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596 lines
24 KiB
Java
596 lines
24 KiB
Java
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package eu.dnetlib.dhp.oa.graph.raw;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.DATASET_DEFAULT_RESULTTYPE;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.DATASOURCE_ORGANIZATION;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.DNET_PROVENANCE_ACTIONS;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.ENTITYREGISTRY_PROVENANCE_ACTION;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.HAS_PARTICIPANT;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.IS_PARTICIPANT;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.IS_PRODUCED_BY;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.IS_PROVIDED_BY;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.IS_RELATED_TO;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.ORP_DEFAULT_RESULTTYPE;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.OUTCOME;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.PARTICIPATION;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.PRODUCES;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.PROJECT_ORGANIZATION;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.PROVIDES;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.PROVISION;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.PUBLICATION_DEFAULT_RESULTTYPE;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.RELATIONSHIP;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.RESULT_PROJECT;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.RESULT_RESULT;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.SOFTWARE_DEFAULT_RESULTTYPE;
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import static eu.dnetlib.dhp.schema.common.ModelConstants.USER_CLAIM;
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import static eu.dnetlib.dhp.schema.oaf.OafMapperUtils.asString;
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import static eu.dnetlib.dhp.schema.oaf.OafMapperUtils.createOpenaireId;
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import static eu.dnetlib.dhp.schema.oaf.OafMapperUtils.dataInfo;
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import static eu.dnetlib.dhp.schema.oaf.OafMapperUtils.field;
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import static eu.dnetlib.dhp.schema.oaf.OafMapperUtils.journal;
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import static eu.dnetlib.dhp.schema.oaf.OafMapperUtils.listFields;
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import static eu.dnetlib.dhp.schema.oaf.OafMapperUtils.listKeyValues;
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import static eu.dnetlib.dhp.schema.oaf.OafMapperUtils.qualifier;
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import static eu.dnetlib.dhp.schema.oaf.OafMapperUtils.structuredProperty;
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import java.io.Closeable;
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import java.io.IOException;
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import java.sql.Array;
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import java.sql.ResultSet;
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import java.sql.SQLException;
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import java.util.ArrayList;
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import java.util.Arrays;
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import java.util.Date;
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import java.util.List;
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import java.util.Objects;
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import java.util.function.Consumer;
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import java.util.function.Function;
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import java.util.function.Predicate;
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import java.util.stream.Collectors;
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import org.apache.commons.io.IOUtils;
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import org.apache.commons.lang3.StringUtils;
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import org.slf4j.Logger;
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import org.slf4j.LoggerFactory;
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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import eu.dnetlib.dhp.common.DbClient;
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import eu.dnetlib.dhp.oa.graph.raw.common.AbstractMigrationApplication;
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import eu.dnetlib.dhp.oa.graph.raw.common.VerifyNsPrefixPredicate;
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import eu.dnetlib.dhp.oa.graph.raw.common.VocabularyGroup;
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import eu.dnetlib.dhp.schema.oaf.Context;
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import eu.dnetlib.dhp.schema.oaf.DataInfo;
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import eu.dnetlib.dhp.schema.oaf.Dataset;
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import eu.dnetlib.dhp.schema.oaf.Datasource;
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import eu.dnetlib.dhp.schema.oaf.Field;
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import eu.dnetlib.dhp.schema.oaf.Journal;
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import eu.dnetlib.dhp.schema.oaf.KeyValue;
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import eu.dnetlib.dhp.schema.oaf.Oaf;
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import eu.dnetlib.dhp.schema.oaf.Organization;
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import eu.dnetlib.dhp.schema.oaf.OtherResearchProduct;
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import eu.dnetlib.dhp.schema.oaf.Project;
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import eu.dnetlib.dhp.schema.oaf.Publication;
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import eu.dnetlib.dhp.schema.oaf.Qualifier;
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import eu.dnetlib.dhp.schema.oaf.Relation;
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import eu.dnetlib.dhp.schema.oaf.Result;
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import eu.dnetlib.dhp.schema.oaf.Software;
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import eu.dnetlib.dhp.schema.oaf.StructuredProperty;
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import eu.dnetlib.dhp.utils.ISLookupClientFactory;
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public class MigrateDbEntitiesApplication extends AbstractMigrationApplication implements Closeable {
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private static final Logger log = LoggerFactory.getLogger(MigrateDbEntitiesApplication.class);
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public static final String SOURCE_TYPE = "source_type";
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public static final String TARGET_TYPE = "target_type";
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private final DbClient dbClient;
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private final long lastUpdateTimestamp;
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private final VocabularyGroup vocs;
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public static void main(final String[] args) throws Exception {
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final ArgumentApplicationParser parser = new ArgumentApplicationParser(
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IOUtils
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.toString(
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MigrateDbEntitiesApplication.class
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.getResourceAsStream("/eu/dnetlib/dhp/oa/graph/migrate_db_entities_parameters.json")));
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parser.parseArgument(args);
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final String dbUrl = parser.get("postgresUrl");
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log.info("postgresUrl: {}", dbUrl);
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final String dbUser = parser.get("postgresUser");
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log.info("postgresUser: {}", dbUser);
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final String dbPassword = parser.get("postgresPassword");
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log.info("postgresPassword: xxx");
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final String dbSchema = parser.get("dbschema");
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log.info("dbSchema {}: " + dbSchema);
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final String isLookupUrl = parser.get("isLookupUrl");
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log.info("isLookupUrl: {}", isLookupUrl);
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final String hdfsPath = parser.get("hdfsPath");
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log.info("hdfsPath: {}", hdfsPath);
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final String nsPrefixBlacklist = parser.get("nsPrefixBlacklist");
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log.info("nsPrefixBlacklist: {}", nsPrefixBlacklist);
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final Predicate<Oaf> verifyNamespacePrefix = new VerifyNsPrefixPredicate(nsPrefixBlacklist);
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final boolean processClaims = parser.get("action") != null && parser.get("action").equalsIgnoreCase("claims");
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log.info("processClaims: {}", processClaims);
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try (final MigrateDbEntitiesApplication smdbe = new MigrateDbEntitiesApplication(hdfsPath, dbUrl, dbUser,
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dbPassword, isLookupUrl)) {
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if (processClaims) {
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log.info("Processing claims...");
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smdbe.execute("queryClaims.sql", smdbe::processClaims);
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} else {
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log.info("Processing datasources...");
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smdbe.execute("queryDatasources.sql", smdbe::processDatasource, verifyNamespacePrefix);
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log.info("Processing projects...");
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if (dbSchema.equalsIgnoreCase("beta")) {
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smdbe.execute("queryProjects.sql", smdbe::processProject, verifyNamespacePrefix);
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} else {
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smdbe.execute("queryProjects_production.sql", smdbe::processProject, verifyNamespacePrefix);
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}
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log.info("Processing orgs...");
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smdbe.execute("queryOrganizations.sql", smdbe::processOrganization, verifyNamespacePrefix);
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log.info("Processing relationsNoRemoval ds <-> orgs ...");
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smdbe
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.execute(
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"queryDatasourceOrganization.sql", smdbe::processDatasourceOrganization, verifyNamespacePrefix);
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log.info("Processing projects <-> orgs ...");
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smdbe.execute("queryProjectOrganization.sql", smdbe::processProjectOrganization, verifyNamespacePrefix);
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}
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log.info("All done.");
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}
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}
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protected MigrateDbEntitiesApplication(final VocabularyGroup vocs) { // ONLY FOR UNIT TEST
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super();
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this.dbClient = null;
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this.lastUpdateTimestamp = new Date().getTime();
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this.vocs = vocs;
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}
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public MigrateDbEntitiesApplication(
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final String hdfsPath, final String dbUrl, final String dbUser, final String dbPassword,
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final String isLookupUrl)
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throws Exception {
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super(hdfsPath);
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this.dbClient = new DbClient(dbUrl, dbUser, dbPassword);
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this.lastUpdateTimestamp = new Date().getTime();
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this.vocs = VocabularyGroup.loadVocsFromIS(ISLookupClientFactory.getLookUpService(isLookupUrl));
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}
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public void execute(final String sqlFile, final Function<ResultSet, List<Oaf>> producer)
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throws Exception {
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execute(sqlFile, producer, oaf -> true);
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}
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public void execute(final String sqlFile,
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final Function<ResultSet, List<Oaf>> producer,
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final Predicate<Oaf> predicate)
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throws Exception {
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final String sql = IOUtils.toString(getClass().getResourceAsStream("/eu/dnetlib/dhp/oa/graph/sql/" + sqlFile));
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final Consumer<ResultSet> consumer = rs -> producer.apply(rs).forEach(oaf -> {
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if (predicate.test(oaf)) {
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emitOaf(oaf);
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}
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});
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dbClient.processResults(sql, consumer);
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}
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public List<Oaf> processDatasource(final ResultSet rs) {
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try {
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final DataInfo info = prepareDataInfo(rs);
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final Datasource ds = new Datasource();
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ds.setId(createOpenaireId(10, rs.getString("datasourceid"), true));
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ds
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.setOriginalId(
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Arrays
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.asList((String[]) rs.getArray("identities").getArray())
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.stream()
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.filter(StringUtils::isNotBlank)
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.collect(Collectors.toList()));
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ds
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.setCollectedfrom(
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listKeyValues(
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createOpenaireId(10, rs.getString("collectedfromid"), true),
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rs.getString("collectedfromname")));
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ds.setPid(new ArrayList<>());
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ds.setDateofcollection(asString(rs.getDate("dateofcollection")));
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ds.setDateoftransformation(null); // Value not returned by the SQL query
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ds.setExtraInfo(new ArrayList<>()); // Values not present in the DB
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ds.setOaiprovenance(null); // Values not present in the DB
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ds.setDatasourcetype(prepareQualifierSplitting(rs.getString("datasourcetype")));
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ds.setOpenairecompatibility(prepareQualifierSplitting(rs.getString("openairecompatibility")));
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ds.setOfficialname(field(rs.getString("officialname"), info));
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ds.setEnglishname(field(rs.getString("englishname"), info));
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ds.setWebsiteurl(field(rs.getString("websiteurl"), info));
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ds.setLogourl(field(rs.getString("logourl"), info));
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ds.setContactemail(field(rs.getString("contactemail"), info));
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ds.setNamespaceprefix(field(rs.getString("namespaceprefix"), info));
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ds.setLatitude(field(Double.toString(rs.getDouble("latitude")), info));
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ds.setLongitude(field(Double.toString(rs.getDouble("longitude")), info));
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ds.setDateofvalidation(field(asString(rs.getDate("dateofvalidation")), info));
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ds.setDescription(field(rs.getString("description"), info));
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ds.setSubjects(prepareListOfStructProps(rs.getArray("subjects"), info));
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ds.setOdnumberofitems(field(Double.toString(rs.getInt("odnumberofitems")), info));
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ds.setOdnumberofitemsdate(field(asString(rs.getDate("odnumberofitemsdate")), info));
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ds.setOdpolicies(field(rs.getString("odpolicies"), info));
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ds.setOdlanguages(prepareListFields(rs.getArray("odlanguages"), info));
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ds.setOdcontenttypes(prepareListFields(rs.getArray("odcontenttypes"), info));
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ds.setAccessinfopackage(prepareListFields(rs.getArray("accessinfopackage"), info));
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ds.setReleasestartdate(field(asString(rs.getDate("releasestartdate")), info));
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ds.setReleaseenddate(field(asString(rs.getDate("releaseenddate")), info));
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ds.setMissionstatementurl(field(rs.getString("missionstatementurl"), info));
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ds.setDataprovider(field(rs.getBoolean("dataprovider"), info));
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ds.setServiceprovider(field(rs.getBoolean("serviceprovider"), info));
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ds.setDatabaseaccesstype(field(rs.getString("databaseaccesstype"), info));
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ds.setDatauploadtype(field(rs.getString("datauploadtype"), info));
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ds.setDatabaseaccessrestriction(field(rs.getString("databaseaccessrestriction"), info));
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ds.setDatauploadrestriction(field(rs.getString("datauploadrestriction"), info));
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ds.setVersioning(field(rs.getBoolean("versioning"), info));
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ds.setCitationguidelineurl(field(rs.getString("citationguidelineurl"), info));
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ds.setQualitymanagementkind(field(rs.getString("qualitymanagementkind"), info));
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ds.setPidsystems(field(rs.getString("pidsystems"), info));
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ds.setCertificates(field(rs.getString("certificates"), info));
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ds.setPolicies(new ArrayList<>()); // The sql query returns an empty array
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ds
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.setJournal(
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journal(
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rs.getString("officialname"), rs.getString("issnPrinted"), rs.getString("issnOnline"),
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rs.getString("issnLinking"), info)); // Journal
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ds.setDataInfo(info);
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ds.setLastupdatetimestamp(lastUpdateTimestamp);
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return Arrays.asList(ds);
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} catch (final Exception e) {
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throw new RuntimeException(e);
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}
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}
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public List<Oaf> processProject(final ResultSet rs) {
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try {
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final DataInfo info = prepareDataInfo(rs);
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final Project p = new Project();
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p.setId(createOpenaireId(40, rs.getString("projectid"), true));
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p.setOriginalId(Arrays.asList(rs.getString("projectid")));
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p
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.setCollectedfrom(
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listKeyValues(
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createOpenaireId(10, rs.getString("collectedfromid"), true),
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rs.getString("collectedfromname")));
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p.setPid(new ArrayList<>());
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p.setDateofcollection(asString(rs.getDate("dateofcollection")));
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p.setDateoftransformation(asString(rs.getDate("dateoftransformation")));
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p.setExtraInfo(new ArrayList<>()); // Values not present in the DB
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p.setOaiprovenance(null); // Values not present in the DB
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p.setWebsiteurl(field(rs.getString("websiteurl"), info));
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p.setCode(field(rs.getString("code"), info));
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p.setAcronym(field(rs.getString("acronym"), info));
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p.setTitle(field(rs.getString("title"), info));
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p.setStartdate(field(asString(rs.getDate("startdate")), info));
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p.setEnddate(field(asString(rs.getDate("enddate")), info));
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p.setCallidentifier(field(rs.getString("callidentifier"), info));
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p.setKeywords(field(rs.getString("keywords"), info));
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p.setDuration(field(Integer.toString(rs.getInt("duration")), info));
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p.setEcsc39(field(Boolean.toString(rs.getBoolean("ecsc39")), info));
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p
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.setOamandatepublications(field(Boolean.toString(rs.getBoolean("oamandatepublications")), info));
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p.setEcarticle29_3(field(Boolean.toString(rs.getBoolean("ecarticle29_3")), info));
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p.setSubjects(prepareListOfStructProps(rs.getArray("subjects"), info));
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p.setFundingtree(prepareListFields(rs.getArray("fundingtree"), info));
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p.setContracttype(prepareQualifierSplitting(rs.getString("contracttype")));
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p.setOptional1(field(rs.getString("optional1"), info));
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p.setOptional2(field(rs.getString("optional2"), info));
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p.setJsonextrainfo(field(rs.getString("jsonextrainfo"), info));
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p.setContactfullname(field(rs.getString("contactfullname"), info));
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p.setContactfax(field(rs.getString("contactfax"), info));
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p.setContactphone(field(rs.getString("contactphone"), info));
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p.setContactemail(field(rs.getString("contactemail"), info));
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p.setSummary(field(rs.getString("summary"), info));
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p.setCurrency(field(rs.getString("currency"), info));
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p.setTotalcost(new Float(rs.getDouble("totalcost")));
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p.setFundedamount(new Float(rs.getDouble("fundedamount")));
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p.setDataInfo(info);
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p.setLastupdatetimestamp(lastUpdateTimestamp);
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return Arrays.asList(p);
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} catch (final Exception e) {
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throw new RuntimeException(e);
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}
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}
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public List<Oaf> processOrganization(final ResultSet rs) {
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try {
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final DataInfo info = prepareDataInfo(rs);
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final Organization o = new Organization();
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o.setId(createOpenaireId(20, rs.getString("organizationid"), true));
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o.setOriginalId(Arrays.asList(rs.getString("organizationid")));
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o
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.setCollectedfrom(
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listKeyValues(
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createOpenaireId(10, rs.getString("collectedfromid"), true),
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rs.getString("collectedfromname")));
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o.setPid(prepareListOfStructProps(rs.getArray("pid"), info));
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o.setDateofcollection(asString(rs.getDate("dateofcollection")));
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o.setDateoftransformation(asString(rs.getDate("dateoftransformation")));
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o.setExtraInfo(new ArrayList<>()); // Values not present in the DB
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o.setOaiprovenance(null); // Values not present in the DB
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o.setLegalshortname(field(rs.getString("legalshortname"), info));
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o.setLegalname(field(rs.getString("legalname"), info));
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o.setAlternativeNames(new ArrayList<>()); // Values not returned by the SQL query
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o.setWebsiteurl(field(rs.getString("websiteurl"), info));
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o.setLogourl(field(rs.getString("logourl"), info));
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o.setEclegalbody(field(Boolean.toString(rs.getBoolean("eclegalbody")), info));
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o.setEclegalperson(field(Boolean.toString(rs.getBoolean("eclegalperson")), info));
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o.setEcnonprofit(field(Boolean.toString(rs.getBoolean("ecnonprofit")), info));
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o
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.setEcresearchorganization(field(Boolean.toString(rs.getBoolean("ecresearchorganization")), info));
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o.setEchighereducation(field(Boolean.toString(rs.getBoolean("echighereducation")), info));
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o
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.setEcinternationalorganizationeurinterests(
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field(Boolean.toString(rs.getBoolean("ecinternationalorganizationeurinterests")), info));
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o
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.setEcinternationalorganization(
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field(Boolean.toString(rs.getBoolean("ecinternationalorganization")), info));
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o.setEcenterprise(field(Boolean.toString(rs.getBoolean("ecenterprise")), info));
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o.setEcsmevalidated(field(Boolean.toString(rs.getBoolean("ecsmevalidated")), info));
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o.setEcnutscode(field(Boolean.toString(rs.getBoolean("ecnutscode")), info));
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o.setCountry(prepareQualifierSplitting(rs.getString("country")));
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o.setDataInfo(info);
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o.setLastupdatetimestamp(lastUpdateTimestamp);
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return Arrays.asList(o);
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} catch (final Exception e) {
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throw new RuntimeException(e);
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}
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}
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public List<Oaf> processDatasourceOrganization(final ResultSet rs) {
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try {
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final DataInfo info = prepareDataInfo(rs);
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final String orgId = createOpenaireId(20, rs.getString("organization"), true);
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final String dsId = createOpenaireId(10, rs.getString("datasource"), true);
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final List<KeyValue> collectedFrom = listKeyValues(
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createOpenaireId(10, rs.getString("collectedfromid"), true), rs.getString("collectedfromname"));
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final Relation r1 = new Relation();
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r1.setRelType(DATASOURCE_ORGANIZATION);
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r1.setSubRelType(PROVISION);
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r1.setRelClass(IS_PROVIDED_BY);
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r1.setSource(dsId);
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r1.setTarget(orgId);
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r1.setCollectedfrom(collectedFrom);
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r1.setDataInfo(info);
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r1.setLastupdatetimestamp(lastUpdateTimestamp);
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final Relation r2 = new Relation();
|
|
r2.setRelType(DATASOURCE_ORGANIZATION);
|
|
r2.setSubRelType(PROVISION);
|
|
r2.setRelClass(PROVIDES);
|
|
r2.setSource(orgId);
|
|
r2.setTarget(dsId);
|
|
r2.setCollectedfrom(collectedFrom);
|
|
r2.setDataInfo(info);
|
|
r2.setLastupdatetimestamp(lastUpdateTimestamp);
|
|
|
|
return Arrays.asList(r1, r2);
|
|
} catch (final Exception e) {
|
|
throw new RuntimeException(e);
|
|
}
|
|
}
|
|
|
|
public List<Oaf> processProjectOrganization(final ResultSet rs) {
|
|
try {
|
|
final DataInfo info = prepareDataInfo(rs);
|
|
final String orgId = createOpenaireId(20, rs.getString("resporganization"), true);
|
|
final String projectId = createOpenaireId(40, rs.getString("project"), true);
|
|
final List<KeyValue> collectedFrom = listKeyValues(
|
|
createOpenaireId(10, rs.getString("collectedfromid"), true), rs.getString("collectedfromname"));
|
|
|
|
final Relation r1 = new Relation();
|
|
r1.setRelType(PROJECT_ORGANIZATION);
|
|
r1.setSubRelType(PARTICIPATION);
|
|
r1.setRelClass(HAS_PARTICIPANT);
|
|
r1.setSource(projectId);
|
|
r1.setTarget(orgId);
|
|
r1.setCollectedfrom(collectedFrom);
|
|
r1.setDataInfo(info);
|
|
r1.setLastupdatetimestamp(lastUpdateTimestamp);
|
|
|
|
final Relation r2 = new Relation();
|
|
r2.setRelType(PROJECT_ORGANIZATION);
|
|
r2.setSubRelType(PARTICIPATION);
|
|
r2.setRelClass(IS_PARTICIPANT);
|
|
r2.setSource(orgId);
|
|
r2.setTarget(projectId);
|
|
r2.setCollectedfrom(collectedFrom);
|
|
r2.setDataInfo(info);
|
|
r2.setLastupdatetimestamp(lastUpdateTimestamp);
|
|
|
|
return Arrays.asList(r1, r2);
|
|
} catch (final Exception e) {
|
|
throw new RuntimeException(e);
|
|
}
|
|
}
|
|
|
|
public List<Oaf> processClaims(final ResultSet rs) {
|
|
|
|
final DataInfo info = dataInfo(
|
|
false, null, false, false,
|
|
qualifier(USER_CLAIM, USER_CLAIM, DNET_PROVENANCE_ACTIONS, DNET_PROVENANCE_ACTIONS), "0.9");
|
|
|
|
final List<KeyValue> collectedFrom = listKeyValues(
|
|
createOpenaireId(10, "infrastruct_::openaire", true), "OpenAIRE");
|
|
|
|
try {
|
|
if (rs.getString(SOURCE_TYPE).equals("context")) {
|
|
final Result r;
|
|
|
|
if (rs.getString(TARGET_TYPE).equals("dataset")) {
|
|
r = new Dataset();
|
|
r.setResulttype(DATASET_DEFAULT_RESULTTYPE);
|
|
} else if (rs.getString(TARGET_TYPE).equals("software")) {
|
|
r = new Software();
|
|
r.setResulttype(SOFTWARE_DEFAULT_RESULTTYPE);
|
|
} else if (rs.getString(TARGET_TYPE).equals("other")) {
|
|
r = new OtherResearchProduct();
|
|
r.setResulttype(ORP_DEFAULT_RESULTTYPE);
|
|
} else {
|
|
r = new Publication();
|
|
r.setResulttype(PUBLICATION_DEFAULT_RESULTTYPE);
|
|
}
|
|
r.setId(createOpenaireId(50, rs.getString("target_id"), false));
|
|
r.setLastupdatetimestamp(lastUpdateTimestamp);
|
|
r.setContext(prepareContext(rs.getString("source_id"), info));
|
|
r.setDataInfo(info);
|
|
r.setCollectedfrom(collectedFrom);
|
|
|
|
return Arrays.asList(r);
|
|
} else {
|
|
final String validationDate = rs.getString("curation_date");
|
|
|
|
final String sourceId = createOpenaireId(rs.getString(SOURCE_TYPE), rs.getString("source_id"), false);
|
|
final String targetId = createOpenaireId(rs.getString(TARGET_TYPE), rs.getString("target_id"), false);
|
|
|
|
final Relation r1 = new Relation();
|
|
final Relation r2 = new Relation();
|
|
|
|
r1.setValidated(true);
|
|
r1.setValidationDate(validationDate);
|
|
r1.setCollectedfrom(collectedFrom);
|
|
r1.setSource(sourceId);
|
|
r1.setTarget(targetId);
|
|
r1.setDataInfo(info);
|
|
r1.setLastupdatetimestamp(lastUpdateTimestamp);
|
|
|
|
r2.setValidationDate(validationDate);
|
|
r2.setValidated(true);
|
|
r2.setCollectedfrom(collectedFrom);
|
|
r2.setSource(targetId);
|
|
r2.setTarget(sourceId);
|
|
r2.setDataInfo(info);
|
|
r2.setLastupdatetimestamp(lastUpdateTimestamp);
|
|
|
|
if (rs.getString(SOURCE_TYPE).equals("project")) {
|
|
r1.setRelType(RESULT_PROJECT);
|
|
r1.setSubRelType(OUTCOME);
|
|
r1.setRelClass(PRODUCES);
|
|
|
|
r2.setRelType(RESULT_PROJECT);
|
|
r2.setSubRelType(OUTCOME);
|
|
r2.setRelClass(IS_PRODUCED_BY);
|
|
} else {
|
|
r1.setRelType(RESULT_RESULT);
|
|
r1.setSubRelType(RELATIONSHIP);
|
|
r1.setRelClass(IS_RELATED_TO);
|
|
|
|
r2.setRelType(RESULT_RESULT);
|
|
r2.setSubRelType(RELATIONSHIP);
|
|
r2.setRelClass(IS_RELATED_TO);
|
|
}
|
|
|
|
return Arrays.asList(r1, r2);
|
|
}
|
|
|
|
} catch (final Exception e) {
|
|
throw new RuntimeException(e);
|
|
}
|
|
}
|
|
|
|
private List<Context> prepareContext(final String id, final DataInfo dataInfo) {
|
|
final Context context = new Context();
|
|
context.setId(id);
|
|
context.setDataInfo(Arrays.asList(dataInfo));
|
|
return Arrays.asList(context);
|
|
}
|
|
|
|
private DataInfo prepareDataInfo(final ResultSet rs) throws SQLException {
|
|
final Boolean deletedbyinference = rs.getBoolean("deletedbyinference");
|
|
final String inferenceprovenance = rs.getString("inferenceprovenance");
|
|
final Boolean inferred = rs.getBoolean("inferred");
|
|
|
|
final double trust = rs.getDouble("trust");
|
|
|
|
return dataInfo(
|
|
deletedbyinference, inferenceprovenance, inferred, false, ENTITYREGISTRY_PROVENANCE_ACTION,
|
|
String.format("%.3f", trust));
|
|
}
|
|
|
|
private Qualifier prepareQualifierSplitting(final String s) {
|
|
if (StringUtils.isBlank(s)) {
|
|
return null;
|
|
}
|
|
final String[] arr = s.split("@@@");
|
|
return arr.length == 2 ? vocs.getTermAsQualifier(arr[1], arr[0]) : null;
|
|
}
|
|
|
|
private List<Field<String>> prepareListFields(final Array array, final DataInfo info) {
|
|
try {
|
|
return array != null ? listFields(info, (String[]) array.getArray()) : new ArrayList<>();
|
|
} catch (final SQLException e) {
|
|
throw new RuntimeException("Invalid SQL array", e);
|
|
}
|
|
}
|
|
|
|
private StructuredProperty prepareStructProp(final String s, final DataInfo dataInfo) {
|
|
if (StringUtils.isBlank(s)) {
|
|
return null;
|
|
}
|
|
final String[] parts = s.split("###");
|
|
if (parts.length == 2) {
|
|
final String value = parts[0];
|
|
final String[] arr = parts[1].split("@@@");
|
|
if (arr.length == 2) {
|
|
return structuredProperty(value, vocs.getTermAsQualifier(arr[1], arr[0]), dataInfo);
|
|
}
|
|
}
|
|
return null;
|
|
}
|
|
|
|
private List<StructuredProperty> prepareListOfStructProps(
|
|
final Array array,
|
|
final DataInfo dataInfo) throws SQLException {
|
|
final List<StructuredProperty> res = new ArrayList<>();
|
|
if (array != null) {
|
|
for (final String s : (String[]) array.getArray()) {
|
|
final StructuredProperty sp = prepareStructProp(s, dataInfo);
|
|
if (sp != null) {
|
|
res.add(sp);
|
|
}
|
|
}
|
|
}
|
|
|
|
return res;
|
|
}
|
|
|
|
@Override
|
|
public void close() throws IOException {
|
|
super.close();
|
|
dbClient.close();
|
|
}
|
|
|
|
}
|