Examples with ArchiveFile org.gbif.dwc.ArchiveFile used on opensource projects

Example 6 with ArchiveFile

use of org.gbif.dwc.ArchiveFile in project eol-globi-data by jhpoelen.

the class DatasetImporterForDwCA method importAssociatedTaxaExtension.

static void importAssociatedTaxaExtension(Archive archive, InteractionListener interactionListener) {
    ArchiveFile extension = findResourceExtension(archive, EXTENSION_ASSOCIATED_TAXA);
    if (extension != null) {
        final BTreeMap<String, Map<String, String>> associationsMap = MapDBUtil.createBigMap();
        try {
            ArchiveFile core = archive.getCore();
            importTaxaExtension(interactionListener, extension, core, associationsMap);
        } finally {
            if (associationsMap != null) {
                associationsMap.close();
            }
        }
    }
}

Example 7 with ArchiveFile

use of org.gbif.dwc.ArchiveFile 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) {
            // 
            }
        }
    }
}