sér. 4 #9014, #9551
|
|
2866
|
String ser = "s"+UTF8.SMALL_E_ACUTE+"r";
|
|
2867
|
nameStr = "Asteropeia amblyocarpa Tul. in Ann. Sci. Nat., Bot., "+ser+". 4, 8: 81. 1857";
|
|
2868
|
name = parser.parseReferencedName(nameStr);
|
|
2869
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2870
|
ref = name.getNomenclaturalReference();
|
|
2871
|
Assert.assertEquals(ReferenceType.Article, ref.getType());
|
|
2872
|
Assert.assertNotNull("Nomenclatural reference should be an article and therefore have an in reference", ref.getInReference());
|
|
2873
|
Assert.assertEquals(ReferenceType.Journal, ref.getInReference().getType());
|
|
2874
|
Assert.assertEquals("Ann. Sci. Nat., Bot.", ref.getInReference().getAbbrevTitle());
|
|
2875
|
Assert.assertEquals(ser+". 4", ref.getSeriesPart());
|
|
2876
|
}
|
|
2877
|
|
|
2878
|
@Test
|
|
2879
|
public final void explicitJournalTitles(){
|
|
2880
|
//PhytoKeys #9550
|
|
2881
|
String nameStr = "Pseudopodospermum baeticum (DC.) Zaika & al. in PhytoKeys 137: 68. 2020";
|
|
2882
|
TaxonName name = parser.parseReferencedName(nameStr);
|
|
2883
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2884
|
Reference ref = name.getNomenclaturalReference();
|
|
2885
|
Assert.assertNotNull("Nomenclatural reference should be an article and therefore have an in reference", ref.getInReference());
|
|
2886
|
Assert.assertEquals(ReferenceType.Journal, ref.getInReference().getType());
|
|
2887
|
Assert.assertEquals("PhytoKeys", ref.getInReference().getAbbrevTitle());
|
|
2888
|
|
|
2889
|
//PLoS ONE #9550 //remaining issue: ", e82692" #9552
|
|
2890
|
// nameStr = "Pseudopodospermum baeticum (DC.) Zaika & al. in PLoS ONE 8(12), e82692: 17. 2013";
|
|
2891
|
nameStr = "Pseudopodospermum baeticum (DC.) Zaika & al. in PLoS ONE 8(12): 17. 2013";
|
|
2892
|
name = parser.parseReferencedName(nameStr);
|
|
2893
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2894
|
ref = name.getNomenclaturalReference();
|
|
2895
|
Assert.assertNotNull("Nomenclatural reference should be an article and therefore have an in reference", ref.getInReference());
|
|
2896
|
Assert.assertEquals(ReferenceType.Journal, ref.getInReference().getType());
|
|
2897
|
Assert.assertEquals("PLoS ONE", ref.getInReference().getAbbrevTitle());
|
|
2898
|
}
|
|
2899
|
|
|
2900
|
@Test
|
|
2901
|
//#3666
|
|
2902
|
public final void testOriginalSpelling(){
|
|
2903
|
|
|
2904
|
String nameStr = "Abies alba Mill, Sp. Pl. 2: 333. 1751 [as \"alpa\"]";
|
|
2905
|
TaxonName name = parser.parseReferencedName(nameStr);
|
|
2906
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2907
|
Reference ref = name.getNomenclaturalReference();
|
|
2908
|
Assert.assertFalse("Reference should be parsable", ref.isProtectedTitleCache());
|
|
2909
|
TaxonName originalName = name.getNomenclaturalSource().getNameUsedInSource();
|
|
2910
|
Assert.assertNotNull("An original spelling should exist", originalName);
|
|
2911
|
Assert.assertFalse("Namecache should not be parsable", originalName.isProtectedNameCache());
|
|
2912
|
Assert.assertEquals("Abies alpa", originalName.getNameCache());
|
|
2913
|
Assert.assertEquals("Sp. Pl.", name.getNomenclaturalSource().getCitation().getAbbrevTitle());
|
|
2914
|
Assert.assertEquals("1751", name.getNomenclaturalSource().getCitation().getYear());
|
|
2915
|
|
|
2916
|
//without ref
|
|
2917
|
nameStr = "Abies alba Mill [as \"alpa\"]";
|
|
2918
|
name = parser.parseReferencedName(nameStr);
|
|
2919
|
originalName = name.getNomenclaturalSource().getNameUsedInSource();
|
|
2920
|
Assert.assertFalse("Namecache should not be parsable", originalName.isProtectedNameCache());
|
|
2921
|
Assert.assertEquals("Abies alpa", originalName.getNameCache());
|
|
2922
|
|
|
2923
|
//without author
|
|
2924
|
nameStr = "Abies alba [as \"alpa\"]";
|
|
2925
|
name = parser.parseReferencedName(nameStr);
|
|
2926
|
originalName = name.getNomenclaturalSource().getNameUsedInSource();
|
|
2927
|
Assert.assertFalse("Namecache should not be parsable", originalName.isProtectedNameCache());
|
|
2928
|
Assert.assertEquals("Abies alpa", originalName.getNameCache());
|
|
2929
|
|
|
2930
|
//with status
|
|
2931
|
nameStr = "Abies alba Mill, Sp. Pl. 2: 333. 1751 [as \"alpa\"], nom. inval.";
|
|
2932
|
name = parser.parseReferencedName(nameStr);
|
|
2933
|
originalName = name.getNomenclaturalSource().getNameUsedInSource();
|
|
2934
|
Assert.assertFalse("Namecache should not be parsable", originalName.isProtectedNameCache());
|
|
2935
|
Assert.assertEquals("Abies alpa", originalName.getNameCache());
|
|
2936
|
Assert.assertEquals(1, name.getStatus().size());
|
|
2937
|
|
|
2938
|
nameStr = "Abies alba Mill, Sp. Pl. 2: 333. 1751 [as \"Abies alpa\"]";
|
|
2939
|
name = parser.parseReferencedName(nameStr);
|
|
2940
|
originalName = name.getNomenclaturalSource().getNameUsedInSource();
|
|
2941
|
Assert.assertFalse("Namecache should not be parsable", originalName.isProtectedNameCache());
|
|
2942
|
Assert.assertEquals("Abies alpa", originalName.getNameCache());
|
|
2943
|
|
|
2944
|
nameStr = "Abies alba Mill, Sp. Pl. 2: 333. 1751 [as \"Apies alpa\"]";
|
|
2945
|
name = parser.parseReferencedName(nameStr);
|
|
2946
|
originalName = name.getNomenclaturalSource().getNameUsedInSource();
|
|
2947
|
Assert.assertFalse("Namecache should not be parsable", originalName.isProtectedNameCache());
|
|
2948
|
Assert.assertEquals("Apies alpa", originalName.getNameCache());
|
|
2949
|
|
|
2950
|
nameStr = "Abies alba Mill, Sp. Pl. 2: 333. 1751 [as \"Apies\"]";
|
|
2951
|
name = parser.parseReferencedName(nameStr);
|
|
2952
|
originalName = name.getNomenclaturalSource().getNameUsedInSource();
|
|
2953
|
Assert.assertFalse("Namecache should not be parsable", originalName.isProtectedNameCache());
|
|
2954
|
Assert.assertEquals("Apies alba", originalName.getNameCache());
|
|
2955
|
|
|
2956
|
nameStr = "Abies alba subsp. beta Mill, Sp. Pl. 2: 333. 1751 [as \"peta\"]";
|
|
2957
|
name = parser.parseReferencedName(nameStr);
|
|
2958
|
originalName = name.getNomenclaturalSource().getNameUsedInSource();
|
|
2959
|
Assert.assertFalse("Namecache should not be parsable", originalName.isProtectedNameCache());
|
|
2960
|
Assert.assertEquals("Abies alba subsp. peta", originalName.getNameCache());
|
|
2961
|
|
|
2962
|
nameStr = "Abies alba subsp. beta Mill, Sp. Pl. 2: 333. 1751 [as \"alpa subsp. peta\"]";
|
|
2963
|
name = parser.parseReferencedName(nameStr);
|
|
2964
|
originalName = name.getNomenclaturalSource().getNameUsedInSource();
|
|
2965
|
Assert.assertFalse("Namecache should not be parsable", originalName.isProtectedNameCache());
|
|
2966
|
Assert.assertEquals("Abies alpa subsp. peta", originalName.getNameCache());
|
|
2967
|
|
|
2968
|
//unparsable
|
|
2969
|
nameStr = "Abies alba Mill, Sp. Pl. 2: 333. 1751 [as \"alpa Err\"]";
|
|
2970
|
Assert.assertTrue("Reference should notbe parsable", parser.parseReferencedName(nameStr).getNomenclaturalReference().isProtectedTitleCache());
|
|
2971
|
|
|
2972
|
}
|
|
2973
|
|
|
2974
|
@Test
|
|
2975
|
@Ignore
|
|
2976
|
public final void openIssues(){
|
|
2977
|
//#6100 jun.
|
|
2978
|
String nameStr = "Swida \u00D7 friedlanderi (W.H.Wagner jun.) Holub";
|
|
2979
|
INonViralName name = parser.parseFullName(nameStr, botanicCode, null);
|
|
2980
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2981
|
assertEquals( "W.H.Wagner jun.", name.getBasionymAuthorship().getTitleCache());
|
|
2982
|
name = parser.parseFullName(nameStr); //fails for some reasons without botanicCode given, as anyBotanicFullName is not recognized, strange because other very similar names such as Thymus \u00D7 herberoi De la Torre, Vicedo, Alonso & Paya do not fail
|
|
2983
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2984
|
assertEquals( "W.H.Wagner jun.", name.getBasionymAuthorship().getTitleCache());
|
|
2985
|
|
|
2986
|
//´t Hart #6100
|
|
2987
|
nameStr = "Sedum decipiens (Baker) Thiede & \u00B4t Hart"; //still does not work with "´" if compiled by maven, don't know what the difference is
|
|
2988
|
name = parser.parseFullName(nameStr);
|
|
2989
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2990
|
assertEquals("All types of quotation marks should be accepted, though better match it to standard ' afterwards",
|
|
2991
|
"Thiede & \u00B4t Hart", name.getCombinationAuthorship().getTitleCache());
|
|
2992
|
nameStr = "Sedum decipiens (Baker) Thiede & ´t Hart"; //does not work if compiled with maven
|
|
2993
|
name = parser.parseFullName(nameStr);
|
|
2994
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
2995
|
assertEquals("All types of quotation marks should be accepted, though better match it to standard ' afterwards",
|
|
2996
|
"Thiede & ´t Hart", name.getCombinationAuthorship().getTitleCache());
|
|
2997
|
|
|
2998
|
//should be recognized as book section (see testBookSectionAuthors)
|
|
2999
|
String str = "Iris xiphium var. lusitanica (Ker Gawl.) Franco in Amaral Franco & Rocha Afonso, Nova Fl. Portugal 3: 135. 1994";
|
|
3000
|
name = parser.parseReferencedName(str);
|
|
3001
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
3002
|
Reference nomRef = name.getNomenclaturalReference();
|
|
3003
|
assertEquals(ReferenceType.BookSection, nomRef.getType());
|
|
3004
|
assertEquals( "Amaral Franco & Rocha Afonso", nomRef.getInReference().getAuthorship().getNomenclaturalTitle());
|
|
3005
|
assertEquals( "Nova Fl. Portugal", nomRef.getInReference().getAbbrevTitle());
|
|
3006
|
|
|
3007
|
//same
|
|
3008
|
str = "Fritillaria mutabilis Kamari in Strid & Kit Tan, Mount. Fl. Greece 2: 679. 1991";
|
|
3009
|
name = parser.parseReferencedName(str);
|
|
3010
|
Assert.assertFalse("Name should be parsable", name.isProtectedTitleCache());
|
|
3011
|
nomRef = name.getNomenclaturalReference();
|
|
3012
|
assertEquals(ReferenceType.BookSection, nomRef.getType());
|
|
3013
|
assertEquals( "Strid & Kit Tan", nomRef.getInReference().getAuthorship().getNomenclaturalTitle());
|
|
3014
|
assertEquals( "Mount. Fl. Greece", nomRef.getInReference().getAbbrevTitle());
|
|
3015
|
}
|
|
3016
|
|
|
3017
|
}
|