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

Example 6 with TaxonImpl

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

the class TaxonUtil method mapToTaxon.

public static Taxon mapToTaxon(Map<String, String> properties) {
    Taxon taxon = new TaxonImpl();
    mapToTaxon(properties, taxon);
    return taxon;
}

Example 7 with TaxonImpl

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

the class TaxonUtil method copy.

public static Taxon copy(Taxon taxon) {
    TaxonImpl taxonCopy = new TaxonImpl();
    mapToTaxon(taxonToMap(taxon), taxonCopy);
    return taxonCopy;
}

Example 8 with TaxonImpl

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

the class TaxonUtilTest method homonym.

@Test
public void homonym() {
    TaxonImpl taxon = new TaxonImpl();
    taxon.setName("Lestes");
    taxon.setExternalId("some:id");
    taxon.setPath("Insecta|Lestidae|Lestes");
    taxon.setPathNames("class|family|genus");
    TaxonImpl otherTaxon = new TaxonImpl();
    otherTaxon.setName("Lestes");
    otherTaxon.setExternalId("some:otherid");
    otherTaxon.setPath("Mammalia|Mesonychidae|Lestes");
    otherTaxon.setPathNames("class|family|genus");
    assertTrue(TaxonUtil.likelyHomonym(taxon, otherTaxon));
}

Example 9 with TaxonImpl

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

the class TaxonUtilTest method toTaxonImage.

@Test
public void toTaxonImage() {
    TaxonImage image = new TaxonImage();
    Taxon taxon = new TaxonImpl("Donald duckus", "EOL:123");
    taxon.setCommonNames("bla @en | boo @de");
    taxon.setPath("one | two | three");
    Map<String, String> taxonMap = new TreeMap<String, String>(TaxonUtil.taxonToMap(taxon));
    taxonMap.put(PropertyAndValueDictionary.THUMBNAIL_URL, "http://foo/bar/thumb");
    taxonMap.put(PropertyAndValueDictionary.EXTERNAL_URL, "http://foo/bar");
    TaxonImage enrichedImage = TaxonUtil.enrichTaxonImageWithTaxon(taxonMap, image);
    assertThat(enrichedImage.getCommonName(), is("bla"));
    assertThat(enrichedImage.getTaxonPath(), is("one | two | three"));
    assertThat(enrichedImage.getInfoURL(), is("http://foo/bar"));
    assertThat(enrichedImage.getThumbnailURL(), is("http://foo/bar/thumb"));
    assertThat(enrichedImage.getPageId(), is("123"));
    assertThat(enrichedImage.getImageURL(), is(nullValue()));
}

Example 10 with TaxonImpl

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

the class ExportTaxonCacheTest method exportOnePredatorTwoPrey.

@Test
public void exportOnePredatorTwoPrey() throws NodeFactoryException, IOException {
    taxonIndex = ExportTestUtil.taxonIndexWithEnricher(null, getGraphDb());
    Study study = nodeFactory.getOrCreateStudy(new StudyImpl("title", "source", null, "citation"));
    Taxon taxon = new TaxonImpl("Homo sapiens");
    taxon.setExternalId("homoSapiensId");
    taxon.setPath("one\ttwo three");
    taxon.setExternalUrl("http://some/thing");
    taxon.setThumbnailUrl("http://thing/some");
    Taxon human = taxonIndex.getOrCreateTaxon(taxon);
    TaxonImpl taxon1 = new TaxonImpl("Canis lupus", "canisLupusId");
    taxon1.setPath("four five six");
    taxonIndex.getOrCreateTaxon(taxon1);
    NodeUtil.connectTaxa(new TaxonImpl("Alternate Homo sapiens no path", "alt:123"), (TaxonNode) human, getGraphDb(), RelTypes.SAME_AS);
    final TaxonImpl altTaxonWithPath = new TaxonImpl("Alternate Homo sapiens", "alt:123");
    altTaxonWithPath.setPath("some path here");
    NodeUtil.connectTaxa(altTaxonWithPath, (TaxonNode) human, getGraphDb(), RelTypes.SAME_AS);
    NodeUtil.connectTaxa(new TaxonImpl("Similar Homo sapiens", "alt:456"), (TaxonNode) human, getGraphDb(), RelTypes.SIMILAR_TO);
    StringWriter writer = new StringWriter();
    new ExportTaxonCache().exportStudy(study, writer, true);
    assertThat(writer.toString(), is("id\tname\trank\tcommonNames\tpath\tpathIds\tpathNames\texternalUrl\tthumbnailUrl" + "\nhomoSapiensId\tHomo sapiens\t\t\tone two three\t\t\thttp://some/thing\thttp://thing/some" + "\nalt:123\tAlternate Homo sapiens\t\t\tsome path here\t\t\thttp://some/thing\thttp://thing/some" + "\ncanisLupusId\tCanis lupus\t\t\tfour five six\t\t\t\t"));
}