Examples with InteractionListener org.eol.globi.process.InteractionListener used on opensource projects

Example 56 with InteractionListener

use of org.eol.globi.process.InteractionListener in project eol-globi-data by jhpoelen.

the class InteractionListenerIndexingTest method indexOnTargetOccurrenceIdOnly.

@Test
public void indexOnTargetOccurrenceIdOnly() throws StudyImporterException {
    TreeMap<Pair<String, String>, Map<String, String>> interactionsWithUnresolvedOccurrenceIds = new TreeMap<>();
    InteractionListener listener = new InteractionListenerIndexing(interactionsWithUnresolvedOccurrenceIds);
    listener.on(new TreeMap<String, String>() {

        {
            put(DatasetImporterForTSV.TARGET_OCCURRENCE_ID, "target123");
            put(TaxonUtil.SOURCE_TAXON_NAME, "sourceName123");
        }
    });
    assertThat(interactionsWithUnresolvedOccurrenceIds.size(), Is.is(0));
}

Example 57 with InteractionListener

use of org.eol.globi.process.InteractionListener in project eol-globi-data by jhpoelen.

the class DatasetImporterForDwCA method importInteractionsFromResourceRelationships.

private static void importInteractionsFromResourceRelationships(InteractionListener interactionListener, ArchiveFile resourceExtension, Map<String, Map<String, Map<String, String>>> termTypeIdPropMap, List<DwcTerm> termTypes) {
    for (Record record : resourceExtension) {
        Map<String, String> props = new TreeMap<>();
        appendResourceType(props, resourceExtension.getRowType());
        String sourceId = record.value(DwcTerm.resourceID);
        String relationship = record.value(DwcTerm.relationshipOfResource);
        Optional<Term> relationshipOfResourceIDTerm = record.terms().stream().filter(x -> StringUtils.equals(x.simpleName(), "relationshipOfResourceID")).findFirst();
        String relationshipTypeIdValue = relationshipOfResourceIDTerm.map(record::value).orElse(null);
        String targetId = record.value(DwcTerm.relatedResourceID);
        if (StringUtils.isNotBlank(sourceId)) {
            appendVerbatimResourceRelationsValues(record, props);
            String relationshipAccordingTo = record.value(DwcTerm.relationshipAccordingTo);
            if (StringUtils.isNotBlank(relationshipAccordingTo)) {
                props.putIfAbsent(REFERENCE_CITATION, relationshipAccordingTo);
            }
            putIfAbsentAndNotBlank(props, INTERACTION_TYPE_NAME, relationship);
            putIfAbsentAndNotBlank(props, INTERACTION_TYPE_ID, relationshipTypeIdValue);
            putIfAbsentAndNotBlank(props, DatasetImporterForMetaTable.EVENT_DATE, record.value(DwcTerm.relationshipEstablishedDate));
            for (DwcTerm termType : termTypes) {
                String key = termType.qualifiedName();
                if (StringUtils.isNoneBlank(key) && termTypeIdPropMap.containsKey(key)) {
                    Map<String, Map<String, String>> propMap = termTypeIdPropMap.get(termType.qualifiedName());
                    populatePropertiesAssociatedWithId(props, sourceId, true, propMap.get(sourceId), labelPairFor(termType));
                    extractNameFromRelationshipRemarks(record).ifPresent(name -> props.put(TARGET_TAXON_NAME, name));
                    populatePropertiesAssociatedWithId(props, targetId, false, propMap.get(targetId), labelPairFor(termType));
                }
            }
            try {
                interactionListener.on(props);
            } catch (StudyImporterException e) {
            // 
            }
        }
    }
}

Example 58 with InteractionListener

use of org.eol.globi.process.InteractionListener in project eol-globi-data by jhpoelen.

the class DatasetImporterForSaproxylic method toInteractions.

public void toInteractions(ResultSet results) throws StudyImporterException {
    final InteractionListener listener = getInteractionListener();
    while (results.hasNext()) {
        QuerySolution next = results.next();
        Iterator<String> nameIter = next.varNames();
        Map<String, String> props = new TreeMap<>();
        while (nameIter.hasNext()) {
            String key = nameIter.next();
            RDFNode rdfNode = next.get(key);
            if (rdfNode.isURIResource()) {
                props.put(key, next.getResource(key).getURI());
            } else {
                props.put(key, next.getLiteral(key).getString());
            }
        }
        props.put(DatasetImporterForTSV.DATASET_CITATION, getDataset().getCitation());
        listener.on(props);
    }
}