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

Example 6 with Dataset

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

the class StudyImporterForArthopodEasyCaptureTest method readRSS.

@Test
public void readRSS() throws StudyImporterException, IOException {
    final ParserFactory parserFactory = null;
    final NodeFactory nodeFactory = null;
    final Dataset dataset = getDatasetGroup();
    List<StudyImporter> importers = StudyImporterForArthopodEasyCapture.getStudyImportersForRSSFeed(dataset, parserFactory, nodeFactory);
    assertThat(importers.size(), is(3));
}

Example 7 with Dataset

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

the class StudyImporterForArthopodEasyCaptureTest method embeddedDatasetWithConfig.

@Test
public void embeddedDatasetWithConfig() throws IOException {
    Dataset embeddedDataset = StudyImporterForArthopodEasyCapture.embeddedDatasetFor(getDatasetGroupWithProperty(), "some other citation", URI.create("http://example.com/archive.zip"));
    assertThat(embeddedDataset.getCitation(), is("some other citation"));
    assertThat(embeddedDataset.getOrDefault(DatasetConstant.SHOULD_RESOLVE_REFERENCES, "true"), is("false"));
    assertThat(DatasetUtil.getNamedResourceURI(embeddedDataset, "archive"), is("http://example.com/archive.zip"));
}

Example 8 with Dataset

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

the class DatasetFinderWithCacheIT method hafnerTest.

@Test
public void hafnerTest() throws DatasetFinderException, IOException {
    DatasetFinder finder = new DatasetFinderWithCache(new DatasetFinderGitHubArchive(), cachePath);
    Dataset dataset = DatasetFactory.datasetFor("globalbioticinteractions/hafner", finder);
    assertNotNull(dataset.getResource("hafner/gopher_lice_int.csv"));
}

Example 9 with Dataset

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

the class NodeFactoryNeo4j method getOrCreateDataset.

@Override
public Dataset getOrCreateDataset(Dataset originatingDataset) {
    Transaction transaction = graphDb.beginTx();
    try {
        Dataset datasetCreated = getOrCreateDatasetNoTx(originatingDataset);
        transaction.success();
        return datasetCreated;
    } finally {
        transaction.finish();
    }
}

Example 10 with Dataset

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

the class StudyImporterForArthopodEasyCapture method getStudyImportersForRSSFeed.

public static List<StudyImporter> getStudyImportersForRSSFeed(Dataset datasetOrig, ParserFactory parserFactory, NodeFactory nodeFactory) throws StudyImporterException {
    SyndFeedInput input = new SyndFeedInput();
    SyndFeed feed;
    String rss = getRss(datasetOrig);
    try {
        feed = input.build(new XmlReader(new URL(rss)));
    } catch (FeedException | IOException e) {
        throw new StudyImporterException("failed to read rss feed [" + rss + "]", e);
    }
    List<StudyImporter> importers = new ArrayList<StudyImporter>();
    final List entries = feed.getEntries();
    for (Object entry : entries) {
        if (entry instanceof SyndEntry) {
            SyndEntry syndEntry = (SyndEntry) entry;
            Dataset dataset = embeddedDatasetFor(datasetOrig, StringUtils.trim(syndEntry.getDescription().getValue()), URI.create(StringUtils.trim(syndEntry.getLink())));
            final StudyImporterForSeltmann studyImporter = new StudyImporterForSeltmann(parserFactory, nodeFactory);
            studyImporter.setDataset(dataset);
            importers.add(studyImporter);
        }
    }
    return importers;
}