Examples with Dataset org.eol.globi.service.Dataset used on opensource projects

Example 16 with Dataset

use of org.eol.globi.service.Dataset in project eol-globi-data by jhpoelen.

the class StudyImporterForSzoboszlaiTest method importShapes.

@Test
public void importShapes() throws StudyImporterException, IOException {
    Dataset testDataset = getTestDataset();
    ParserFactory parserFactory = new ParserFactoryForDataset(testDataset);
    StudyImporterForSzoboszlai studyImporterForSzoboszlai = new StudyImporterForSzoboszlai(parserFactory, nodeFactory);
    studyImporterForSzoboszlai.setDataset(testDataset);
    Map<Integer, LatLng> localityMap = studyImporterForSzoboszlai.importShapes();
    LatLng centroid = localityMap.get(2361);
    assertThat(centroid, is(notNullValue()));
    assertThat(centroid.getLat(), is(34.00824202376044));
    assertThat(centroid.getLng(), is(-120.72716166720323));
}

Example 17 with Dataset

use of org.eol.globi.service.Dataset in project eol-globi-data by jhpoelen.

the class DatasetFinderWithCacheIT method gitHubTest.

@Test
public void gitHubTest() throws DatasetFinderException {
    DatasetFinder finder = new DatasetFinderWithCache(new DatasetFinderGitHubArchive(), cachePath);
    Dataset dataset = DatasetFactory.datasetFor("globalbioticinteractions/Catalogue-of-Afrotropical-Bees", finder);
    assertThat(dataset.getArchiveURI().toString(), containsString("github.com"));
    assertThat(dataset.getResourceURI("globi.json").toString(), startsWith("jar:file:/"));
    assertThat(dataset.getCitation(), startsWith("Shan Kothari, Pers. Comm. 2014."));
}

Example 18 with Dataset

use of org.eol.globi.service.Dataset in project eol-globi-data by jhpoelen.

the class DatasetFinderWithCacheIT method assertTemplateDataset.

private void assertTemplateDataset(String expectedURIFragment, DatasetFinder datasetFinder, String expectedCitation) throws DatasetFinderException, IOException {
    DatasetFinder finder = new DatasetFinderWithCache(datasetFinder, cachePath);
    Dataset dataset = DatasetFactory.datasetFor("globalbioticinteractions/template-dataset", finder);
    assertThat(dataset.getArchiveURI().toString(), containsString(expectedURIFragment));
    assertThat(dataset.getResourceURI("globi.json").toString(), startsWith("jar:file:/"));
    assertThat(dataset.getCitation(), startsWith(expectedCitation));
}

Example 19 with Dataset

use of org.eol.globi.service.Dataset in project eol-globi-data by jhpoelen.

the class StudyImporterForSzoboszlaiTest method getTestDataset.

private Dataset getTestDataset() throws IOException {
    JsonNode config = new ObjectMapper().readTree("{ \"citation\": \"Szoboszlai AI, Thayer JA, Wood SA, Sydeman WJ, Koehn LE (2015) Data from: Forage species in predator diets: synthesis of data from the California Current. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.nv5d2\",\n" + "  \"doi\": \"http://dx.doi.org/10.5061/dryad.nv5d2\",\n" + "  \"format\": \"szoboszlai\",\n" + "  \"resources\": {\n" + "    \"links\": \"szoboszlai/CCPDDlinkdata_v2.csv\",\n" + "    \"shapes\": \"szoboszlai/CCPDDlocationdata_test.zip\"\n" + "  }\n" + "}");
    Dataset dataset = new DatasetLocal();
    dataset.setConfig(config);
    return dataset;
}

Example 20 with Dataset

use of org.eol.globi.service.Dataset in project eol-globi-data by jhpoelen.

the class StudyImporterForGitHubData method importData.

public void importData(String repository) throws StudyImporterException {
    try {
        LOG.info("importing github repo [" + repository + "]...");
        Dataset dataset = DatasetFactory.datasetFor(repository, getDatasetFinder());
        nodeFactory.getOrCreateDataset(dataset);
        importData(dataset);
        LOG.info("importing github repo [" + repository + "] done.");
    } catch (StudyImporterException | DatasetFinderException ex) {
        String msg = "failed to import data from repo [" + repository + "]";
        LOG.error(msg, ex);
        throw new StudyImporterException(msg, ex);
    }
}