forked from D-Net/dnet-hadoop
737 lines
27 KiB
Java
737 lines
27 KiB
Java
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package eu.dnetlib.dhp.oa.graph.raw;
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import static eu.dnetlib.dhp.schema.oaf.utils.GraphCleaningFunctions.cleanup;
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import static eu.dnetlib.dhp.schema.oaf.utils.GraphCleaningFunctions.fixVocabularyNames;
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import static org.junit.jupiter.api.Assertions.*;
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import static org.mockito.Mockito.lenient;
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import java.io.IOException;
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import java.util.List;
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import java.util.Optional;
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import org.apache.commons.io.IOUtils;
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import org.apache.commons.lang3.StringUtils;
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import org.junit.jupiter.api.BeforeEach;
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import org.junit.jupiter.api.Test;
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import org.junit.jupiter.api.extension.ExtendWith;
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import org.mockito.Mock;
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import org.mockito.junit.jupiter.MockitoExtension;
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import com.fasterxml.jackson.databind.ObjectMapper;
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import eu.dnetlib.dhp.common.vocabulary.VocabularyGroup;
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import eu.dnetlib.dhp.oa.graph.clean.GraphCleaningFunctionsTest;
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import eu.dnetlib.dhp.schema.common.ModelConstants;
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import eu.dnetlib.dhp.schema.oaf.*;
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import eu.dnetlib.dhp.schema.oaf.utils.PidType;
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import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpService;
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@ExtendWith(MockitoExtension.class)
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public class MappersTest {
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@Mock
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private ISLookUpService isLookUpService;
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@Mock
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private VocabularyGroup vocs;
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@BeforeEach
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public void setUp() throws Exception {
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lenient().when(isLookUpService.quickSearchProfile(VocabularyGroup.VOCABULARIES_XQUERY)).thenReturn(vocs());
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lenient()
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.when(isLookUpService.quickSearchProfile(VocabularyGroup.VOCABULARY_SYNONYMS_XQUERY))
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.thenReturn(synonyms());
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vocs = VocabularyGroup.loadVocsFromIS(isLookUpService);
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}
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@Test
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void testPublication() throws IOException {
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final String xml = IOUtils.toString(getClass().getResourceAsStream("oaf_record.xml"));
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final List<Oaf> list = new OafToOafMapper(vocs, false, true).processMdRecord(xml);
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assertEquals(3, list.size());
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assertTrue(list.get(0) instanceof Publication);
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assertTrue(list.get(1) instanceof Relation);
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assertTrue(list.get(2) instanceof Relation);
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final Publication p = (Publication) list.get(0);
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final Relation r1 = (Relation) list.get(1);
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final Relation r2 = (Relation) list.get(2);
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assertValidId(p.getId());
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assertEquals(2, p.getOriginalId().size());
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assertTrue(p.getOriginalId().contains("10.3897/oneeco.2.e13718"));
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assertValidId(p.getCollectedfrom().get(0).getKey());
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assertTrue(StringUtils.isNotBlank(p.getTitle().get(0).getValue()));
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assertFalse(p.getDataInfo().getInvisible());
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assertTrue(p.getSource().size() == 1);
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assertTrue(StringUtils.isNotBlank(p.getDateofcollection()));
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assertTrue(StringUtils.isNotBlank(p.getDateoftransformation()));
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assertTrue(p.getAuthor().size() > 0);
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final Optional<Author> author = p
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.getAuthor()
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.stream()
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.filter(a -> a.getPid() != null && !a.getPid().isEmpty())
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.findFirst();
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assertTrue(author.isPresent());
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final StructuredProperty pid = author
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.get()
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.getPid()
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.stream()
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.findFirst()
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.get();
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assertEquals("0000-0001-6651-1178", pid.getValue());
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assertEquals(ModelConstants.ORCID_PENDING, pid.getQualifier().getClassid());
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assertEquals(ModelConstants.ORCID_CLASSNAME, pid.getQualifier().getClassname());
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assertEquals(ModelConstants.DNET_PID_TYPES, pid.getQualifier().getSchemeid());
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assertEquals(ModelConstants.DNET_PID_TYPES, pid.getQualifier().getSchemename());
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assertEquals("Votsi,Nefta", author.get().getFullname());
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assertEquals("Votsi", author.get().getSurname());
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assertEquals("Nefta", author.get().getName());
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assertTrue(p.getSubject().size() > 0);
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assertTrue(StringUtils.isNotBlank(p.getJournal().getIssnOnline()));
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assertTrue(StringUtils.isNotBlank(p.getJournal().getName()));
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assertTrue(p.getPid().isEmpty());
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assertNotNull(p.getInstance());
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assertTrue(p.getInstance().size() > 0);
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p
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.getInstance()
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.stream()
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.forEach(i -> {
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assertNotNull(i.getAccessright());
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assertEquals("OPEN", i.getAccessright().getClassid());
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});
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assertEquals("0001", p.getInstance().get(0).getRefereed().getClassid());
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assertNotNull(p.getInstance().get(0).getPid());
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assertTrue(p.getInstance().get(0).getPid().isEmpty());
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assertTrue(!p.getInstance().get(0).getAlternateIdentifier().isEmpty());
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assertEquals("doi", p.getInstance().get(0).getAlternateIdentifier().get(0).getQualifier().getClassid());
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assertEquals("10.3897/oneeco.2.e13718", p.getInstance().get(0).getAlternateIdentifier().get(0).getValue());
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assertNotNull(p.getBestaccessright());
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assertEquals("OPEN", p.getBestaccessright().getClassid());
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assertValidId(r1.getSource());
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assertValidId(r1.getTarget());
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assertValidId(r2.getSource());
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assertValidId(r2.getTarget());
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assertValidId(r1.getCollectedfrom().get(0).getKey());
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assertValidId(r2.getCollectedfrom().get(0).getKey());
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assertNotNull(r1.getDataInfo());
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assertNotNull(r2.getDataInfo());
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assertNotNull(r1.getDataInfo().getTrust());
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assertNotNull(r2.getDataInfo().getTrust());
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assertEquals(r1.getSource(), r2.getTarget());
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assertEquals(r2.getSource(), r1.getTarget());
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assertTrue(StringUtils.isNotBlank(r1.getRelClass()));
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assertTrue(StringUtils.isNotBlank(r2.getRelClass()));
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assertTrue(StringUtils.isNotBlank(r1.getRelType()));
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assertTrue(StringUtils.isNotBlank(r2.getRelType()));
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assertTrue(r1.getValidated());
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assertTrue(r2.getValidated());
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assertEquals(r1.getValidationDate(), "2020-01-01");
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assertEquals(r2.getValidationDate(), "2020-01-01");
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// System.out.println(new ObjectMapper().writeValueAsString(p));
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// System.out.println(new ObjectMapper().writeValueAsString(r1));
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// System.out.println(new ObjectMapper().writeValueAsString(r2));
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}
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@Test
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void testPublication_PubMed() throws IOException {
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final String xml = IOUtils.toString(getClass().getResourceAsStream("oaf_record_pubmed.xml"));
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final List<Oaf> list = new OafToOafMapper(vocs, false, true).processMdRecord(xml);
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assertEquals(1, list.size());
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assertTrue(list.get(0) instanceof Publication);
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final Publication p = (Publication) list.get(0);
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assertValidId(p.getId());
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assertEquals(2, p.getOriginalId().size());
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assertTrue(p.getOriginalId().contains("oai:pubmedcentral.nih.gov:1517292"));
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assertValidId(p.getCollectedfrom().get(0).getKey());
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assertTrue(StringUtils.isNotBlank(p.getTitle().get(0).getValue()));
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assertFalse(p.getDataInfo().getInvisible());
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assertTrue(StringUtils.isNotBlank(p.getDateofcollection()));
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assertTrue(StringUtils.isNotBlank(p.getDateoftransformation()));
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assertTrue(p.getAuthor().size() > 0);
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final Optional<Author> author = p
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.getAuthor()
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.stream()
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.filter(a -> a.getPid() != null && !a.getPid().isEmpty())
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.findFirst();
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assertTrue(author.isPresent());
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final StructuredProperty pid = author
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.get()
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.getPid()
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.stream()
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.findFirst()
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.get();
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assertEquals("0000-0001-6651-1178", pid.getValue());
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assertEquals(ModelConstants.ORCID_PENDING, pid.getQualifier().getClassid());
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assertEquals(ModelConstants.ORCID_CLASSNAME, pid.getQualifier().getClassname());
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assertEquals(ModelConstants.DNET_PID_TYPES, pid.getQualifier().getSchemeid());
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assertEquals(ModelConstants.DNET_PID_TYPES, pid.getQualifier().getSchemename());
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assertEquals("Votsi,Nefta", author.get().getFullname());
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assertEquals("Votsi", author.get().getSurname());
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assertEquals("Nefta", author.get().getName());
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assertTrue(p.getSubject().size() > 0);
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assertTrue(p.getPid().size() > 0);
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assertEquals(p.getPid().get(0).getValue(), "PMC1517292");
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assertEquals(p.getPid().get(0).getQualifier().getClassid(), "pmc");
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assertNotNull(p.getInstance());
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assertTrue(p.getInstance().size() > 0);
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p
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.getInstance()
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.stream()
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.forEach(i -> {
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assertNotNull(i.getAccessright());
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assertEquals("OPEN", i.getAccessright().getClassid());
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});
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assertEquals("UNKNOWN", p.getInstance().get(0).getRefereed().getClassid());
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assertNotNull(p.getInstance().get(0).getPid());
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assertTrue(p.getInstance().get(0).getPid().size() == 2);
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assertTrue(p.getInstance().get(0).getAlternateIdentifier().size() == 1);
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assertEquals("doi", p.getInstance().get(0).getAlternateIdentifier().get(0).getQualifier().getClassid());
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assertEquals("10.3897/oneeco.2.e13718", p.getInstance().get(0).getAlternateIdentifier().get(0).getValue());
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assertNotNull(p.getBestaccessright());
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assertEquals("OPEN", p.getBestaccessright().getClassid());
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}
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@Test
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void testPublicationInvisible() throws IOException {
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final String xml = IOUtils.toString(getClass().getResourceAsStream("oaf_record.xml"));
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final List<Oaf> list = new OafToOafMapper(vocs, true, true).processMdRecord(xml);
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assertTrue(list.size() > 0);
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assertTrue(list.get(0) instanceof Publication);
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final Publication p = (Publication) list.get(0);
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assertTrue(p.getDataInfo().getInvisible());
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}
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@Test
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void testDataset() throws IOException {
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final String xml = IOUtils.toString(getClass().getResourceAsStream("odf_dataset.xml"));
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final List<Oaf> list = new OdfToOafMapper(vocs, false, true).processMdRecord(xml);
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assertEquals(3, list.size());
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assertTrue(list.get(0) instanceof Dataset);
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assertTrue(list.get(1) instanceof Relation);
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assertTrue(list.get(2) instanceof Relation);
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final Dataset d = (Dataset) list.get(0);
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final Relation r1 = (Relation) list.get(1);
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final Relation r2 = (Relation) list.get(2);
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assertValidId(d.getId());
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assertEquals(2, d.getOriginalId().size());
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assertTrue(d.getOriginalId().stream().anyMatch(oid -> oid.equals("oai:zenodo.org:3234526")));
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assertValidId(d.getCollectedfrom().get(0).getKey());
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assertTrue(StringUtils.isNotBlank(d.getTitle().get(0).getValue()));
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assertTrue(d.getAuthor().size() > 0);
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final Optional<Author> author = d
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.getAuthor()
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.stream()
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.filter(a -> a.getPid() != null && !a.getPid().isEmpty())
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.findFirst();
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assertTrue(author.isPresent());
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final StructuredProperty pid = author
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.get()
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.getPid()
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.stream()
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.findFirst()
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.get();
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assertEquals("0000-0001-9074-1619", pid.getValue());
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assertEquals(ModelConstants.ORCID_PENDING, pid.getQualifier().getClassid());
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assertEquals(ModelConstants.ORCID_CLASSNAME, pid.getQualifier().getClassname());
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assertEquals(ModelConstants.DNET_PID_TYPES, pid.getQualifier().getSchemeid());
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assertEquals(ModelConstants.DNET_PID_TYPES, pid.getQualifier().getSchemename());
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assertEquals("Baracchini, Theo", author.get().getFullname());
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assertEquals("Baracchini", author.get().getSurname());
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assertEquals("Theo", author.get().getName());
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assertEquals(1, author.get().getAffiliation().size());
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final Optional<Field<String>> opAff = author
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.get()
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.getAffiliation()
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.stream()
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.findFirst();
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assertTrue(opAff.isPresent());
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final Field<String> affiliation = opAff.get();
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assertEquals("ISTI-CNR", affiliation.getValue());
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assertTrue(d.getSubject().size() > 0);
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assertTrue(d.getInstance().size() > 0);
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assertTrue(d.getContext().size() > 0);
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assertTrue(d.getContext().get(0).getId().length() > 0);
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assertNotNull(d.getInstance());
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assertTrue(d.getInstance().size() > 0);
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d
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.getInstance()
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.stream()
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.forEach(i -> {
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assertNotNull(i.getAccessright());
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assertEquals("OPEN", i.getAccessright().getClassid());
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});
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assertEquals("0001", d.getInstance().get(0).getRefereed().getClassid());
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assertNotNull(d.getInstance().get(0).getPid());
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assertTrue(d.getInstance().get(0).getPid().isEmpty());
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assertEquals("doi", d.getInstance().get(0).getAlternateIdentifier().get(0).getQualifier().getClassid());
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assertEquals("10.5281/zenodo.3234526", d.getInstance().get(0).getAlternateIdentifier().get(0).getValue());
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assertValidId(r1.getSource());
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assertValidId(r1.getTarget());
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assertValidId(r2.getSource());
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assertValidId(r2.getTarget());
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assertNotNull(r1.getDataInfo());
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assertNotNull(r2.getDataInfo());
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assertNotNull(r1.getDataInfo().getTrust());
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assertNotNull(r2.getDataInfo().getTrust());
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assertEquals(r1.getSource(), r2.getTarget());
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assertEquals(r2.getSource(), r1.getTarget());
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assertTrue(StringUtils.isNotBlank(r1.getRelClass()));
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assertTrue(StringUtils.isNotBlank(r2.getRelClass()));
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assertTrue(StringUtils.isNotBlank(r1.getRelType()));
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assertTrue(StringUtils.isNotBlank(r2.getRelType()));
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assertTrue(r1.getValidated());
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assertTrue(r2.getValidated());
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assertEquals(r1.getValidationDate(), "2020-01-01");
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assertEquals(r2.getValidationDate(), "2020-01-01");
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}
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@Test
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void testOdfBielefeld() throws IOException {
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final String xml = IOUtils.toString(getClass().getResourceAsStream("odf_bielefeld.xml"));
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final List<Oaf> list = new OdfToOafMapper(vocs, false, true).processMdRecord(xml);
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assertEquals(1, list.size());
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assertTrue(list.get(0) instanceof Publication);
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final Publication p = (Publication) list.get(0);
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assertValidId(p.getId());
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assertEquals(2, p.getOriginalId().size());
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assertTrue(p.getOriginalId().stream().anyMatch(oid -> oid.equals("oai:pub.uni-bielefeld.de:2949739")));
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// assertEquals("oai:pub.uni-bielefeld.de:2949739", p.getOriginalId().get(0));
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assertValidId(p.getCollectedfrom().get(0).getKey());
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assertTrue(p.getAuthor().size() > 0);
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final Optional<Author> author = p
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.getAuthor()
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.stream()
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.findFirst();
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assertTrue(author.isPresent());
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assertEquals("Potwarka, Luke R.", author.get().getFullname());
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assertEquals("Potwarka", author.get().getSurname());
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assertEquals("Luke R.", author.get().getName());
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assertTrue(p.getSubject().size() > 0);
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assertTrue(p.getInstance().size() > 0);
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assertNotNull(p.getTitle());
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assertFalse(p.getTitle().isEmpty());
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assertNotNull(p.getInstance());
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assertTrue(p.getInstance().size() > 0);
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p
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.getInstance()
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.stream()
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.forEach(i -> {
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assertNotNull(i.getAccessright());
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assertEquals("OPEN", i.getAccessright().getClassid());
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});
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assertEquals("UNKNOWN", p.getInstance().get(0).getRefereed().getClassid());
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}
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@Test
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void testOpentrial() throws IOException {
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final String xml = IOUtils.toString(getClass().getResourceAsStream("odf_opentrial.xml"));
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final List<Oaf> list = new OdfToOafMapper(vocs, false, true).processMdRecord(xml);
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assertEquals(1, list.size());
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assertTrue(list.get(0) instanceof Dataset);
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final Dataset d = (Dataset) list.get(0);
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assertNotNull(d.getDateofcollection());
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assertEquals("2019-03-27T15:15:22.22Z", d.getDateofcollection());
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assertNotNull(d.getDateoftransformation());
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assertEquals("2019-04-17T16:04:20.586Z", d.getDateoftransformation());
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assertNotNull(d.getDataInfo());
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assertFalse(d.getDataInfo().getInvisible());
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assertFalse(d.getDataInfo().getDeletedbyinference());
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assertEquals("0.9", d.getDataInfo().getTrust());
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assertEquals("", d.getDataInfo().getInferenceprovenance());
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assertEquals("sysimport:crosswalk:datasetarchive", d.getDataInfo().getProvenanceaction().getClassid());
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assertEquals("sysimport:crosswalk:datasetarchive", d.getDataInfo().getProvenanceaction().getClassname());
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assertEquals(ModelConstants.DNET_PROVENANCE_ACTIONS, d.getDataInfo().getProvenanceaction().getSchemeid());
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assertEquals(ModelConstants.DNET_PROVENANCE_ACTIONS, d.getDataInfo().getProvenanceaction().getSchemename());
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assertValidId(d.getId());
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assertEquals(2, d.getOriginalId().size());
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assertEquals("feabb67c-1fd1-423b-aec6-606d04ce53c6", d.getOriginalId().get(0));
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assertValidId(d.getCollectedfrom().get(0).getKey());
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assertNotNull(d.getTitle());
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assertEquals(1, d.getTitle().size());
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assertEquals(
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"Validation of the Goodstrength System for Assessment of Abdominal Wall Strength in Patients With Incisional Hernia",
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d
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.getTitle()
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.get(0)
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.getValue());
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assertNotNull(d.getDescription());
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assertEquals(1, d.getDescription().size());
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assertTrue(StringUtils.isNotBlank(d.getDescription().get(0).getValue()));
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assertTrue(d.getAuthor().size() == 1);
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assertEquals("Jensen, Kristian K", d.getAuthor().get(0).getFullname());
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assertEquals("Kristian K.", d.getAuthor().get(0).getName());
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assertEquals("Jensen", d.getAuthor().get(0).getSurname());
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assertNotNull(d.getAuthor().get(0).getPid());
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assertTrue(d.getAuthor().get(0).getPid().isEmpty());
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assertNotNull(d.getPid());
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assertEquals(0, d.getPid().size());
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assertNotNull(d.getPublisher());
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assertEquals("nct", d.getPublisher().getValue());
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assertTrue(d.getSubject().isEmpty());
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assertTrue(d.getContext().isEmpty());
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assertNotNull(d.getInstance());
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assertTrue(d.getInstance().size() == 1);
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final Instance i = d.getInstance().get(0);
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|
|
assertNotNull(i.getAccessright());
|
|
assertEquals(ModelConstants.DNET_ACCESS_MODES, i.getAccessright().getSchemeid());
|
|
assertEquals(ModelConstants.DNET_ACCESS_MODES, i.getAccessright().getSchemename());
|
|
assertEquals("OPEN", i.getAccessright().getClassid());
|
|
assertEquals("Open Access", i.getAccessright().getClassname());
|
|
|
|
assertNotNull(i.getCollectedfrom());
|
|
assertEquals("10|openaire____::b292fc2d7de505f78e3cae1b06ea8548", i.getCollectedfrom().getKey());
|
|
assertEquals("OpenTrials", i.getCollectedfrom().getValue());
|
|
|
|
assertNotNull(i.getHostedby());
|
|
assertEquals("10|openaire____::b292fc2d7de505f78e3cae1b06ea8548", i.getHostedby().getKey());
|
|
assertEquals("OpenTrials", i.getHostedby().getValue());
|
|
|
|
assertNotNull(i.getInstancetype());
|
|
assertEquals("0037", i.getInstancetype().getClassid());
|
|
assertEquals("Clinical Trial", i.getInstancetype().getClassname());
|
|
assertEquals(ModelConstants.DNET_PUBLICATION_RESOURCE, i.getInstancetype().getSchemeid());
|
|
assertEquals(ModelConstants.DNET_PUBLICATION_RESOURCE, i.getInstancetype().getSchemename());
|
|
|
|
assertNull(i.getLicense());
|
|
assertNotNull(i.getDateofacceptance());
|
|
assertEquals("2014-11-11", i.getDateofacceptance().getValue());
|
|
|
|
assertNull(i.getDistributionlocation());
|
|
assertNull(i.getProcessingchargeamount());
|
|
assertNull(i.getProcessingchargecurrency());
|
|
|
|
assertNotNull(i.getPid());
|
|
assertEquals(0, i.getPid().size());
|
|
|
|
assertNotNull(i.getAlternateIdentifier());
|
|
assertEquals(1, i.getAlternateIdentifier().size());
|
|
assertEquals("NCT02321059", i.getAlternateIdentifier().get(0).getValue());
|
|
assertEquals("nct", i.getAlternateIdentifier().get(0).getQualifier().getClassid());
|
|
assertEquals("ClinicalTrials.gov Identifier", i.getAlternateIdentifier().get(0).getQualifier().getClassname());
|
|
assertEquals(ModelConstants.DNET_PID_TYPES, i.getAlternateIdentifier().get(0).getQualifier().getSchemeid());
|
|
assertEquals(ModelConstants.DNET_PID_TYPES, i.getAlternateIdentifier().get(0).getQualifier().getSchemename());
|
|
|
|
assertNotNull(i.getUrl());
|
|
assertEquals(2, i.getUrl().size());
|
|
assertTrue(i.getUrl().contains("http://apps.who.int/trialsearch/Trial3.aspx?trialid=NCT02321059"));
|
|
assertTrue(i.getUrl().contains("https://clinicaltrials.gov/ct2/show/NCT02321059"));
|
|
|
|
assertEquals("UNKNOWN", i.getRefereed().getClassid());
|
|
}
|
|
|
|
@Test
|
|
void testSoftware() throws IOException {
|
|
final String xml = IOUtils.toString(getClass().getResourceAsStream("odf_software.xml"));
|
|
|
|
final List<Oaf> list = new OdfToOafMapper(vocs, false, true).processMdRecord(xml);
|
|
|
|
assertEquals(1, list.size());
|
|
assertTrue(list.get(0) instanceof Software);
|
|
|
|
final Software s = (Software) list.get(0);
|
|
|
|
assertValidId(s.getId());
|
|
assertValidId(s.getCollectedfrom().get(0).getKey());
|
|
assertTrue(StringUtils.isNotBlank(s.getTitle().get(0).getValue()));
|
|
assertTrue(s.getAuthor().size() > 0);
|
|
assertTrue(s.getSubject().size() > 0);
|
|
assertTrue(s.getInstance().size() > 0);
|
|
}
|
|
|
|
// @Test
|
|
void testDataset_2() throws IOException {
|
|
final String xml = IOUtils.toString(getClass().getResourceAsStream("odf_dataset_2.xml"));
|
|
|
|
final List<Oaf> list = new OdfToOafMapper(vocs, false, true).processMdRecord(xml);
|
|
|
|
System.out.println("***************");
|
|
System.out.println(new ObjectMapper().writeValueAsString(list));
|
|
System.out.println("***************");
|
|
}
|
|
|
|
@Test
|
|
void testClaimDedup() throws IOException {
|
|
final String xml = IOUtils.toString(getClass().getResourceAsStream("oaf_claim_dedup.xml"));
|
|
final List<Oaf> list = new OafToOafMapper(vocs, false, true).processMdRecord(xml);
|
|
|
|
System.out.println("***************");
|
|
System.out.println(new ObjectMapper().writeValueAsString(list));
|
|
System.out.println("***************");
|
|
}
|
|
|
|
@Test
|
|
void testNakala() throws IOException {
|
|
final String xml = IOUtils.toString(getClass().getResourceAsStream("odf_nakala.xml"));
|
|
final List<Oaf> list = new OdfToOafMapper(vocs, false, true).processMdRecord(xml);
|
|
|
|
System.out.println("***************");
|
|
System.out.println(new ObjectMapper().writeValueAsString(list));
|
|
System.out.println("***************");
|
|
|
|
assertEquals(1, list.size());
|
|
assertTrue(list.get(0) instanceof Dataset);
|
|
|
|
final Dataset d = (Dataset) list.get(0);
|
|
|
|
assertValidId(d.getId());
|
|
assertValidId(d.getCollectedfrom().get(0).getKey());
|
|
assertTrue(StringUtils.isNotBlank(d.getTitle().get(0).getValue()));
|
|
assertEquals(1, d.getAuthor().size());
|
|
assertEquals(1, d.getSubject().size());
|
|
assertEquals(1, d.getInstance().size());
|
|
assertNotNull(d.getPid());
|
|
assertEquals(1, d.getPid().size());
|
|
assertTrue(PidType.isValid(d.getPid().get(0).getQualifier().getClassid()));
|
|
assertEquals(PidType.handle, PidType.valueOf(d.getPid().get(0).getQualifier().getClassid()));
|
|
|
|
assertNotNull(d.getInstance().get(0).getUrl());
|
|
}
|
|
|
|
@Test
|
|
void testClaimFromCrossref() throws IOException {
|
|
final String xml = IOUtils.toString(getClass().getResourceAsStream("oaf_claim_crossref.xml"));
|
|
final List<Oaf> list = new OafToOafMapper(vocs, false, true).processMdRecord(xml);
|
|
|
|
System.out.println("***************");
|
|
System.out.println(new ObjectMapper().writeValueAsString(list));
|
|
System.out.println("***************");
|
|
|
|
final Publication p = (Publication) list.get(0);
|
|
assertValidId(p.getId());
|
|
assertValidId(p.getCollectedfrom().get(0).getKey());
|
|
System.out.println(p.getTitle().get(0).getValue());
|
|
assertTrue(StringUtils.isNotBlank(p.getTitle().get(0).getValue()));
|
|
}
|
|
|
|
@Test
|
|
void testODFRecord() throws IOException {
|
|
final String xml = IOUtils.toString(getClass().getResourceAsStream("odf_record.xml"));
|
|
final List<Oaf> list = new OdfToOafMapper(vocs, false, true).processMdRecord(xml);
|
|
System.out.println("***************");
|
|
System.out.println(new ObjectMapper().writeValueAsString(list));
|
|
System.out.println("***************");
|
|
final Dataset p = (Dataset) list.get(0);
|
|
assertValidId(p.getId());
|
|
assertValidId(p.getCollectedfrom().get(0).getKey());
|
|
System.out.println(p.getTitle().get(0).getValue());
|
|
assertTrue(StringUtils.isNotBlank(p.getTitle().get(0).getValue()));
|
|
}
|
|
|
|
@Test
|
|
void testTextGrid() throws IOException {
|
|
final String xml = IOUtils.toString(getClass().getResourceAsStream("textgrid.xml"));
|
|
final List<Oaf> list = new OdfToOafMapper(vocs, false, true).processMdRecord(xml);
|
|
|
|
System.out.println("***************");
|
|
System.out.println(new ObjectMapper().writeValueAsString(list));
|
|
System.out.println("***************");
|
|
|
|
final Dataset p = (Dataset) list.get(0);
|
|
assertValidId(p.getId());
|
|
assertValidId(p.getCollectedfrom().get(0).getKey());
|
|
assertTrue(StringUtils.isNotBlank(p.getTitle().get(0).getValue()));
|
|
assertEquals(1, p.getAuthor().size());
|
|
assertEquals("OPEN", p.getBestaccessright().getClassid());
|
|
|
|
assertTrue(p.getPid().size() == 1);
|
|
assertTrue(PidType.isValid(p.getPid().get(0).getQualifier().getClassid()));
|
|
assertTrue(PidType.handle.equals(PidType.valueOf(p.getPid().get(0).getQualifier().getClassid())));
|
|
assertEquals("hdl:11858/00-1734-0000-0003-EE73-2", p.getPid().get(0).getValue());
|
|
assertEquals("dataset", p.getResulttype().getClassname());
|
|
assertEquals(1, p.getInstance().size());
|
|
assertEquals("OPEN", p.getInstance().get(0).getAccessright().getClassid());
|
|
assertValidId(p.getInstance().get(0).getCollectedfrom().getKey());
|
|
assertValidId(p.getInstance().get(0).getHostedby().getKey());
|
|
assertEquals(
|
|
"http://creativecommons.org/licenses/by/3.0/de/legalcode", p.getInstance().get(0).getLicense().getValue());
|
|
|
|
assertEquals(1, p.getInstance().size());
|
|
assertNotNull(p.getInstance().get(0).getAlternateIdentifier());
|
|
assertEquals(0, p.getInstance().get(0).getAlternateIdentifier().size());
|
|
assertEquals(1, p.getInstance().get(0).getUrl().size());
|
|
}
|
|
|
|
@Test
|
|
void testBologna() throws IOException {
|
|
final String xml = IOUtils.toString(getClass().getResourceAsStream("oaf-bologna.xml"));
|
|
final List<Oaf> list = new OafToOafMapper(vocs, false, true).processMdRecord(xml);
|
|
|
|
System.out.println("***************");
|
|
System.out.println(new ObjectMapper().writeValueAsString(list));
|
|
System.out.println("***************");
|
|
|
|
final Publication p = (Publication) list.get(0);
|
|
assertValidId(p.getId());
|
|
assertValidId(p.getCollectedfrom().get(0).getKey());
|
|
System.out.println(p.getTitle().get(0).getValue());
|
|
assertTrue(StringUtils.isNotBlank(p.getTitle().get(0).getValue()));
|
|
System.out.println(p.getTitle().get(0).getValue());
|
|
}
|
|
|
|
@Test
|
|
void testJairo() throws IOException {
|
|
final String xml = IOUtils.toString(getClass().getResourceAsStream("oaf_jairo.xml"));
|
|
final List<Oaf> list = new OafToOafMapper(vocs, false, true).processMdRecord(xml);
|
|
|
|
System.out.println("***************");
|
|
System.out.println(new ObjectMapper().writeValueAsString(list));
|
|
System.out.println("***************");
|
|
|
|
final Publication p = (Publication) list.get(0);
|
|
assertValidId(p.getId());
|
|
assertValidId(p.getCollectedfrom().get(0).getKey());
|
|
|
|
assertNotNull(p.getTitle());
|
|
assertFalse(p.getTitle().isEmpty());
|
|
assertTrue(p.getTitle().size() == 1);
|
|
assertTrue(StringUtils.isNotBlank(p.getTitle().get(0).getValue()));
|
|
|
|
final Publication p_cleaned = cleanup(fixVocabularyNames(p));
|
|
|
|
assertNotNull(p_cleaned.getTitle());
|
|
assertFalse(p_cleaned.getTitle().isEmpty());
|
|
}
|
|
|
|
@Test
|
|
void testOdfFromHdfs() throws IOException {
|
|
final String xml = IOUtils.toString(getClass().getResourceAsStream("odf_from_hdfs.xml"));
|
|
|
|
final List<Oaf> list = new OdfToOafMapper(vocs, false, true).processMdRecord(xml);
|
|
|
|
assertEquals(1, list.size());
|
|
|
|
System.out.println(list.get(0).getClass());
|
|
|
|
assertTrue(list.get(0) instanceof Dataset);
|
|
|
|
final Dataset p = (Dataset) list.get(0);
|
|
|
|
assertValidId(p.getId());
|
|
assertEquals(2, p.getOriginalId().size());
|
|
assertTrue(p.getOriginalId().stream().anyMatch(oid -> oid.equals("df76e73f-0483-49a4-a9bb-63f2f985574a")));
|
|
assertValidId(p.getCollectedfrom().get(0).getKey());
|
|
assertTrue(p.getAuthor().size() > 0);
|
|
|
|
final Optional<Author> author = p
|
|
.getAuthor()
|
|
.stream()
|
|
.findFirst();
|
|
assertTrue(author.isPresent());
|
|
|
|
assertEquals("Museum Sønderjylland", author.get().getFullname());
|
|
|
|
assertTrue(p.getSubject().size() > 0);
|
|
assertTrue(p.getInstance().size() > 0);
|
|
|
|
assertNotNull(p.getTitle());
|
|
assertFalse(p.getTitle().isEmpty());
|
|
|
|
assertNotNull(p.getInstance());
|
|
assertTrue(p.getInstance().size() > 0);
|
|
p
|
|
.getInstance()
|
|
.stream()
|
|
.forEach(i -> {
|
|
assertNotNull(i.getAccessright());
|
|
assertEquals("UNKNOWN", i.getAccessright().getClassid());
|
|
});
|
|
assertEquals("UNKNOWN", p.getInstance().get(0).getRefereed().getClassid());
|
|
}
|
|
|
|
private void assertValidId(final String id) {
|
|
System.out.println(id);
|
|
|
|
assertEquals(49, id.length());
|
|
assertEquals('|', id.charAt(2));
|
|
assertEquals(':', id.charAt(15));
|
|
assertEquals(':', id.charAt(16));
|
|
}
|
|
|
|
private List<String> vocs() throws IOException {
|
|
return IOUtils
|
|
.readLines(
|
|
GraphCleaningFunctionsTest.class.getResourceAsStream("/eu/dnetlib/dhp/oa/graph/clean/terms.txt"));
|
|
}
|
|
|
|
private List<String> synonyms() throws IOException {
|
|
return IOUtils
|
|
.readLines(
|
|
GraphCleaningFunctionsTest.class.getResourceAsStream("/eu/dnetlib/dhp/oa/graph/clean/synonyms.txt"));
|
|
}
|
|
|
|
}
|