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package eu.dnetlib.data.mapreduce.hbase.dataexport;
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import com.googlecode.protobuf.format.JsonFormat;
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import eu.dnetlib.data.proto.*;
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import eu.dnetlib.dhp.schema.oaf.*;
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import java.io.Serializable;
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import java.util.stream.Collectors;
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public class ProtoConverter implements Serializable {
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public static Oaf convert(OafProtos.Oaf oaf) {
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try {
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switch (oaf.getKind()) {
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case entity:
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return convertEntity(oaf);
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case relation:
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return convertRelation(oaf);
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default:
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throw new IllegalArgumentException("invalid kind " + oaf.getKind());
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}
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} catch (Throwable e) {
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throw new RuntimeException("error on getting " + JsonFormat.printToString(oaf), e);
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}
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}
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private static Relation convertRelation(OafProtos.Oaf oaf) {
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final OafProtos.OafRel r = oaf.getRel();
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final Relation rel = new Relation();
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rel.setDataInfo(mapDataInfo(oaf.getDataInfo()));
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rel.setLastupdatetimestamp(oaf.getLastupdatetimestamp());
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rel.setSource(r.getSource());
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rel.setTarget(r.getTarget());
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rel.setRelType(r.getRelType().toString());
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rel.setSubRelType(r.getSubRelType().toString());
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rel.setRelClass(r.getRelClass());
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rel.setCollectedFrom(r.getCollectedfromCount() > 0 ?
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r.getCollectedfromList().stream()
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.map(kv -> mapKV(kv))
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.collect(Collectors.toList()) : null);
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return rel;
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}
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private static OafEntity convertEntity(OafProtos.Oaf oaf) {
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switch (oaf.getEntity().getType()) {
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case result:
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return convertResult(oaf);
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case project:
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return convertProject(oaf);
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case datasource:
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return convertDataSource(oaf);
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case organization:
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return convertOrganization(oaf);
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default:
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throw new RuntimeException("received unknown type");
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}
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}
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private static Organization convertOrganization(OafProtos.Oaf oaf) {
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final OrganizationProtos.Organization.Metadata m = oaf.getEntity().getOrganization().getMetadata();
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final Organization org = setOaf(new Organization(), oaf);
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setEntity(org, oaf);
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org.setLegalshortname(mapStringField(m.getLegalshortname()));
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org.setLegalname(mapStringField(m.getLegalname()));
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org.setAlternativeNames(m.getAlternativeNamesList().
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stream()
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.map(ProtoConverter::mapStringField)
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.collect(Collectors.toList()));
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org.setWebsiteurl(mapStringField(m.getWebsiteurl()));
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org.setLogourl(mapStringField(m.getLogourl()));
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org.setEclegalbody(mapStringField(m.getEclegalbody()));
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org.setEclegalperson(mapStringField(m.getEclegalperson()));
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org.setEcnonprofit(mapStringField(m.getEcnonprofit()));
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org.setEcresearchorganization(mapStringField(m.getEcresearchorganization()));
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org.setEchighereducation(mapStringField(m.getEchighereducation()));
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org.setEcinternationalorganizationeurinterests(mapStringField(m.getEcinternationalorganizationeurinterests()));
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org.setEcinternationalorganization(mapStringField(m.getEcinternationalorganization()));
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org.setEcenterprise(mapStringField(m.getEcenterprise()));
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org.setEcsmevalidated(mapStringField(m.getEcsmevalidated()));
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org.setEcnutscode(mapStringField(m.getEcnutscode()));
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org.setCountry(mapQualifier(m.getCountry()));
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return org;
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}
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private static Datasource convertDataSource(OafProtos.Oaf oaf) {
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final DatasourceProtos.Datasource.Metadata m = oaf.getEntity().getDatasource().getMetadata();
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final Datasource datasource = setOaf(new Datasource(), oaf);
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setEntity(datasource, oaf);
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datasource.setAccessinfopackage(m.getAccessinfopackageList()
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.stream()
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.map(ProtoConverter::mapStringField)
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.collect(Collectors.toList()));
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datasource.setCertificates(mapStringField(m.getCertificates()));
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datasource.setCitationguidelineurl(mapStringField(m.getCitationguidelineurl()));
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datasource.setContactemail(mapStringField(m.getContactemail()));
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datasource.setDatabaseaccessrestriction(mapStringField(m.getDatabaseaccessrestriction()));
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datasource.setDatabaseaccesstype(mapStringField(m.getDatabaseaccesstype()));
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datasource.setDataprovider(mapBoolField(m.getDataprovider()));
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datasource.setDatasourcetype(mapQualifier(m.getDatasourcetype()));
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datasource.setDatauploadrestriction(mapStringField(m.getDatauploadrestriction()));
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datasource.setCitationguidelineurl(mapStringField(m.getCitationguidelineurl()));
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datasource.setDatauploadtype(mapStringField(m.getDatauploadtype()));
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datasource.setDateofvalidation(mapStringField(m.getDateofvalidation()));
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datasource.setDescription(mapStringField(m.getDescription()));
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datasource.setEnglishname(mapStringField(m.getEnglishname()));
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datasource.setLatitude(mapStringField(m.getLatitude()));
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datasource.setLongitude(mapStringField(m.getLongitude()));
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datasource.setLogourl(mapStringField(m.getLogourl()));
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datasource.setMissionstatementurl(mapStringField(m.getMissionstatementurl()));
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datasource.setNamespaceprefix(mapStringField(m.getNamespaceprefix()));
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datasource.setOdcontenttypes(m.getOdcontenttypesList()
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.stream()
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.map(ProtoConverter::mapStringField)
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.collect(Collectors.toList()));
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datasource.setOdlanguages(m.getOdlanguagesList()
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.stream()
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.map(ProtoConverter::mapStringField)
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.collect(Collectors.toList()));
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datasource.setOdnumberofitems(mapStringField(m.getOdnumberofitems()));
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datasource.setOdnumberofitemsdate(mapStringField(m.getOdnumberofitemsdate()));
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datasource.setOdpolicies(mapStringField(m.getOdpolicies()));
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datasource.setOfficialname(mapStringField(m.getOfficialname()));
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datasource.setOpenairecompatibility(mapQualifier(m.getOpenairecompatibility()));
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datasource.setPidsystems(mapStringField(m.getPidsystems()));
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datasource.setPolicies(m.getPoliciesList()
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.stream()
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.map(ProtoConverter::mapKV)
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.collect(Collectors.toList()));
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datasource.setQualitymanagementkind(mapStringField(m.getQualitymanagementkind()));
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datasource.setReleaseenddate(mapStringField(m.getReleaseenddate()));
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datasource.setServiceprovider(mapBoolField(m.getServiceprovider()));
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datasource.setReleasestartdate(mapStringField(m.getReleasestartdate()));
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datasource.setSubjects(m.getSubjectsList()
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.stream()
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.map(ProtoConverter::mapStructuredProperty)
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.collect(Collectors.toList()));
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datasource.setVersioning(mapBoolField(m.getVersioning()));
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datasource.setWebsiteurl(mapStringField(m.getWebsiteurl()));
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datasource.setJournal(mapJournal(m.getJournal()));
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return datasource;
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}
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private static Project convertProject(OafProtos.Oaf oaf) {
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final ProjectProtos.Project.Metadata m = oaf.getEntity().getProject().getMetadata();
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final Project project = setOaf(new Project(), oaf);
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setEntity(project, oaf);
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project.setAcronym(mapStringField(m.getAcronym()));
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project.setCallidentifier(mapStringField(m.getCallidentifier()));
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project.setCode(mapStringField(m.getCode()));
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project.setContactemail(mapStringField(m.getContactemail()));
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project.setContactfax(mapStringField(m.getContactfax()));
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project.setContactfullname(mapStringField(m.getContactfullname()));
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project.setContactphone(mapStringField(m.getContactphone()));
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project.setContracttype(mapQualifier(m.getContracttype()));
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project.setCurrency(mapStringField(m.getCurrency()));
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project.setDuration(mapStringField(m.getDuration()));
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project.setEcarticle29_3(mapStringField(m.getEcarticle293()));
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project.setEcsc39(mapStringField(m.getEcsc39()));
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project.setOamandatepublications(mapStringField(m.getOamandatepublications()));
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project.setStartdate(mapStringField(m.getStartdate()));
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project.setEnddate(mapStringField(m.getEnddate()));
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project.setFundedamount(m.getFundedamount());
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project.setTotalcost(m.getTotalcost());
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project.setKeywords(mapStringField(m.getKeywords()));
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project.setSubjects(m.getSubjectsList().stream()
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.map(sp -> mapStructuredProperty(sp))
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.collect(Collectors.toList()));
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project.setTitle(mapStringField(m.getTitle()));
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project.setWebsiteurl(mapStringField(m.getWebsiteurl()));
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project.setFundingtree(m.getFundingtreeList().stream()
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.map(f -> mapStringField(f))
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.collect(Collectors.toList()));
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project.setJsonextrainfo(mapStringField(m.getJsonextrainfo()));
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project.setSummary(mapStringField(m.getSummary()));
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project.setOptional1(mapStringField(m.getOptional1()));
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project.setOptional2(mapStringField(m.getOptional2()));
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return project;
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}
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private static Result convertResult(OafProtos.Oaf oaf) {
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switch (oaf.getEntity().getResult().getMetadata().getResulttype().getClassid()) {
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case "dataset":
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return createDataset(oaf);
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case "publication":
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return createPublication(oaf);
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case "software":
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return createSoftware(oaf);
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case "other":
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return createORP(oaf);
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default:
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throw new RuntimeException("received unknown type: " + oaf.getEntity().getResult().getMetadata().getResulttype().getClassid());
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}
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}
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private static Software createSoftware(OafProtos.Oaf oaf) {
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ResultProtos.Result.Metadata m = oaf.getEntity().getResult().getMetadata();
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Software software = setOaf(new Software(), oaf);
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setEntity(software, oaf);
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setResult(software, oaf);
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software.setDocumentationUrl(m.getDocumentationUrlList()
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.stream()
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.map(ProtoConverter::mapStringField)
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.collect(Collectors.toList()));
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software.setLicense(m.getLicenseList()
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.stream()
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.map(ProtoConverter::mapStructuredProperty)
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.collect(Collectors.toList()));
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software.setCodeRepositoryUrl(mapStringField(m.getCodeRepositoryUrl()));
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software.setProgrammingLanguage(mapQualifier(m.getProgrammingLanguage()));
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return software;
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}
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private static OtherResearchProduct createORP(OafProtos.Oaf oaf) {
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ResultProtos.Result.Metadata m = oaf.getEntity().getResult().getMetadata();
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OtherResearchProduct otherResearchProducts = setOaf(new OtherResearchProduct(), oaf);
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setEntity(otherResearchProducts, oaf);
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setResult(otherResearchProducts, oaf);
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otherResearchProducts.setContactperson(m.getContactpersonList()
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.stream()
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.map(ProtoConverter::mapStringField)
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.collect(Collectors.toList()));
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otherResearchProducts.setContactgroup(m.getContactgroupList()
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.stream()
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.map(ProtoConverter::mapStringField)
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.collect(Collectors.toList()));
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otherResearchProducts.setTool(m.getToolList()
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.stream()
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.map(ProtoConverter::mapStringField)
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.collect(Collectors.toList()));
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return otherResearchProducts;
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}
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private static Publication createPublication(OafProtos.Oaf oaf) {
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ResultProtos.Result.Metadata m = oaf.getEntity().getResult().getMetadata();
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Publication publication = setOaf(new Publication(), oaf);
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setEntity(publication, oaf);
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setResult(publication, oaf);
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publication.setJournal(mapJournal(m.getJournal()));
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return publication;
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}
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private static Dataset createDataset(OafProtos.Oaf oaf) {
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ResultProtos.Result.Metadata m = oaf.getEntity().getResult().getMetadata();
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Dataset dataset = setOaf(new Dataset(), oaf);
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setEntity(dataset, oaf);
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setResult(dataset, oaf);
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dataset.setStoragedate(mapStringField(m.getStoragedate()));
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dataset.setDevice(mapStringField(m.getDevice()));
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dataset.setSize(mapStringField(m.getSize()));
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dataset.setVersion(mapStringField(m.getVersion()));
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dataset.setLastmetadataupdate(mapStringField(m.getLastmetadataupdate()));
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dataset.setMetadataversionnumber(mapStringField(m.getMetadataversionnumber()));
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dataset.setGeolocation(m.getGeolocationList()
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.stream()
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.map(ProtoConverter::mapGeolocation)
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.collect(Collectors.toList()));
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return dataset;
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}
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public static <T extends Oaf> T setOaf(T oaf, OafProtos.Oaf o) {
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oaf.setDataInfo(mapDataInfo(o.getDataInfo()));
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oaf.setLastupdatetimestamp(o.getLastupdatetimestamp());
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return oaf;
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}
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public static <T extends OafEntity> T setEntity(T entity, OafProtos.Oaf oaf) {
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//setting Entity fields
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final OafProtos.OafEntity e = oaf.getEntity();
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entity.setId(e.getId());
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entity.setOriginalId(e.getOriginalIdList());
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entity.setCollectedfrom(e.getCollectedfromList()
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.stream()
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.map(ProtoConverter::mapKV)
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.collect(Collectors.toList()));
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entity.setPid(e.getPidList().stream()
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.map(ProtoConverter::mapStructuredProperty)
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.collect(Collectors.toList()));
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entity.setDateofcollection(entity.getDateofcollection());
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entity.setDateoftransformation(entity.getDateoftransformation());
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entity.setExtraInfo(e.getExtraInfoList()
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.stream()
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.map(ProtoConverter::mapExtraInfo)
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.collect(Collectors.toList()));
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return entity;
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}
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297
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public static <T extends Result> T setResult(T entity, OafProtos.Oaf oaf) {
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298
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//setting Entity fields
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final ResultProtos.Result.Metadata m = oaf.getEntity().getResult().getMetadata();
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entity.setAuthor(m.getAuthorList()
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.stream()
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.map(ProtoConverter::mapAuthor)
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.collect(Collectors.toList()));
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entity.setResulttype(mapQualifier(m.getResulttype()));
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entity.setLanguage(mapQualifier(m.getLanguage()));
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entity.setCountry(m.getCountryList()
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.stream()
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.map(ProtoConverter::mapQualifier)
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.collect(Collectors.toList()));
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entity.setSubject(m.getSubjectList()
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.stream()
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.map(ProtoConverter::mapStructuredProperty)
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.collect(Collectors.toList()));
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entity.setTitle(m.getTitleList()
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.stream()
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.map(ProtoConverter::mapStructuredProperty)
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.collect(Collectors.toList()));
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entity.setRelevantdate(m.getRelevantdateList()
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.stream()
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.map(ProtoConverter::mapStructuredProperty)
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.collect(Collectors.toList()));
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entity.setDescription(m.getDescriptionList()
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.stream()
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324
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.map(ProtoConverter::mapStringField)
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.collect(Collectors.toList()));
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entity.setDateofacceptance(mapStringField(m.getDateofacceptance()));
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327
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entity.setPublisher(mapStringField(m.getPublisher()));
|
|
328
|
entity.setEmbargoenddate(mapStringField(m.getEmbargoenddate()));
|
|
329
|
entity.setSource(m.getSourceList()
|
|
330
|
.stream()
|
|
331
|
.map(ProtoConverter::mapStringField)
|
|
332
|
.collect(Collectors.toList()));
|
|
333
|
entity.setFulltext(m.getFulltextList()
|
|
334
|
.stream()
|
|
335
|
.map(ProtoConverter::mapStringField)
|
|
336
|
.collect(Collectors.toList()));
|
|
337
|
entity.setFormat(m.getFormatList()
|
|
338
|
.stream()
|
|
339
|
.map(ProtoConverter::mapStringField)
|
|
340
|
.collect(Collectors.toList()));
|
|
341
|
entity.setContributor(m.getContributorList()
|
|
342
|
.stream()
|
|
343
|
.map(ProtoConverter::mapStringField)
|
|
344
|
.collect(Collectors.toList()));
|
|
345
|
entity.setResourcetype(mapQualifier(m.getResourcetype()));
|
|
346
|
entity.setCoverage(m.getCoverageList()
|
|
347
|
.stream()
|
|
348
|
.map(ProtoConverter::mapStringField)
|
|
349
|
.collect(Collectors.toList()));
|
|
350
|
entity.setRefereed(mapStringField(m.getRefereed()));
|
|
351
|
entity.setContext(m.getContextList()
|
|
352
|
.stream()
|
|
353
|
.map(ProtoConverter::mapContext)
|
|
354
|
.collect(Collectors.toList()));
|
|
355
|
|
|
356
|
return entity;
|
|
357
|
}
|
|
358
|
|
|
359
|
private static Context mapContext(ResultProtos.Result.Context context) {
|
|
360
|
|
|
361
|
final Context entity = new Context();
|
|
362
|
entity.setId(context.getId());
|
|
363
|
entity.setDataInfo(context.getDataInfoList()
|
|
364
|
.stream()
|
|
365
|
.map(ProtoConverter::mapDataInfo)
|
|
366
|
.collect(Collectors.toList()));
|
|
367
|
return entity;
|
|
368
|
}
|
|
369
|
|
|
370
|
|
|
371
|
public static KeyValue mapKV(FieldTypeProtos.KeyValue kv) {
|
|
372
|
final KeyValue keyValue = new KeyValue();
|
|
373
|
keyValue.setKey(kv.getKey());
|
|
374
|
keyValue.setValue(kv.getValue());
|
|
375
|
keyValue.setDataInfo(mapDataInfo(kv.getDataInfo()));
|
|
376
|
return keyValue;
|
|
377
|
}
|
|
378
|
|
|
379
|
public static DataInfo mapDataInfo(FieldTypeProtos.DataInfo d) {
|
|
380
|
final DataInfo dataInfo = new DataInfo();
|
|
381
|
dataInfo.setDeletedbyinference(d.getDeletedbyinference());
|
|
382
|
dataInfo.setInferenceprovenance(d.getInferenceprovenance());
|
|
383
|
dataInfo.setInferred(d.getInferred());
|
|
384
|
dataInfo.setInvisible(d.getInvisible());
|
|
385
|
dataInfo.setProvenanceaction(mapQualifier(d.getProvenanceaction()));
|
|
386
|
return dataInfo;
|
|
387
|
}
|
|
388
|
|
|
389
|
public static Qualifier mapQualifier(FieldTypeProtos.Qualifier q) {
|
|
390
|
final Qualifier qualifier = new Qualifier();
|
|
391
|
qualifier.setClassid(q.getClassid());
|
|
392
|
qualifier.setClassname(q.getClassname());
|
|
393
|
qualifier.setSchemeid(q.getSchemeid());
|
|
394
|
qualifier.setSchemename(q.getSchemename());
|
|
395
|
return qualifier;
|
|
396
|
}
|
|
397
|
|
|
398
|
public static StructuredProperty mapStructuredProperty(FieldTypeProtos.StructuredProperty sp) {
|
|
399
|
final StructuredProperty structuredProperty = new StructuredProperty();
|
|
400
|
structuredProperty.setValue(sp.getValue());
|
|
401
|
structuredProperty.setQualifier(mapQualifier(sp.getQualifier()));
|
|
402
|
structuredProperty.setDataInfo(mapDataInfo(sp.getDataInfo()));
|
|
403
|
return structuredProperty;
|
|
404
|
}
|
|
405
|
|
|
406
|
public static ExtraInfo mapExtraInfo(FieldTypeProtos.ExtraInfo extraInfo) {
|
|
407
|
final ExtraInfo entity = new ExtraInfo();
|
|
408
|
entity.setName(extraInfo.getName());
|
|
409
|
entity.setTypology(extraInfo.getTypology());
|
|
410
|
entity.setProvenance(extraInfo.getProvenance());
|
|
411
|
entity.setTrust(extraInfo.getTrust());
|
|
412
|
entity.setValue(extraInfo.getValue());
|
|
413
|
return entity;
|
|
414
|
}
|
|
415
|
|
|
416
|
public static OAIProvenance mapOAIProvenance(FieldTypeProtos.OAIProvenance oaiProvenance) {
|
|
417
|
final OAIProvenance entity = new OAIProvenance();
|
|
418
|
entity.setOriginDescription(mapOriginalDescription(oaiProvenance.getOriginDescription()));
|
|
419
|
return entity;
|
|
420
|
}
|
|
421
|
|
|
422
|
public static OriginDescription mapOriginalDescription(FieldTypeProtos.OAIProvenance.OriginDescription originDescription) {
|
|
423
|
final OriginDescription originDescriptionResult = new OriginDescription();
|
|
424
|
originDescriptionResult.setHarvestDate(originDescription.getHarvestDate());
|
|
425
|
originDescriptionResult.setAltered(originDescription.getAltered());
|
|
426
|
originDescriptionResult.setBaseURL(originDescription.getBaseURL());
|
|
427
|
originDescriptionResult.setIdentifier(originDescription.getIdentifier());
|
|
428
|
originDescriptionResult.setDatestamp(originDescription.getDatestamp());
|
|
429
|
originDescriptionResult.setMetadataNamespace(originDescription.getMetadataNamespace());
|
|
430
|
return originDescriptionResult;
|
|
431
|
}
|
|
432
|
|
|
433
|
public static Field<String> mapStringField(FieldTypeProtos.StringField s) {
|
|
434
|
final Field<String> stringField = new Field<>();
|
|
435
|
stringField.setValue(s.getValue());
|
|
436
|
stringField.setDataInfo(mapDataInfo(s.getDataInfo()));
|
|
437
|
return stringField;
|
|
438
|
}
|
|
439
|
|
|
440
|
public static Field<Boolean> mapBoolField(FieldTypeProtos.BoolField b) {
|
|
441
|
final Field<Boolean> booleanField = new Field<>();
|
|
442
|
booleanField.setValue(b.getValue());
|
|
443
|
booleanField.setDataInfo(mapDataInfo(b.getDataInfo()));
|
|
444
|
return booleanField;
|
|
445
|
}
|
|
446
|
|
|
447
|
public static Field<Integer> mapIntField(FieldTypeProtos.IntField b) {
|
|
448
|
final Field<Integer> entity = new Field<>();
|
|
449
|
entity.setValue(b.getValue());
|
|
450
|
entity.setDataInfo(mapDataInfo(b.getDataInfo()));
|
|
451
|
return entity;
|
|
452
|
}
|
|
453
|
|
|
454
|
public static Journal mapJournal(FieldTypeProtos.Journal j) {
|
|
455
|
final Journal journal = new Journal();
|
|
456
|
journal.setConferencedate(j.getConferencedate());
|
|
457
|
journal.setConferenceplace(j.getConferenceplace());
|
|
458
|
journal.setEdition(j.getEdition());
|
|
459
|
journal.setEp(j.getEp());
|
|
460
|
journal.setIss(j.getIss());
|
|
461
|
journal.setIssnLinking(j.getIssnLinking());
|
|
462
|
journal.setIssnOnline(j.getIssnOnline());
|
|
463
|
journal.setIssnPrinted(j.getIssnPrinted());
|
|
464
|
journal.setName(j.getName());
|
|
465
|
journal.setSp(j.getSp());
|
|
466
|
journal.setVol(j.getVol());
|
|
467
|
journal.setDataInfo(mapDataInfo(j.getDataInfo()));
|
|
468
|
return journal;
|
|
469
|
}
|
|
470
|
|
|
471
|
public static Author mapAuthor(FieldTypeProtos.Author author) {
|
|
472
|
final Author entity = new Author();
|
|
473
|
entity.setFullname(author.getFullname());
|
|
474
|
entity.setName(author.getName());
|
|
475
|
entity.setSurname(author.getSurname());
|
|
476
|
entity.setRank(author.getRank());
|
|
477
|
entity.setPid(author.getPidList()
|
|
478
|
.stream()
|
|
479
|
.map(ProtoConverter::mapKV)
|
|
480
|
.collect(Collectors.toList()));
|
|
481
|
entity.setAffiliation(author.getAffiliationList()
|
|
482
|
.stream()
|
|
483
|
.map(ProtoConverter::mapStringField)
|
|
484
|
.collect(Collectors.toList()));
|
|
485
|
return entity;
|
|
486
|
|
|
487
|
}
|
|
488
|
|
|
489
|
public static GeoLocation mapGeolocation(ResultProtos.Result.GeoLocation geoLocation) {
|
|
490
|
final GeoLocation entity = new GeoLocation();
|
|
491
|
entity.setPoint(geoLocation.getPoint());
|
|
492
|
entity.setBox(geoLocation.getBox());
|
|
493
|
entity.setPlace(geoLocation.getPlace());
|
|
494
|
return entity;
|
|
495
|
}
|
|
496
|
}
|