Java DwcTerm类代码示例

import org.gbif.dwc.terms.DwcTerm; //导入依赖的package包/类
/**
 * @throws Exception
 */
@Test
public void testWriteTaxonFile() throws Exception {
	Map<String, JobParameter> parameters = new HashMap<String, JobParameter>();
	parameters.put("query", new JobParameter(""));
	parameters.put("selected.facets", new JobParameter("taxon.family_ss=Araceae"));
	parameters.put("download.taxon", new JobParameter(toParameter(DarwinCorePropertyMap.getConceptTerms(DwcTerm.Taxon))));
	parameters.put("download.file", new JobParameter(UUID.randomUUID().toString() + ".txt"));
	parameters.put("download.limit", new JobParameter(new Integer(Integer.MAX_VALUE).toString()));
	parameters.put("download.fieldsTerminatedBy", new JobParameter("\t"));
	parameters.put("download.fieldsEnclosedBy", new JobParameter("\""));
	parameters.put("download.format", new JobParameter("taxon"));

	JobParameters jobParameters = new JobParameters(parameters);
	Job archiveCreatorJob = jobLocator.getJob("FlatFileCreation");
	assertNotNull("flatFileCreatorJob must exist", archiveCreatorJob);
	JobExecution jobExecution = jobLauncher.run(archiveCreatorJob,
			jobParameters);

	assertEquals("The Job should be sucessful", ExitStatus.COMPLETED, jobExecution.getExitStatus());
}
 

import org.gbif.dwc.terms.DwcTerm; //导入依赖的package包/类
@Test
public void testWriteChecklistPdf() throws Exception {
	Map<String, JobParameter> parameters = new HashMap<String, JobParameter>();
	parameters.put("query", new JobParameter(""));
	parameters.put("selected.facets", new JobParameter("taxon.family_ss=Araceae"));
	parameters.put("download.taxon", new JobParameter(toParameter(DarwinCorePropertyMap.getConceptTerms(DwcTerm.Taxon))));
	parameters.put("download.file", new JobParameter(UUID.randomUUID().toString() + ".pdf"));
	parameters.put("download.limit", new JobParameter(new Integer(Integer.MAX_VALUE).toString()));
	parameters.put("download.fieldsTerminatedBy", new JobParameter("\t"));
	parameters.put("download.fieldsEnclosedBy", new JobParameter("\""));
	parameters.put("download.sort", new JobParameter("searchable.label_sort_asc"));
	parameters.put("download.format", new JobParameter("hierarchicalChecklist"));
	parameters.put("download.template.filepath", new JobParameter("org/emonocot/job/download/reports/name_report1.jrxml"));

	JobParameters jobParameters = new JobParameters(parameters);
	Job archiveCreatorJob = jobLocator.getJob("FlatFileCreation");
	assertNotNull("flatFileCreator Job must exist", archiveCreatorJob);
	JobExecution jobExecution = jobLauncher.run(archiveCreatorJob,
			jobParameters);

	assertEquals("The Job should be sucessful", ExitStatus.COMPLETED, jobExecution.getExitStatus());
}
 

import org.gbif.dwc.terms.DwcTerm; //导入依赖的package包/类
public static Map<Term, String> getPropertyMap(Term conceptTerm) {
	if(conceptTerm.equals(DwcTerm.Taxon)) {
		return taxonTerms;
	} else if(conceptTerm.equals(GbifTerm.Description)) {
		return descriptionTerms;
	} else if(conceptTerm.equals(GbifTerm.Distribution)) {
		return distributionTerms;
	} else if(conceptTerm.equals(GbifTerm.Identifier)) {
		return identifierTerms;
	} else if(conceptTerm.equals(DwcTerm.MeasurementOrFact)) {
		return measurementOrFactTerms;
	} else if(conceptTerm.equals(GbifTerm.VernacularName)) {
		return vernacularNameTerms;
	} else if(conceptTerm.equals(GbifTerm.Image)) {
		return imageTerms;
	} else if(conceptTerm.equals(GbifTerm.TypesAndSpecimen)) {
		return typeAndSpecimenTerms;
	} else if(conceptTerm.equals(GbifTerm.Reference)) {
		return referenceTerms;
	} else if(conceptTerm.equals(SkosTerm.Concept)) {
		return skosTerms;
	} else {
		throw new IllegalArgumentException(conceptTerm.qualifiedName() + " is not a supported term");
	}
}
 

import org.gbif.dwc.terms.DwcTerm; //导入依赖的package包/类
/**
 * @throws Exception
 */
@Test
public void testWriteTaxonFile() throws Exception {
	Map<String, JobParameter> parameters = new HashMap<String, JobParameter>();
	parameters.put("query", new JobParameter(""));
	parameters.put("selected.facets", new JobParameter("taxon.family_ss=Araceae"));
	parameters.put("download.taxon", new JobParameter(toParameter(DarwinCorePropertyMap.getConceptTerms(DwcTerm.Taxon))));
	parameters.put("download.file", new JobParameter(UUID.randomUUID().toString() + ".txt"));
	parameters.put("download.limit", new JobParameter(new Integer(Integer.MAX_VALUE).toString()));
	parameters.put("download.fieldsTerminatedBy", new JobParameter("\t"));
	parameters.put("download.fieldsEnclosedBy", new JobParameter("\""));
	parameters.put("download.format", new JobParameter("taxon"));

	JobParameters jobParameters = new JobParameters(parameters);
	Job archiveCreatorJob = jobLocator.getJob("FlatFileCreation");
	assertNotNull("flatFileCreatorJob must exist", archiveCreatorJob);
	JobExecution jobExecution = jobLauncher.run(archiveCreatorJob,
			jobParameters);

	
	assertEquals("The Job should be sucessful", ExitStatus.COMPLETED, jobExecution.getExitStatus());
}
 

import org.gbif.dwc.terms.DwcTerm; //导入依赖的package包/类
public static Map<Term, String> getPropertyMap(Term conceptTerm) {
	if(conceptTerm.equals(DwcTerm.Taxon)) {
		return taxonTerms;
	} else if(conceptTerm.equals(GbifTerm.Description)) {
		return descriptionTerms;
	} else if(conceptTerm.equals(GbifTerm.Distribution)) {
		return distributionTerms;
	} else if(conceptTerm.equals(GbifTerm.Identifier)) {
		return identifierTerms;
	} else if(conceptTerm.equals(DwcTerm.MeasurementOrFact)) {
		return measurementOrFactTerms;
	} else if(conceptTerm.equals(GbifTerm.VernacularName)) {
		return vernacularNameTerms;
	} else if(conceptTerm.equals(ExtendedAcTerm.Multimedia)) {
		return imageTerms;
	} else if(conceptTerm.equals(GbifTerm.TypesAndSpecimen)) {
		return typeAndSpecimenTerms;
	} else if(conceptTerm.equals(GbifTerm.Reference)) {
		return referenceTerms;
	} else if(conceptTerm.equals(SkosTerm.Concept)) {
		return skosTerms;
	} else {
		throw new IllegalArgumentException(conceptTerm.qualifiedName() + " is not a supported term");
	}
}
 

import org.gbif.dwc.terms.DwcTerm; //导入依赖的package包/类
private void writeHeader(TabWriter writer, Term rowType, List<Term> columns) throws IOException {
  int idx = 0;
  String[] row = new String[columns.size() + 1];
  Term idTerm;
  if (DwcTerm.Taxon == coreRowType){
    idTerm = DwcTerm.taxonID;
  } else if (DwcTerm.Occurrence == coreRowType){
    idTerm = DwcTerm.occurrenceID;
  } else if (DwcTerm.Identification == coreRowType){
    idTerm = DwcTerm.identificationID;
  } else if (DwcTerm.Event == coreRowType){
    idTerm = DwcTerm.eventID;
  } else {
    // default to generic dc identifier for id column
    idTerm = DcTerm.identifier;
  }
  row[idx] = idTerm.simpleName();

  for (Term term : columns) {
    idx ++;
    row[idx] = term.simpleName();
  }
  writer.write(row);

  headersOut.add(rowType);
}
 

import org.gbif.dwc.terms.DwcTerm; //导入依赖的package包/类
@Test
public void testDetermineRecordIdentifier() {
  Optional<Term> id = InternalDwcFileFactory.determineRecordIdentifier(Arrays.asList(DwcTerm.decimalLatitude, DwcTerm.occurrenceID));
  assertEquals(DwcTerm.occurrenceID, id.get());

  id = InternalDwcFileFactory.determineRecordIdentifier(Arrays.asList(DwcTerm.taxonID, DwcTerm.scientificName));
  assertEquals(DwcTerm.taxonID, id.get());

  //eventId should be picked even if taxonID is there
  id = InternalDwcFileFactory.determineRecordIdentifier(Arrays.asList(DwcTerm.eventID, DwcTerm.scientificName, DwcTerm.taxonID));
  assertEquals(DwcTerm.taxonID, id.get());

  id = InternalDwcFileFactory.determineRecordIdentifier(Arrays.asList(DwcTerm.decimalLongitude, DwcTerm.scientificName,
          DcTerm.identifier));
  assertEquals(DcTerm.identifier, id.get());

  //eventId should be picked even if taxonID is there
  id = InternalDwcFileFactory.determineRecordIdentifier(Arrays.asList(DwcTerm.decimalLongitude, DwcTerm.scientificName, DwcTerm.decimalLatitude));
  assertFalse(id.isPresent());
}
 

import org.gbif.dwc.terms.DwcTerm; //导入依赖的package包/类
@Test
public void testProperties() {
  final Set<String> IGNORE = ImmutableSet.of(DwcTerm.GROUP_MEASUREMENTORFACT, DwcTerm.GROUP_RESOURCERELATIONSHIP);

  DarwinCoreRecord dwc = new DarwinCoreRecord();
  for (DwcTerm t : DwcTerm.values()) {
    // only test non class terms
    if (t.isClass()) {
      continue;
    }

    if (IGNORE.contains(t.getGroup())) {
      try {
        dwc.getProperty(t);
        fail("term " + t.qualifiedName() + " should not exist on DarwinCoreRecord");
      } catch (IllegalArgumentException e) {
        // expected
      }

    } else {
      String val = new Date().toString();
      dwc.setProperty(t, val);
      assertEquals("missing term " + t.qualifiedName(), val, dwc.getProperty(t));
    }
  }
}
 

import org.gbif.dwc.terms.DwcTerm; //导入依赖的package包/类
@Test
public void testDefaultValue() {
  final String DATASET = "ITIS";
  ArchiveField id = new ArchiveField(0, DwcTerm.taxonID, null, null);
  Set<ArchiveField> fields = new HashSet<ArchiveField>();
  fields.add(new ArchiveField(1, DwcTerm.datasetName, DATASET, null));
  RecordImpl rec = new RecordImpl(id, fields, DwcTerm.Taxon, true, true);

  String[] row = {"5432", "IPNI"};
  rec.setRow(row);
  assertEquals(row[1], rec.value(DwcTerm.datasetName));

  row = new String[] {"5432", null};
  rec.setRow(row);
  assertEquals(DATASET, rec.value(DwcTerm.datasetName));

  row = new String[] {"5432", ""};
  rec.setRow(row);
  assertEquals(DATASET, rec.value(DwcTerm.datasetName));
}
 

import org.gbif.dwc.terms.DwcTerm; //导入依赖的package包/类
@Test
public void testProperties() {
  Set<String> groups = ImmutableSet.of(DwcTerm.GROUP_TAXON, DwcTerm.GROUP_RECORD);
  DarwinCoreTaxon dwc = new DarwinCoreTaxon();
  for (DwcTerm t : DwcTerm.values()) {
    if (groups.contains(t.getGroup()) && !t.isClass()){
      String val = new Date().toString();
      dwc.setProperty(t, val);
      try {
        dwc.getProperty(t);
        assertEquals(val, dwc.getProperty(t));
      } catch (Exception e) {
        System.err.println(e.getMessage());
      }
    }
  }
}
 

import org.gbif.dwc.terms.DwcTerm; //导入依赖的package包/类
@Test(expected = IllegalStateException.class)
public void testHeaders3() throws Exception {
  File dwcaDir = FileUtils.createTempDir();
  dwcaDir.deleteOnExit();
  DwcaWriter writer = new DwcaWriter(DwcTerm.Taxon, dwcaDir, true);

  writer.newRecord("dummy1");
  writer.addCoreColumn(DwcTerm.parentNameUsageID);
  writer.addCoreColumn(DwcTerm.acceptedNameUsageID);

  // define extension columns
  Map<Term, String> eData = Maps.newHashMap();
  eData.put(DwcTerm.locality, "locality1");
  eData.put(DwcTerm.occurrenceStatus, "present");
  writer.addExtensionRecord(GbifTerm.Distribution, eData);

  eData.put(DwcTerm.establishmentMeans, "alien");
  writer.addExtensionRecord(GbifTerm.Distribution, eData);
}
 

import org.gbif.dwc.terms.DwcTerm; //导入依赖的package包/类
@Test
public void testWriterUsingCoreIdTerm() throws Exception {
  File dwcaDir = FileUtils.createTempDir();
  dwcaDir.deleteOnExit();
  LOG.info("Test archive writer in {}", dwcaDir.getAbsolutePath());

  DwcaWriter writer = new DwcaWriter(DwcTerm.Taxon, DwcTerm.taxonID, dwcaDir, true);

  writer.newRecord("dummy1");
  writer.addCoreColumn(DwcTerm.parentNameUsageID);
  writer.addCoreColumn(DwcTerm.acceptedNameUsageID);
  writer.close();

  Archive arch = ArchiveFactory.openArchive(dwcaDir);
  Iterator<Record> recIt = arch.getCore().iterator();
  Record firstRecord = recIt.next();
  assertEquals("dummy1", firstRecord.id());
  assertEquals("dummy1", firstRecord.value(DwcTerm.taxonID));
}
 

import org.gbif.dwc.terms.DwcTerm; //导入依赖的package包/类
public static void main(String[] args) throws IOException, UnsupportedArchiveException {
  // opens csv files with headers or dwc-a direcotries with a meta.xml descriptor
  Archive arch = ArchiveFactory
    .openArchive(new File("/Volumes/Scratch/ecat-data-col/checklists/beac2c55-d889-4358-a414-b1db79ba3536/dwc-a"));

  // does scientific name exist?
  if (!arch.getCore().hasTerm(DwcTerm.scientificName)) {
    System.out.println("This application requires dwc-a with scientific names");
    System.exit(1);
  }

  // loop over core darwin core records
  Iterator<DarwinCoreRecord> iter = arch.iteratorDwc();
  DarwinCoreRecord dwc;
  while (iter.hasNext()) {
    dwc = iter.next();
    if (dwc.getScientificName().startsWith("Ambispora callosa")) {
      System.out.println(dwc.getScientificName());
      System.out.println(dwc.getScientificNameAuthorship());
      System.out.println(dwc);
    }
  }
}
 

import org.gbif.dwc.terms.DwcTerm; //导入依赖的package包/类
@Test
public void write() throws Exception {
    File dwca = FileUtils.createTempDir();
    Map<Term, Integer> mapping = ImmutableMap.of(
            DwcTerm.taxonID, 0,
            DwcTerm.scientificName, 1,
            DwcTerm.taxonRank, 2);
    try (DwcaStreamWriter dwcaWriter = new DwcaStreamWriter(dwca, DwcTerm.Taxon, DwcTerm.taxonID, true)){
        Dataset d = new Dataset();
        d.setTitle("Abies of the Alps");
        d.setDescription("Abies of the Alps excl Switzerland.");
        dwcaWriter.setMetadata(d);
        dwcaWriter.write(DwcTerm.Taxon, 0, mapping, ImmutableList.<String[]>builder()
                .add(new String[] { "tax-1", "Abies Mill.", "genus" })
                .add(new String[] { "tax-2", "Abies alba Mill.", "species" })
                .add(new String[] { "tax-3", "Piceae abies L.", "species" })
                .add(new String[] { "tax-4", "Piceae abies subsp. helvetica L.", "subspecies" })
                .build()
        );

    } finally {
        org.apache.commons.io.FileUtils.deleteQuietly(dwca);
    }
}
 

import org.gbif.dwc.terms.DwcTerm; //导入依赖的package包/类
@Test
public void testConstituents() throws Exception {
  File dir = FileUtils.getClasspathFile("constituentsdwca");

  Archive arch = new Archive();
  arch.setLocation(dir);
  arch.setMetadataLocation("eml.xml");
  ArchiveField id = new ArchiveField(0, null, null, null);
  ArchiveField datasetId = new ArchiveField(1, DwcTerm.datasetID, null, null);
  ArchiveField sciname = new ArchiveField(2, DwcTerm.scientificName, null, null);

  Map<Term, ArchiveField> fields = new HashMap<Term, ArchiveField>();
  fields.put(DwcTerm.taxonomicStatus, sciname);
  fields.put(DwcTerm.datasetID, datasetId);

  Map<String, File> cons = arch.getConstituentMetadata();
  assertEquals(6, cons.size());
  for (Map.Entry<String, File> c : cons.entrySet()) {
    final String name = c.getKey();
    final File file = c.getValue();
    assertEquals(name, file.getName().split("\\.")[0]);
  }
}