Examples with TermImpl org.eol.globi.domain.TermImpl used on opensource projects

Example 6 with TermImpl

use of org.eol.globi.domain.TermImpl in project eol-globi-data by jhpoelen.

the class GeoNamesServiceImpl method getCentroidForLocale.

private LatLng getCentroidForLocale(String locale) throws IOException {
    LatLng point = null;
    TermImpl term = LOCALE_TO_GEONAMES.get(locale);
    // see https://github.com/jhpoelen/eol-globi-data/issues/39
    if (term != null && !term.equals(GEO_TERM_EARTH)) {
        String geoNamesTerm = term.getId();
        if (LOCALE_TO_GEONAMES.containsKey(locale)) {
            point = getCentroidForGeoNameTerm(geoNamesTerm);
        }
        if (point != null) {
            pointCache.put(geoNamesTerm, point);
        }
    }
    return point;
}

Example 7 with TermImpl

use of org.eol.globi.domain.TermImpl in project eol-globi-data by jhpoelen.

the class StudyImporterNodesAndLinks method parseLocality.

private static TermImpl parseLocality(JsonNode desc) {
    TermImpl locality = null;
    JsonNode location = desc.get("location");
    if (location != null) {
        JsonNode locale = location.get("locality");
        if (locale != null) {
            JsonNode id = locale.get("id");
            JsonNode name = locale.get("name");
            if (id != null && name != null) {
                locality = new TermImpl(id.asText(), name.asText());
            }
        }
    }
    return locality;
}

Example 8 with TermImpl

use of org.eol.globi.domain.TermImpl in project eol-globi-data by jhpoelen.

the class ExporterOccurrenceAggregatesTest method collectSpecimen.

private Specimen collectSpecimen(Study myStudy, String scientificName, String externalId) throws NodeFactoryException {
    Specimen specimen = nodeFactory.createSpecimen(myStudy, new TaxonImpl(scientificName, externalId));
    specimen.setStomachVolumeInMilliLiter(666.0);
    specimen.setLifeStage(new TermImpl("GLOBI:JUVENILE", "JUVENILE"));
    specimen.setPhysiologicalState(new TermImpl("GLOBI:DIGESTATE", "DIGESTATE"));
    specimen.setBodyPart(new TermImpl("GLOBI:BONE", "BONE"));
    nodeFactory.setUnixEpochProperty(specimen, new Date(ExportTestUtil.utcTestTime()));
    return specimen;
}

Example 9 with TermImpl

use of org.eol.globi.domain.TermImpl in project eol-globi-data by jhpoelen.

the class ExporterOccurrencesTest method dontExportToCSVSpecimenEmptyStomach.

@Test
public void dontExportToCSVSpecimenEmptyStomach() throws NodeFactoryException, IOException {
    Study myStudy = nodeFactory.createStudy(new StudyImpl("myStudy", null, null, null));
    Specimen specimen = nodeFactory.createSpecimen(myStudy, new TaxonImpl("Homo sapiens", "EOL:123"));
    specimen.setBasisOfRecord(new TermImpl("test:123", "aBasisOfRecord"));
    resolveNames();
    StringWriter row = new StringWriter();
    exportOccurrences().exportStudy(myStudy, row, true);
    String expected = "";
    expected += getExpectedHeader();
    expected += "\nglobi:occur:2\tEOL:123\t\t\t\t\t\t\t\t\t\t\t\t\taBasisOfRecord\t\t\t\t\t\t\t\t\t\t\t\t\t\t";
    assertThat(row.getBuffer().toString(), equalTo(expected));
}

Example 10 with TermImpl

use of org.eol.globi.domain.TermImpl in project eol-globi-data by jhpoelen.

the class ExporterOccurrencesTest method createTestData.

private void createTestData(Double length) throws NodeFactoryException, ParseException {
    Study myStudy = nodeFactory.createStudy(new StudyImpl("myStudy", null, null, null));
    Specimen specimen = nodeFactory.createSpecimen(myStudy, new TaxonImpl("Homo sapiens", "EOL:327955"));
    specimen.setStomachVolumeInMilliLiter(666.0);
    specimen.setLifeStage(new TermImpl("GLOBI:JUVENILE", "JUVENILE"));
    specimen.setPhysiologicalState(new TermImpl("GLOBI:DIGESTATE", "DIGESTATE"));
    specimen.setBodyPart(new TermImpl("GLOBI:BONE", "BONE"));
    nodeFactory.setUnixEpochProperty(specimen, ExportTestUtil.utcTestDate());
    if (null != length) {
        specimen.setLengthInMm(length);
    }
    Location location = nodeFactory.getOrCreateLocation(new LocationImpl(12.0, -1.0, -60.0, null));
    specimen.caughtIn(location);
    Specimen wolf1 = eatWolf(specimen, myStudy);
    wolf1.caughtIn(location);
    Specimen wolf2 = eatWolf(specimen, myStudy);
    wolf2.caughtIn(location);
}