cdmlib-io/src/test/java/eu/etaxonomy/cdm/io/reference/RisReferenceImportTest.java

   1 /**
   2 * Copyright (C) 2007 EDIT
   3 * European Distributed Institute of Taxonomy
   4 * http://www.e-taxonomy.eu
   5 *
   6 * The contents of this file are subject to the Mozilla Public License Version 1.1
   7 * See LICENSE.TXT at the top of this package for the full license terms.
   8 */
   9
  10 package eu.etaxonomy.cdm.io.reference;
  11
  12 import static org.junit.Assert.assertNotNull;
  13
  14 import java.io.FileNotFoundException;
  15 import java.net.URL;
  16 import java.util.List;
  17
  18 import org.junit.Assert;
  19 import org.junit.Before;
  20 import org.junit.Test;
  21 import org.unitils.dbunit.annotation.DataSet;
  22 import org.unitils.spring.annotation.SpringBeanByName;
  23 import org.unitils.spring.annotation.SpringBeanByType;
  24
  25 import eu.etaxonomy.cdm.api.service.IReferenceService;
  26 import eu.etaxonomy.cdm.common.DOI;
  27 import eu.etaxonomy.cdm.io.common.CdmApplicationAwareDefaultImport;
  28 import eu.etaxonomy.cdm.io.common.IImportConfigurator;
  29 import eu.etaxonomy.cdm.io.common.ImportResult;
  30 import eu.etaxonomy.cdm.io.reference.ris.in.RisReferenceImportConfigurator;
  31 import eu.etaxonomy.cdm.model.agent.Person;
  32 import eu.etaxonomy.cdm.model.agent.TeamOrPersonBase;
  33 import eu.etaxonomy.cdm.model.common.CdmBase;
  34 import eu.etaxonomy.cdm.model.common.TimePeriod;
  35 import eu.etaxonomy.cdm.model.reference.Reference;
  36 import eu.etaxonomy.cdm.model.reference.ReferenceType;
  37 import eu.etaxonomy.cdm.test.integration.CdmTransactionalIntegrationTest;
  38 import eu.etaxonomy.cdm.test.unitils.CleanSweepInsertLoadStrategy;
  39
  40 /**
  41  * @author andy
  42  *
  43  */
  44 public class RisReferenceImportTest extends CdmTransactionalIntegrationTest {
  45
  46         @SpringBeanByName
  47         private CdmApplicationAwareDefaultImport<?> defaultImport;
  48
  49         @SpringBeanByType
  50         private IReferenceService referenceService;
  51
  52         private IImportConfigurator configurator;
  53     private IImportConfigurator configLong;
  54
  55         @Before
  56         public void setUp() {
  57                 String inputFile = "/eu/etaxonomy/cdm/io/reference/RisReferenceImportTest-input.ris";
  58                 URL url = this.getClass().getResource(inputFile);
  59                 assertNotNull("URL for the test file '" + inputFile + "' does not exist", url);
  60
  61                 String inputFileLong = "/eu/etaxonomy/cdm/io/reference/Acantholimon.ris";
  62         URL urlLong = this.getClass().getResource(inputFileLong);
  63         assertNotNull("URL for the test file '" + inputFileLong + "' does not exist", urlLong);
  64
  65                 try {
  66                         configurator = RisReferenceImportConfigurator.NewInstance(url, null);
  67                         configLong = RisReferenceImportConfigurator.NewInstance(urlLong, null);
  68
  69                 } catch (Exception e) {
  70                         e.printStackTrace();
  71                         Assert.fail();
  72                 }
  73                 assertNotNull("Configurator could not be created", configurator);
  74             assertNotNull("Configurator could not be created", configLong);
  75             assertNotNull("nameService should not be null", referenceService);
  76         }
  77
  78 //***************************** TESTS *************************************//
  79
  80         @Test
  81         @DataSet( value="/eu/etaxonomy/cdm/database/BlankDataSet.xml", loadStrategy=CleanSweepInsertLoadStrategy.class)
  82     public void testShort() {
  83                 ImportResult result = defaultImport.invoke(configurator);
  84                 String report = result.createReport().toString();
  85                 Assert.assertTrue(report.length() > 0);
  86                 System.out.println(report);
  87
  88                 Integer expected = 2;
  89                 Assert.assertEquals(expected, result.getNewRecords(Reference.class));
  90
  91                 List<Reference> list = referenceService.list(Reference.class, null, null, null, null);
  92                 Assert.assertEquals("There should be 3 references, the article and the journal and the source reference",
  93                         3, list.size());
  94                 for (Reference ref : list){
  95                     if (ref.equals(configurator.getSourceReference())){
  96                         continue;
  97                     }
  98                     Assert.assertTrue(ref.getType() == ReferenceType.Article || ref.getType() == ReferenceType.Journal);
  99                     if (ref.getType() == ReferenceType.Article){
 100                         //title
 101                         Assert.assertEquals("Decorsella arborea, a second species in Decorsella (Violaceae), and Decorsella versus Rinorea",
 102                                 ref.getTitle());
 103                         //author
 104                         TeamOrPersonBase<?> author = ref.getAuthorship();
 105                         Assert.assertNotNull(author);
 106                         Assert.assertTrue(author.isInstanceOf(Person.class));
 107                         Person person = CdmBase.deproxy(author, Person.class);
 108                         //this may change in future depending on the correct formatting strategy
 109                         Assert.assertEquals("Carel C. H. Jongkind" ,person.getTitleCache());
 110                         Assert.assertEquals("Jongkind" ,person.getLastname());
 111                         Assert.assertEquals("Carel C. H." ,person.getFirstname());
 112                         //date
 113                         TimePeriod date = ref.getDatePublished();
 114                         Assert.assertEquals(Integer.valueOf(2017) ,date.getStartYear());
 115                         //vol
 116                         Assert.assertEquals("47(1)" ,ref.getVolume());
 117                 Assert.assertEquals("43-47" ,ref.getPages());
 118
 119                 //doi
 120                 Assert.assertEquals(DOI.fromString("10.3372/wi.47.47105"),ref.getDoi());
 121
 122                 //Abstract
 123                 Assert.assertEquals("Abstract: A new species of Violaceae, Decorsella arborea Jongkind, is described and illustrated. The new species differs from the only other species in the genus, D. paradoxa A. Chev., by the larger size of the plants, smaller leaves, more slender flowers, and stamen filaments that are free for a much larger part. Both species are from the Guineo-Congolian forest of tropical Africa. The differences between Decorsella and Rinorea are discussed. Confirming recent reports, some species of Rinorea can have zygomorphic flowers and some of these can be almost equal in shape to Decorsella flowers. Citation: Jongkind C. C. H. 2017: Decorsella arborea, a second species in Decorsella (Violaceae), and Decorsella versus Rinorea. ? Willdenowia 47: 43?47. doi: https://doi.org/10.3372/wi.47.47105 Version of record first published online on 13 February 2017 ahead of inclusion in April 2017 issue.",
 124                         ref.getReferenceAbstract());
 125
 126                 //TODO still missing Y1, Y2, M3, UR
 127
 128                     }else if (ref.getType() == ReferenceType.Journal){
 129                         Assert.assertEquals("Willdenowia", ref.getTitle());
 130                         //or is this part of article?
 131                         Assert.assertEquals("Botanic Garden and Botanical Museum Berlin (BGBM)", ref.getPublisher());
 132
 133                         //ISSN
 134                 Assert.assertEquals("0511-9618" ,ref.getIssn());
 135
 136                     }else{
 137                         Assert.fail("Only an article and a journal should exist");
 138                     }
 139                 }
 140
 141         }
 142
 143         @Test
 144     public void testLongFile() {
 145         ImportResult result = defaultImport.invoke(configLong);
 146         String report = result.createReport().toString();
 147         System.out.println(report);
 148
 149         Integer expected = 118;  //did not count yet
 150         Assert.assertEquals(expected, result.getNewRecords(Reference.class));
 151
 152 //        List<Reference> list = referenceService.list(Reference.class, null, null, null, null);
 153 //        Assert.assertEquals("There should be 2 references, the article and the journal", 2, list.size());
 154 //        for (Reference ref : list){
 155 //            Assert.assertTrue(ref.getType() == ReferenceType.Article || ref.getType() == ReferenceType.Journal);
 156 //            if (ref.getType() == ReferenceType.Article){
 157 //                //title
 158 //                Assert.assertEquals("Decorsella arborea, a second species in Decorsella (Violaceae), and Decorsella versus Rinorea",
 159 //                        ref.getTitle());
 160 //                //author
 161 //                TeamOrPersonBase<?> author = ref.getAuthorship();
 162 //                Assert.assertNotNull(author);
 163 //                Assert.assertTrue(author.isInstanceOf(Person.class));
 164 //                Person person = CdmBase.deproxy(author, Person.class);
 165 //                //this may change in future depending on the correct formatting strategy
 166 //                Assert.assertEquals("Carel C. H. Jongkind" ,person.getTitleCache());
 167 //                Assert.assertEquals("Jongkind" ,person.getLastname());
 168 //                Assert.assertEquals("Carel C. H." ,person.getFirstname());
 169 //                //date
 170 //                TimePeriod date = ref.getDatePublished();
 171 //                Assert.assertEquals(Integer.valueOf(2017) ,date.getStartYear());
 172 //                //vol
 173 //                Assert.assertEquals("47(1)" ,ref.getVolume());
 174 //                Assert.assertEquals("43-47" ,ref.getPages());
 175 //
 176 //                //doi
 177 //                Assert.assertEquals(DOI.fromString("10.3372/wi.47.47105"),ref.getDoi());
 178 //
 179 //                //Abstract
 180 //                Assert.assertEquals("Abstract: A new species of Violaceae, Decorsella arborea Jongkind, is described and illustrated. The new species differs from the only other species in the genus, D. paradoxa A. Chev., by the larger size of the plants, smaller leaves, more slender flowers, and stamen filaments that are free for a much larger part. Both species are from the Guineo-Congolian forest of tropical Africa. The differences between Decorsella and Rinorea are discussed. Confirming recent reports, some species of Rinorea can have zygomorphic flowers and some of these can be almost equal in shape to Decorsella flowers. Citation: Jongkind C. C. H. 2017: Decorsella arborea, a second species in Decorsella (Violaceae), and Decorsella versus Rinorea. ? Willdenowia 47: 43?47. doi: https://doi.org/10.3372/wi.47.47105 Version of record first published online on 13 February 2017 ahead of inclusion in April 2017 issue.",
 181 //                        ref.getReferenceAbstract());
 182 //
 183 //                //TODO still missing Y1, Y2, M3, UR
 184 //
 185 //            }else if (ref.getType() == ReferenceType.Journal){
 186 //                Assert.assertEquals("Willdenowia", ref.getTitle());
 187 //                //or is this part of article?
 188 //                Assert.assertEquals("Botanic Garden and Botanical Museum Berlin (BGBM)", ref.getPublisher());
 189 //
 190 //                //ISSN
 191 //                Assert.assertEquals("0511-9618" ,ref.getIssn());
 192 //
 193 //            }else{
 194 //                Assert.fail("Only an article and a journal should exist");
 195 //            }
 196 //        }
 197
 198     }
 199
 200     @Override
 201     public void createTestDataSet() throws FileNotFoundException {}
 202 }