Examples with EcoregionFinder org.eol.globi.geo.EcoregionFinder used on opensource projects

Example 1 with EcoregionFinder

use of org.eol.globi.geo.EcoregionFinder in project eol-globi-data by jhpoelen.

the class NodeFactoryNeo4j method associateWithEcoRegions.

private List<Ecoregion> associateWithEcoRegions(Location location) throws NodeFactoryException {
    List<Ecoregion> associatedEcoregions = new ArrayList<Ecoregion>();
    try {
        EcoregionFinder finder = getEcoregionFinder();
        if (finder != null) {
            Collection<Ecoregion> ecoregions = finder.findEcoregion(location.getLatitude(), location.getLongitude());
            for (Ecoregion ecoregion : ecoregions) {
                associateLocationWithEcoRegion(location, ecoregion);
                associatedEcoregions.add(ecoregion);
            }
        }
    } catch (EcoregionFinderException e) {
        throw new NodeFactoryException("problem finding eco region for location (lat,lng):(" + location.getLatitude() + "," + location.getLongitude() + ")");
    }
    return associatedEcoregions;
}

Example 2 with EcoregionFinder

use of org.eol.globi.geo.EcoregionFinder in project eol-globi-data by jhpoelen.

the class Normalizer method importData.

void importData(GraphDatabaseService graphService, String cacheDir) {
    NodeFactoryNeo4j factory = new NodeFactoryNeo4j(graphService);
    factory.setEcoregionFinder(getEcoregionFinder());
    factory.setDoiResolver(new DOIResolverImpl());
    try {
        CacheFactory cacheFactory = dataset -> new CacheLocalReadonly(dataset.getNamespace(), cacheDir);
        DatasetFinder finder = new DatasetFinderLocal(cacheDir, cacheFactory);
        StudyImporter importer = new StudyImporterForGitHubData(new ParserFactoryLocal(), factory, finder);
        importer.setDataset(new DatasetLocal());
        importer.setLogger(new StudyImportLogger());
        importer.importStudy();
    } catch (StudyImporterException e) {
        LOG.error("problem encountered while importing [" + StudyImporterForGitHubData.class.getName() + "]", e);
    }
    EcoregionFinder regionFinder = getEcoregionFinder();
    if (regionFinder != null) {
        regionFinder.shutdown();
    }
}

Example 3 with EcoregionFinder

use of org.eol.globi.geo.EcoregionFinder in project eol-globi-data by jhpoelen.

the class NormalizerTest method createNormalizer.

private Normalizer createNormalizer() {
    Normalizer dataNormalizationTool = new Normalizer();
    dataNormalizationTool.setEcoregionFinder(new EcoregionFinder() {

        @Override
        public Collection<Ecoregion> findEcoregion(double lat, double lng) throws EcoregionFinderException {
            final Ecoregion ecoregion = new Ecoregion();
            ecoregion.setName("some name");
            ecoregion.setPath("some | path");
            ecoregion.setId("someId");
            ecoregion.setGeometry("POINT(1,2)");
            return new ArrayList<Ecoregion>() {

                {
                    add(ecoregion);
                }
            };
        }

        @Override
        public void shutdown() {
        }
    });
    return dataNormalizationTool;
}

Example 4 with EcoregionFinder

use of org.eol.globi.geo.EcoregionFinder in project eol-globi-data by jhpoelen.

the class GraphDBTestCase method createNodeFactory.

NodeFactory createNodeFactory() {
    NodeFactoryNeo4j nodeFactoryNeo4j = new NodeFactoryNeo4j(getGraphDb());
    nodeFactoryNeo4j.setEcoregionFinder(new EcoregionFinder() {

        @Override
        public Collection<Ecoregion> findEcoregion(double lat, double lng) throws EcoregionFinderException {
            final Ecoregion ecoregion = new Ecoregion();
            ecoregion.setName("some eco region");
            ecoregion.setPath("some | eco | region | path");
            ecoregion.setId("some:id");
            ecoregion.setGeometry("POINT(0,0)");
            return new ArrayList<Ecoregion>() {

                {
                    add(ecoregion);
                }
            };
        }

        @Override
        public void shutdown() {
        }
    });
    nodeFactoryNeo4j.setEnvoLookupService(getEnvoLookupService());
    nodeFactoryNeo4j.setTermLookupService(getTermLookupService());
    return nodeFactoryNeo4j;
}

Example 5 with EcoregionFinder

use of org.eol.globi.geo.EcoregionFinder in project eol-globi-data by jhpoelen.

the class EcoregionFinderProxyTest method multipleRegionsForSingleLocation.

@Test
public void multipleRegionsForSingleLocation() throws EcoregionFinderException {
    ArrayList<EcoregionFinder> finders = new ArrayList<EcoregionFinder>() {

        {
            add(new EcoregionTestFinder("one:"));
            add(new EcoregionTestFinder("two:"));
            add(new EcoregionTestFinder("two:"));
            add(new EcoregionTestFinder("three:"));
        }
    };
    Collection<Ecoregion> ecoregion = new EcoregionFinderProxy(finders).findEcoregion(9.2, -79.91667);
    Collection<String> ids = new ArrayList<String>();
    for (Ecoregion region : ecoregion) {
        ids.add(region.getId());
    }
    assertThat(ids.contains("one:123"), is(true));
    assertThat(ids.contains("two:123"), is(true));
    assertThat(ids.contains("three:123"), is(true));
    assertThat(ecoregion.size(), is(3));
}