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package eu.dnetlib.data.transform.xml;
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import java.util.List;
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import java.util.Map;
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import org.w3c.dom.NamedNodeMap;
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import org.w3c.dom.Node;
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import org.w3c.dom.NodeList;
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import com.google.common.base.Joiner;
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import com.google.common.collect.Lists;
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import com.google.common.collect.Maps;
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import eu.dnetlib.data.mapreduce.util.OafRowKeyDecoder;
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import eu.dnetlib.data.proto.FieldTypeProtos.StructuredProperty;
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import eu.dnetlib.data.proto.OafProtos.Oaf;
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import eu.dnetlib.data.proto.OafProtos.OafEntity;
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import eu.dnetlib.data.proto.OafProtos.OafRel;
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import eu.dnetlib.data.proto.PersonProtos.Person;
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import eu.dnetlib.data.proto.PersonResultProtos.PersonResult;
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import eu.dnetlib.data.proto.PersonResultProtos.PersonResult.Authorship;
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import eu.dnetlib.data.proto.RelMetadataProtos.RelMetadata;
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import eu.dnetlib.data.proto.RelTypeProtos.RelType;
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import eu.dnetlib.data.proto.RelTypeProtos.SubRelType;
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import eu.dnetlib.data.proto.ResultProjectProtos.ResultProject;
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import eu.dnetlib.data.proto.ResultProjectProtos.ResultProject.Outcome;
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import eu.dnetlib.data.proto.ResultProtos.Result;
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import eu.dnetlib.data.proto.ResultProtos.Result.Instance;
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import eu.dnetlib.data.proto.ResultResultProtos.ResultResult;
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import eu.dnetlib.data.proto.ResultResultProtos.ResultResult.PublicationDataset;
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import eu.dnetlib.data.proto.TypeProtos.Type;
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public class DataciteToHbaseXsltFunctions extends AbstractDNetOafXsltFunctions {
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private static Map<String, String> mappingAccess = Maps.newHashMap();
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static {
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mappingAccess.put("info:eu-repo/semantics/openAccess", "OPEN");
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mappingAccess.put("info:eu-repo/semantics/closedAccess", "CLOSED");
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mappingAccess.put("info:eu-repo/semantics/restrictedAccess", "RESTRICTED");
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mappingAccess.put("info:eu-repo/semantics/embargoedAccess", "EMBARGO");
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// Transformator now maps the access rights into proper values, not sure if it does for all datasets.
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mappingAccess.put("OPEN", "OPEN");
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mappingAccess.put("CLOSED", "CLOSED");
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mappingAccess.put("RESTRICTED", "RESTRICTED");
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mappingAccess.put("EMBARGO", "EMBARGO");
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}
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public static String oafResult_FromDatacite(final String resultId,
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final NodeList dataInfo,
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final NodeList metadata,
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final NodeList titles,
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final NodeList subjects,
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final NodeList publisher,
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final NodeList descriptions,
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final NodeList dates,
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final NodeList dateaccepted,
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final NodeList resourceTypes,
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final NodeList formats,
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final NodeList sizes,
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final NodeList languages,
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final NodeList cobjcategory,
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final NodeList rights,
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final NodeList version,
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final String provenance,
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final String trust,
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final String hostedbyId,
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final String hostedbyName,
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final String collectedfromId,
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final String collectedfromName,
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final String originalId,
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final String instanceUri,
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final String dateOfCollection) {
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try {
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final String entityId = OafRowKeyDecoder.decode(resultId).getKey();
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final Result.Builder result = Result.newBuilder();
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Result.Metadata.Builder metadataProto = Result.Metadata.newBuilder();
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// subject
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for (int i = 0; i < subjects.getLength(); i++) {
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Node currentNode = subjects.item(i);
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NodeList childNodes = currentNode.getChildNodes();
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if (childNodes.getLength() > 0) {
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String subjectValue = childNodes.item(0).getNodeValue();
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addField(metadataProto, Result.Metadata.getDescriptor().findFieldByName("subject"),
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getStructuredProperty(subjectValue, "keyword", "keyword", "dnet:result_subject", "dnet:result_subject"));
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}
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}
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// title
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for (int i = 0; i < titles.getLength(); i++) {
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Node currentNode = titles.item(i);
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NodeList childNodes = currentNode.getChildNodes();
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if (childNodes.getLength() > 0) {
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String titleValue = childNodes.item(0).getNodeValue();
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String classname = "main title";
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String classid = "main title";
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if (currentNode.hasAttributes()) {
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NamedNodeMap attributes = currentNode.getAttributes();
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Node titleType = attributes.getNamedItem("titleType");
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if (titleType != null && titleType.getNodeValue().equals("AlternativeTitle")) {
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classname = "alternative title";
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classid = "alternative title";
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}
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if (titleType != null && titleType.getNodeValue().equals("Subtitle")) {
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classname = "subtitle";
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classid = "subtitle";
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}
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if (titleType != null && titleType.getNodeValue().equals("TranslatedTitle")) {
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classname = "translated title";
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classid = "translated title";
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}
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}
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addField(metadataProto, Result.Metadata.getDescriptor().findFieldByName("title"),
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getStructuredProperty(titleValue, classname, classid, "dnet:dataCite_title", "dnet:dataCite_title"));
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}
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}
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// description
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for (int i = 0; i < descriptions.getLength(); i++) {
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Node currentNode = descriptions.item(i);
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if (currentNode != null && currentNode.hasChildNodes()) {
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String descriptionValue = currentNode.getChildNodes().item(0).getNodeValue();
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addField(metadataProto, Result.Metadata.getDescriptor().findFieldByName("description"), descriptionValue);
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}
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}
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// publisher
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addField(metadataProto, Result.Metadata.getDescriptor().findFieldByName("publisher"), getFirstItem(publisher));
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// dates
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for (int i = 0; i < dates.getLength(); i++) {
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Node currentNode = dates.item(i);
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if (currentNode != null && currentNode.hasAttributes() && currentNode.hasChildNodes()) {
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String dateAttribute = currentNode.getAttributes().getNamedItem("dateType").getNodeValue();
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String dateValue = currentNode.getChildNodes().item(0).getNodeValue();
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String protoAttribute = "relevantdate";
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if ("Accepted".equals(dateAttribute)) {
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protoAttribute = "dateofacceptance";
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} else if ("Issued".equals(dateAttribute)) {
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protoAttribute = "storagedate";
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} else if ("Updated".equals(dateAttribute)) {
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protoAttribute = "lastmetadataupdate";
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} else if ("Available".equals(dateAttribute)) {
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protoAttribute = "embargoenddate";
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}
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if (protoAttribute.equals("relevantdate") == false) {
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addField(metadataProto, Result.Metadata.getDescriptor().findFieldByName(protoAttribute), dateValue);
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} else {
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addField(metadataProto, Result.Metadata.getDescriptor().findFieldByName(protoAttribute),
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getStructuredProperty(dateValue, "UNKNOWN", "UNKNOWN", "dnet:dataCite_date", "dnet:dataCite_date"));
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}
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}
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}
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// dateofacceptance
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addField(metadataProto, Result.Metadata.getDescriptor().findFieldByName("dateofacceptance"), getFirstItem(dateaccepted));
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// size
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addField(metadataProto, Result.Metadata.getDescriptor().findFieldByName("size"), getFirstItem(sizes));
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// format
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addField(metadataProto, Result.Metadata.getDescriptor().findFieldByName("format"), getFirstItem(formats));
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// version
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addField(metadataProto, Result.Metadata.getDescriptor().findFieldByName("version"), getFirstItem(version));
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// language
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addField(metadataProto, Result.Metadata.getDescriptor().findFieldByName("language"),
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setQualifier(getDefaultQualifier("dnet:languages"), Lists.newArrayList(getFirstItem(languages))));
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// resultType
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addField(metadataProto, Result.Metadata.getDescriptor().findFieldByName("resulttype"), getSimpleQualifier("dataset", "dnet:result_typologies"));
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String tmpID;
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String TmpName;
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if (hostedbyId == null && hostedbyName == null) {
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tmpID = collectedfromId;
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TmpName = collectedfromName;
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} else {
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tmpID = hostedbyId;
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TmpName = hostedbyName;
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}
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final Instance.Builder instance = Instance.newBuilder().setHostedby(getKV(tmpID, TmpName));
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String tmpRigths = "UNKNOWN";
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final String firstRight = getFirstItem(rights);
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if (mappingAccess.containsKey(firstRight)) {
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tmpRigths = mappingAccess.get(firstRight);
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}
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addField(instance, Instance.getDescriptor().findFieldByName("licence"),
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setQualifier(getDefaultQualifier("dnet:access_modes"), Lists.newArrayList(tmpRigths)));
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addField(instance, Instance.getDescriptor().findFieldByName("instancetype"),
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setQualifier(getDefaultQualifier("dnet:dataCite_resource"), Lists.newArrayList(getFirstItem(cobjcategory))));
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addField(instance, Instance.getDescriptor().findFieldByName("url"), instanceUri);
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result.addInstance(instance);
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List<StructuredProperty> pids = Lists.newArrayList();
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OafEntity.Builder entity =
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getEntity(Type.result, entityId, getKV(collectedfromId, collectedfromName), originalId, dateOfCollection, pids).setResult(
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result.setMetadata(metadataProto));
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Oaf oaf = getOaf(entity, getDataInfo(dataInfo, provenance, trust, false, false));
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return base64(oaf.toByteArray());
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} catch (Exception e) {
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e.printStackTrace(System.err);
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throw new RuntimeException(e);
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}
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220
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}
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// dnet:dnet:oafResultResultFromMDStore($relatedId, $resultId)
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public static String oafResultResult_PublicationDataset_FromDatacite(final String source,
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final String target,
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final String relClass,
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final String provenanceAction,
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final String trust,
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final NodeList dataInfo) {
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try {
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final String eSource = OafRowKeyDecoder.decode(source).getKey();
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final String eTarget = OafRowKeyDecoder.decode(target).getKey();
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final RelMetadata.Builder metadata = RelMetadata.newBuilder().setSemantics(getSimpleQualifier(relClass, "dnet:result_result_relations"));
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final PublicationDataset.Builder builder = PublicationDataset.newBuilder().setRelMetadata(metadata);
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236
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237
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OafRel.Builder rel =
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getRel(eSource, eTarget, RelType.resultResult, SubRelType.publicationDataset, relClass, false).setResultResult(
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ResultResult.newBuilder().setPublicationDataset(builder));
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240
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241
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return base64(getOaf(rel, getDataInfo(dataInfo, provenanceAction, trust, false, false)).toByteArray());
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} catch (Exception e) {
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e.printStackTrace(System.err);
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244
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throw new RuntimeException(e);
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245
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}
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246
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}
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247
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248
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public static String getFirstItem(final NodeList list) {
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249
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String out = "";
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250
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if (list != null) {
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251
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252
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if (list.getLength() > 0 && list.item(0).getChildNodes() != null && list.item(0).getChildNodes().getLength() > 0) {
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253
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out = list.item(0).getChildNodes().item(0).getNodeValue();
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254
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}
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255
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}
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256
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return out;
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257
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}
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258
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259
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// dnet:oafResultProjectFromDMF($resultId, $projectId, "sysimport:crosswalk:repository", "0.9")
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260
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public static String oafResultProject_Outcome_FromDatacite(final String source,
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261
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final String target,
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262
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final String relClass,
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263
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final String provenanceAction,
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264
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final String trust,
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265
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final NodeList dataInfo) {
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266
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try {
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267
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final String eSource = OafRowKeyDecoder.decode(source).getKey();
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268
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final String eTarget = OafRowKeyDecoder.decode(target).getKey();
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269
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270
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final RelMetadata.Builder metadata = RelMetadata.newBuilder().setSemantics(getSimpleQualifier(relClass, "dnet:result_project_relations"));
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271
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final Outcome.Builder outcome = Outcome.newBuilder().setRelMetadata(metadata);
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272
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273
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OafRel.Builder rel =
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274
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getRel(eSource, eTarget, RelType.resultProject, SubRelType.outcome, relClass, false).setResultProject(
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275
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ResultProject.newBuilder().setOutcome(outcome));
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276
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277
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return base64(getOaf(rel, getDataInfo(dataInfo, provenanceAction, trust, false, false)).toByteArray());
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278
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} catch (Exception e) {
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279
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e.printStackTrace(System.err);
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280
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throw new RuntimeException(e);
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281
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}
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282
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}
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283
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284
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public static String oafPerson_FromDatacite(final String personId,
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285
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final NodeList dataInfo,
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286
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final String fullname,
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287
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final String provenanceAction,
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288
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final String trust,
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289
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final String collectedfromId,
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290
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final String collectedfromName,
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291
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final String originalId,
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292
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final String dateOfCollection) {
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293
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294
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final String entityId = OafRowKeyDecoder.decode(personId).getKey();
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295
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try {
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296
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final Person.Builder person = Person.newBuilder();
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297
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final Person.Metadata.Builder metadata = Person.Metadata.newBuilder();
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298
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299
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metadata.setFullname(sf(fullname));
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300
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301
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eu.dnetlib.pace.model.Person p = new eu.dnetlib.pace.model.Person(fullname, false);
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302
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if (p.isAccurate()) {
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303
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metadata.setFirstname(sf(Joiner.on(" ").join(p.getName())));
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304
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metadata.clearSecondnames();
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305
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for (String s : p.getSurname()) {
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306
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metadata.addSecondnames(sf(s));
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307
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}
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308
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metadata.setFullname(sf(p.getNormalisedFullname()));
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309
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}
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310
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311
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// metadata.setNationality(getSimpleQualifier("UNKNOWN", "dnet:countries"));
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312
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List<StructuredProperty> pids = Lists.newArrayList();
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313
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OafEntity.Builder entity =
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314
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getEntity(Type.person, entityId, getKV(collectedfromId, collectedfromName), originalId, dateOfCollection, pids).setPerson(
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315
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person.setMetadata(metadata));
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316
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317
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return base64(getOaf(entity, getDataInfo(dataInfo, provenanceAction, trust, false, false)).toByteArray());
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318
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} catch (Exception e) {
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319
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e.printStackTrace(System.err);
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320
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throw new RuntimeException(e);
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321
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}
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|
322
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}
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|
323
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324
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public static String oafPersonResult_Authorship_FromDatacite(final String source,
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|
325
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final String target,
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326
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final int rank,
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327
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final String relClass,
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328
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final String provenanceAction,
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329
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final String trust,
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330
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final NodeList dataInfo) {
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|
331
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try {
|
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332
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final String eSource = OafRowKeyDecoder.decode(source).getKey();
|
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333
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final String eTarget = OafRowKeyDecoder.decode(target).getKey();
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334
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|
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335
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final RelMetadata.Builder metadata = RelMetadata.newBuilder().setSemantics(getSimpleQualifier(relClass, "dnet:personroles"));
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336
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final Authorship.Builder auth = Authorship.newBuilder().setRanking("" + rank).setRelMetadata(metadata);
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|
337
|
|
|
338
|
OafRel.Builder rel =
|
|
339
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getRel(eSource, eTarget, RelType.personResult, SubRelType.authorship, relClass, false).setPersonResult(
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|
340
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PersonResult.newBuilder().setAuthorship(auth));
|
|
341
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|
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342
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return base64(getOaf(rel, getDataInfo(dataInfo, provenanceAction, trust, false, false)).toByteArray());
|
|
343
|
} catch (Exception e) {
|
|
344
|
e.printStackTrace(System.err);
|
|
345
|
throw new RuntimeException(e);
|
|
346
|
}
|
|
347
|
}
|
|
348
|
|
|
349
|
}
|