forked from D-Net/dnet-hadoop
formatting
This commit is contained in:
parent
a5d7007005
commit
c43b4c8962
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@ -1,3 +1,4 @@
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package eu.dnetlib.dhp.oa.graph.raw;
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package eu.dnetlib.dhp.oa.graph.raw;
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import static eu.dnetlib.dhp.oa.graph.raw.common.OafMapperUtils.asString;
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import static eu.dnetlib.dhp.oa.graph.raw.common.OafMapperUtils.asString;
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@ -10,6 +11,23 @@ import static eu.dnetlib.dhp.oa.graph.raw.common.OafMapperUtils.listKeyValues;
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import static eu.dnetlib.dhp.oa.graph.raw.common.OafMapperUtils.qualifier;
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import static eu.dnetlib.dhp.oa.graph.raw.common.OafMapperUtils.qualifier;
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import static eu.dnetlib.dhp.oa.graph.raw.common.OafMapperUtils.structuredProperty;
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import static eu.dnetlib.dhp.oa.graph.raw.common.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.function.Consumer;
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import java.util.function.Function;
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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.apache.commons.logging.Log;
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import org.apache.commons.logging.LogFactory;
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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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.AbstractMigrationApplication;
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import eu.dnetlib.dhp.oa.graph.raw.common.DbClient;
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import eu.dnetlib.dhp.oa.graph.raw.common.DbClient;
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@ -31,512 +49,459 @@ 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.Result;
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import eu.dnetlib.dhp.schema.oaf.Software;
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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.schema.oaf.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.function.Consumer;
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import java.util.function.Function;
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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.apache.commons.logging.Log;
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import org.apache.commons.logging.LogFactory;
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public class MigrateDbEntitiesApplication extends AbstractMigrationApplication
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public class MigrateDbEntitiesApplication extends AbstractMigrationApplication
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implements Closeable {
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implements Closeable {
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private static final Log log = LogFactory.getLog(MigrateDbEntitiesApplication.class);
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private static final Log log = LogFactory.getLog(MigrateDbEntitiesApplication.class);
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private final DbClient dbClient;
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private final DbClient dbClient;
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private final long lastUpdateTimestamp;
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private final long lastUpdateTimestamp;
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public static void main(final String[] args) throws Exception {
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public static void main(final String[] args) throws Exception {
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final ArgumentApplicationParser parser =
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final ArgumentApplicationParser parser = new ArgumentApplicationParser(
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new ArgumentApplicationParser(
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IOUtils
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IOUtils.toString(
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.toString(MigrateDbEntitiesApplication.class
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MigrateDbEntitiesApplication.class.getResourceAsStream(
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.getResourceAsStream("/eu/dnetlib/dhp/oa/graph/migrate_db_entities_parameters.json")));
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"/eu/dnetlib/dhp/oa/graph/migrate_db_entities_parameters.json")));
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parser.parseArgument(args);
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parser.parseArgument(args);
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final String dbUrl = parser.get("postgresUrl");
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final String dbUrl = parser.get("postgresUrl");
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final String dbUser = parser.get("postgresUser");
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final String dbUser = parser.get("postgresUser");
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final String dbPassword = parser.get("postgresPassword");
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final String dbPassword = parser.get("postgresPassword");
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final String hdfsPath = parser.get("hdfsPath");
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final String hdfsPath = parser.get("hdfsPath");
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final boolean processClaims = parser.get("action") != null && parser.get("action").equalsIgnoreCase("claims");
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final boolean processClaims =
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parser.get("action") != null && parser.get("action").equalsIgnoreCase("claims");
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try (final MigrateDbEntitiesApplication smdbe = new MigrateDbEntitiesApplication(hdfsPath, dbUrl, dbUser,
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dbPassword)) {
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try (final MigrateDbEntitiesApplication smdbe =
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if (processClaims) {
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new MigrateDbEntitiesApplication(hdfsPath, dbUrl, dbUser, dbPassword)) {
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log.info("Processing claims...");
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if (processClaims) {
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smdbe.execute("queryClaims.sql", smdbe::processClaims);
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log.info("Processing claims...");
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} else {
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smdbe.execute("queryClaims.sql", smdbe::processClaims);
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log.info("Processing datasources...");
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} else {
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smdbe.execute("queryDatasources.sql", smdbe::processDatasource);
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log.info("Processing datasources...");
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smdbe.execute("queryDatasources.sql", smdbe::processDatasource);
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log.info("Processing projects...");
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smdbe.execute("queryProjects.sql", smdbe::processProject);
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log.info("Processing projects...");
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smdbe.execute("queryProjects.sql", smdbe::processProject);
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log.info("Processing orgs...");
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smdbe.execute("queryOrganizations.sql", smdbe::processOrganization);
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log.info("Processing orgs...");
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smdbe.execute("queryOrganizations.sql", smdbe::processOrganization);
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log.info("Processing relations ds <-> orgs ...");
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smdbe.execute("queryDatasourceOrganization.sql", smdbe::processDatasourceOrganization);
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log.info("Processing relations ds <-> orgs ...");
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smdbe.execute("queryDatasourceOrganization.sql", smdbe::processDatasourceOrganization);
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log.info("Processing projects <-> orgs ...");
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smdbe.execute("queryProjectOrganization.sql", smdbe::processProjectOrganization);
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log.info("Processing projects <-> orgs ...");
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}
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smdbe.execute("queryProjectOrganization.sql", smdbe::processProjectOrganization);
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log.info("All done.");
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}
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}
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log.info("All done.");
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}
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}
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}
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protected MigrateDbEntitiesApplication() { // ONLY FOR UNIT TEST
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super();
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protected MigrateDbEntitiesApplication() { // ONLY FOR UNIT TEST
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this.dbClient = null;
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super();
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this.lastUpdateTimestamp = new Date().getTime();
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this.dbClient = null;
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}
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this.lastUpdateTimestamp = new Date().getTime();
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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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public MigrateDbEntitiesApplication(
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throws Exception {
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final String hdfsPath, final String dbUrl, final String dbUser, final String dbPassword)
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super(hdfsPath);
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throws Exception {
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this.dbClient = new DbClient(dbUrl, dbUser, dbPassword);
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super(hdfsPath);
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this.lastUpdateTimestamp = new Date().getTime();
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this.dbClient = new DbClient(dbUrl, dbUser, dbPassword);
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}
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this.lastUpdateTimestamp = new Date().getTime();
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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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public void execute(final String sqlFile, final Function<ResultSet, List<Oaf>> producer)
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final String sql = IOUtils.toString(getClass().getResourceAsStream("/eu/dnetlib/dhp/oa/graph/sql/" + sqlFile));
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throws Exception {
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final String sql =
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final Consumer<ResultSet> consumer = rs -> producer.apply(rs).forEach(oaf -> emitOaf(oaf));
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IOUtils.toString(getClass().getResourceAsStream("/eu/dnetlib/dhp/oa/graph/sql/" + sqlFile));
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dbClient.processResults(sql, consumer);
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final Consumer<ResultSet> consumer = rs -> producer.apply(rs).forEach(oaf -> emitOaf(oaf));
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}
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dbClient.processResults(sql, consumer);
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public List<Oaf> processDatasource(final ResultSet rs) {
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}
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try {
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public List<Oaf> processDatasource(final ResultSet rs) {
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final DataInfo info = prepareDataInfo(rs);
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try {
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final Datasource ds = new Datasource();
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final DataInfo info = prepareDataInfo(rs);
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ds.setId(createOpenaireId(10, rs.getString("datasourceid"), true));
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final Datasource ds = new Datasource();
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ds.setOriginalId(Arrays.asList(rs.getString("datasourceid")));
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ds
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ds.setId(createOpenaireId(10, rs.getString("datasourceid"), true));
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.setCollectedfrom(listKeyValues(createOpenaireId(10, rs.getString("collectedfromid"), true), rs.getString("collectedfromname")));
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ds.setOriginalId(Arrays.asList(rs.getString("datasourceid")));
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ds.setPid(new ArrayList<>());
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ds.setCollectedfrom(
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ds.setDateofcollection(asString(rs.getDate("dateofcollection")));
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listKeyValues(
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ds.setDateoftransformation(null); // Value not returned by the SQL query
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createOpenaireId(10, rs.getString("collectedfromid"), true),
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ds.setExtraInfo(new ArrayList<>()); // Values not present in the DB
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rs.getString("collectedfromname")));
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ds.setOaiprovenance(null); // Values not present in the DB
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ds.setPid(new ArrayList<>());
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ds.setDatasourcetype(prepareQualifierSplitting(rs.getString("datasourcetype")));
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ds.setDateofcollection(asString(rs.getDate("dateofcollection")));
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ds.setOpenairecompatibility(prepareQualifierSplitting(rs.getString("openairecompatibility")));
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ds.setDateoftransformation(null); // Value not returned by the SQL query
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ds.setOfficialname(field(rs.getString("officialname"), info));
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ds.setExtraInfo(new ArrayList<>()); // Values not present in the DB
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ds.setEnglishname(field(rs.getString("englishname"), info));
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ds.setOaiprovenance(null); // Values not present in the DB
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ds.setWebsiteurl(field(rs.getString("websiteurl"), info));
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ds.setDatasourcetype(prepareQualifierSplitting(rs.getString("datasourcetype")));
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ds.setLogourl(field(rs.getString("logourl"), info));
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ds.setOpenairecompatibility(prepareQualifierSplitting(rs.getString("openairecompatibility")));
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ds.setContactemail(field(rs.getString("contactemail"), info));
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ds.setOfficialname(field(rs.getString("officialname"), info));
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ds.setNamespaceprefix(field(rs.getString("namespaceprefix"), info));
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ds.setEnglishname(field(rs.getString("englishname"), info));
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ds.setLatitude(field(Double.toString(rs.getDouble("latitude")), info));
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ds.setWebsiteurl(field(rs.getString("websiteurl"), info));
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ds.setLongitude(field(Double.toString(rs.getDouble("longitude")), info));
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ds.setLogourl(field(rs.getString("logourl"), info));
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ds.setDateofvalidation(field(asString(rs.getDate("dateofvalidation")), info));
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ds.setContactemail(field(rs.getString("contactemail"), info));
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ds.setDescription(field(rs.getString("description"), info));
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ds.setNamespaceprefix(field(rs.getString("namespaceprefix"), info));
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ds.setSubjects(prepareListOfStructProps(rs.getArray("subjects"), info));
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ds.setLatitude(field(Double.toString(rs.getDouble("latitude")), info));
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ds.setOdnumberofitems(field(Double.toString(rs.getInt("odnumberofitems")), info));
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ds.setLongitude(field(Double.toString(rs.getDouble("longitude")), info));
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ds.setOdnumberofitemsdate(field(asString(rs.getDate("odnumberofitemsdate")), info));
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ds.setDateofvalidation(field(asString(rs.getDate("dateofvalidation")), info));
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ds.setOdpolicies(field(rs.getString("odpolicies"), info));
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ds.setDescription(field(rs.getString("description"), info));
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ds.setOdlanguages(prepareListFields(rs.getArray("odlanguages"), info));
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ds.setSubjects(prepareListOfStructProps(rs.getArray("subjects"), info));
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ds.setOdcontenttypes(prepareListFields(rs.getArray("odcontenttypes"), info));
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ds.setOdnumberofitems(field(Double.toString(rs.getInt("odnumberofitems")), info));
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ds.setAccessinfopackage(prepareListFields(rs.getArray("accessinfopackage"), info));
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ds.setOdnumberofitemsdate(field(asString(rs.getDate("odnumberofitemsdate")), info));
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ds.setReleasestartdate(field(asString(rs.getDate("releasestartdate")), info));
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ds.setOdpolicies(field(rs.getString("odpolicies"), info));
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ds.setReleaseenddate(field(asString(rs.getDate("releaseenddate")), info));
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ds.setOdlanguages(prepareListFields(rs.getArray("odlanguages"), info));
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ds.setMissionstatementurl(field(rs.getString("missionstatementurl"), info));
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ds.setOdcontenttypes(prepareListFields(rs.getArray("odcontenttypes"), info));
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ds.setDataprovider(field(rs.getBoolean("dataprovider"), info));
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ds.setAccessinfopackage(prepareListFields(rs.getArray("accessinfopackage"), info));
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ds.setServiceprovider(field(rs.getBoolean("serviceprovider"), info));
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ds.setReleasestartdate(field(asString(rs.getDate("releasestartdate")), info));
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ds.setDatabaseaccesstype(field(rs.getString("databaseaccesstype"), info));
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ds.setReleaseenddate(field(asString(rs.getDate("releaseenddate")), info));
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ds.setDatauploadtype(field(rs.getString("datauploadtype"), info));
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ds.setMissionstatementurl(field(rs.getString("missionstatementurl"), info));
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ds.setDatabaseaccessrestriction(field(rs.getString("databaseaccessrestriction"), info));
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ds.setDataprovider(field(rs.getBoolean("dataprovider"), info));
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ds.setDatauploadrestriction(field(rs.getString("datauploadrestriction"), info));
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ds.setServiceprovider(field(rs.getBoolean("serviceprovider"), info));
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ds.setVersioning(field(rs.getBoolean("versioning"), info));
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ds.setDatabaseaccesstype(field(rs.getString("databaseaccesstype"), info));
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ds.setCitationguidelineurl(field(rs.getString("citationguidelineurl"), info));
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ds.setDatauploadtype(field(rs.getString("datauploadtype"), info));
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ds.setQualitymanagementkind(field(rs.getString("qualitymanagementkind"), info));
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ds.setDatabaseaccessrestriction(field(rs.getString("databaseaccessrestriction"), info));
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ds.setPidsystems(field(rs.getString("pidsystems"), info));
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ds.setDatauploadrestriction(field(rs.getString("datauploadrestriction"), info));
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ds.setCertificates(field(rs.getString("certificates"), info));
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ds.setVersioning(field(rs.getBoolean("versioning"), info));
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ds.setPolicies(new ArrayList<>()); // The sql query returns an empty array
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ds.setCitationguidelineurl(field(rs.getString("citationguidelineurl"), info));
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ds
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ds.setQualitymanagementkind(field(rs.getString("qualitymanagementkind"), info));
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.setJournal(prepareJournal(rs.getString("officialname"), rs.getString("journal"), info)); // Journal
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ds.setPidsystems(field(rs.getString("pidsystems"), info));
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ds.setDataInfo(info);
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ds.setCertificates(field(rs.getString("certificates"), info));
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ds.setLastupdatetimestamp(lastUpdateTimestamp);
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ds.setPolicies(new ArrayList<>()); // The sql query returns an empty array
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ds.setJournal(
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return Arrays.asList(ds);
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prepareJournal(rs.getString("officialname"), rs.getString("journal"), info)); // Journal
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} catch (final Exception e) {
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ds.setDataInfo(info);
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throw new RuntimeException(e);
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ds.setLastupdatetimestamp(lastUpdateTimestamp);
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}
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}
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return Arrays.asList(ds);
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} catch (final Exception e) {
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public List<Oaf> processProject(final ResultSet rs) {
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throw new RuntimeException(e);
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try {
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}
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}
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final DataInfo info = prepareDataInfo(rs);
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public List<Oaf> processProject(final ResultSet rs) {
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final Project p = new Project();
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try {
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p.setId(createOpenaireId(40, rs.getString("projectid"), true));
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final DataInfo info = prepareDataInfo(rs);
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p.setOriginalId(Arrays.asList(rs.getString("projectid")));
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p
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final Project p = new Project();
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.setCollectedfrom(listKeyValues(createOpenaireId(10, rs.getString("collectedfromid"), true), rs.getString("collectedfromname")));
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p.setPid(new ArrayList<>());
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p.setId(createOpenaireId(40, rs.getString("projectid"), true));
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p.setDateofcollection(asString(rs.getDate("dateofcollection")));
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p.setOriginalId(Arrays.asList(rs.getString("projectid")));
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p.setDateoftransformation(asString(rs.getDate("dateoftransformation")));
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p.setCollectedfrom(
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p.setExtraInfo(new ArrayList<>()); // Values not present in the DB
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listKeyValues(
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p.setOaiprovenance(null); // Values not present in the DB
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createOpenaireId(10, rs.getString("collectedfromid"), true),
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p.setWebsiteurl(field(rs.getString("websiteurl"), info));
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rs.getString("collectedfromname")));
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p.setCode(field(rs.getString("code"), info));
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p.setPid(new ArrayList<>());
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p.setAcronym(field(rs.getString("acronym"), info));
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p.setDateofcollection(asString(rs.getDate("dateofcollection")));
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p.setTitle(field(rs.getString("title"), info));
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p.setDateoftransformation(asString(rs.getDate("dateoftransformation")));
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p.setStartdate(field(asString(rs.getDate("startdate")), info));
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p.setExtraInfo(new ArrayList<>()); // Values not present in the DB
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p.setEnddate(field(asString(rs.getDate("enddate")), info));
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p.setOaiprovenance(null); // Values not present in the DB
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p.setCallidentifier(field(rs.getString("callidentifier"), info));
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p.setWebsiteurl(field(rs.getString("websiteurl"), info));
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p.setKeywords(field(rs.getString("keywords"), info));
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p.setCode(field(rs.getString("code"), info));
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p.setDuration(field(Integer.toString(rs.getInt("duration")), info));
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p.setAcronym(field(rs.getString("acronym"), info));
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p.setEcsc39(field(Boolean.toString(rs.getBoolean("ecsc39")), info));
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p.setTitle(field(rs.getString("title"), info));
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p
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p.setStartdate(field(asString(rs.getDate("startdate")), info));
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.setOamandatepublications(field(Boolean.toString(rs.getBoolean("oamandatepublications")), info));
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p.setEnddate(field(asString(rs.getDate("enddate")), info));
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p.setEcarticle29_3(field(Boolean.toString(rs.getBoolean("ecarticle29_3")), info));
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p.setCallidentifier(field(rs.getString("callidentifier"), info));
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p.setSubjects(prepareListOfStructProps(rs.getArray("subjects"), info));
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p.setKeywords(field(rs.getString("keywords"), info));
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p.setFundingtree(prepareListFields(rs.getArray("fundingtree"), info));
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p.setDuration(field(Integer.toString(rs.getInt("duration")), info));
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p.setContracttype(prepareQualifierSplitting(rs.getString("contracttype")));
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p.setEcsc39(field(Boolean.toString(rs.getBoolean("ecsc39")), info));
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p.setOptional1(field(rs.getString("optional1"), info));
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p.setOamandatepublications(
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p.setOptional2(field(rs.getString("optional2"), info));
|
||||||
field(Boolean.toString(rs.getBoolean("oamandatepublications")), info));
|
p.setJsonextrainfo(field(rs.getString("jsonextrainfo"), info));
|
||||||
p.setEcarticle29_3(field(Boolean.toString(rs.getBoolean("ecarticle29_3")), info));
|
p.setContactfullname(field(rs.getString("contactfullname"), info));
|
||||||
p.setSubjects(prepareListOfStructProps(rs.getArray("subjects"), info));
|
p.setContactfax(field(rs.getString("contactfax"), info));
|
||||||
p.setFundingtree(prepareListFields(rs.getArray("fundingtree"), info));
|
p.setContactphone(field(rs.getString("contactphone"), info));
|
||||||
p.setContracttype(prepareQualifierSplitting(rs.getString("contracttype")));
|
p.setContactemail(field(rs.getString("contactemail"), info));
|
||||||
p.setOptional1(field(rs.getString("optional1"), info));
|
p.setSummary(field(rs.getString("summary"), info));
|
||||||
p.setOptional2(field(rs.getString("optional2"), info));
|
p.setCurrency(field(rs.getString("currency"), info));
|
||||||
p.setJsonextrainfo(field(rs.getString("jsonextrainfo"), info));
|
p.setTotalcost(new Float(rs.getDouble("totalcost")));
|
||||||
p.setContactfullname(field(rs.getString("contactfullname"), info));
|
p.setFundedamount(new Float(rs.getDouble("fundedamount")));
|
||||||
p.setContactfax(field(rs.getString("contactfax"), info));
|
p.setDataInfo(info);
|
||||||
p.setContactphone(field(rs.getString("contactphone"), info));
|
p.setLastupdatetimestamp(lastUpdateTimestamp);
|
||||||
p.setContactemail(field(rs.getString("contactemail"), info));
|
|
||||||
p.setSummary(field(rs.getString("summary"), info));
|
return Arrays.asList(p);
|
||||||
p.setCurrency(field(rs.getString("currency"), info));
|
|
||||||
p.setTotalcost(new Float(rs.getDouble("totalcost")));
|
} catch (final Exception e) {
|
||||||
p.setFundedamount(new Float(rs.getDouble("fundedamount")));
|
throw new RuntimeException(e);
|
||||||
p.setDataInfo(info);
|
}
|
||||||
p.setLastupdatetimestamp(lastUpdateTimestamp);
|
}
|
||||||
|
|
||||||
return Arrays.asList(p);
|
public List<Oaf> processOrganization(final ResultSet rs) {
|
||||||
|
|
||||||
} catch (final Exception e) {
|
try {
|
||||||
throw new RuntimeException(e);
|
|
||||||
}
|
final DataInfo info = prepareDataInfo(rs);
|
||||||
}
|
|
||||||
|
final Organization o = new Organization();
|
||||||
public List<Oaf> processOrganization(final ResultSet rs) {
|
|
||||||
|
o.setId(createOpenaireId(20, rs.getString("organizationid"), true));
|
||||||
try {
|
o.setOriginalId(Arrays.asList(rs.getString("organizationid")));
|
||||||
|
o
|
||||||
final DataInfo info = prepareDataInfo(rs);
|
.setCollectedfrom(listKeyValues(createOpenaireId(10, rs.getString("collectedfromid"), true), rs.getString("collectedfromname")));
|
||||||
|
o.setPid(new ArrayList<>());
|
||||||
final Organization o = new Organization();
|
o.setDateofcollection(asString(rs.getDate("dateofcollection")));
|
||||||
|
o.setDateoftransformation(asString(rs.getDate("dateoftransformation")));
|
||||||
o.setId(createOpenaireId(20, rs.getString("organizationid"), true));
|
o.setExtraInfo(new ArrayList<>()); // Values not present in the DB
|
||||||
o.setOriginalId(Arrays.asList(rs.getString("organizationid")));
|
o.setOaiprovenance(null); // Values not present in the DB
|
||||||
o.setCollectedfrom(
|
o.setLegalshortname(field(rs.getString("legalshortname"), info));
|
||||||
listKeyValues(
|
o.setLegalname(field(rs.getString("legalname"), info));
|
||||||
createOpenaireId(10, rs.getString("collectedfromid"), true),
|
o.setAlternativeNames(new ArrayList<>()); // Values not returned by the SQL query
|
||||||
rs.getString("collectedfromname")));
|
o.setWebsiteurl(field(rs.getString("websiteurl"), info));
|
||||||
o.setPid(new ArrayList<>());
|
o.setLogourl(field(rs.getString("logourl"), info));
|
||||||
o.setDateofcollection(asString(rs.getDate("dateofcollection")));
|
o.setEclegalbody(field(Boolean.toString(rs.getBoolean("eclegalbody")), info));
|
||||||
o.setDateoftransformation(asString(rs.getDate("dateoftransformation")));
|
o.setEclegalperson(field(Boolean.toString(rs.getBoolean("eclegalperson")), info));
|
||||||
o.setExtraInfo(new ArrayList<>()); // Values not present in the DB
|
o.setEcnonprofit(field(Boolean.toString(rs.getBoolean("ecnonprofit")), info));
|
||||||
o.setOaiprovenance(null); // Values not present in the DB
|
o
|
||||||
o.setLegalshortname(field(rs.getString("legalshortname"), info));
|
.setEcresearchorganization(field(Boolean.toString(rs.getBoolean("ecresearchorganization")), info));
|
||||||
o.setLegalname(field(rs.getString("legalname"), info));
|
o.setEchighereducation(field(Boolean.toString(rs.getBoolean("echighereducation")), info));
|
||||||
o.setAlternativeNames(new ArrayList<>()); // Values not returned by the SQL query
|
o
|
||||||
o.setWebsiteurl(field(rs.getString("websiteurl"), info));
|
.setEcinternationalorganizationeurinterests(field(Boolean.toString(rs.getBoolean("ecinternationalorganizationeurinterests")), info));
|
||||||
o.setLogourl(field(rs.getString("logourl"), info));
|
o
|
||||||
o.setEclegalbody(field(Boolean.toString(rs.getBoolean("eclegalbody")), info));
|
.setEcinternationalorganization(field(Boolean.toString(rs.getBoolean("ecinternationalorganization")), info));
|
||||||
o.setEclegalperson(field(Boolean.toString(rs.getBoolean("eclegalperson")), info));
|
o.setEcenterprise(field(Boolean.toString(rs.getBoolean("ecenterprise")), info));
|
||||||
o.setEcnonprofit(field(Boolean.toString(rs.getBoolean("ecnonprofit")), info));
|
o.setEcsmevalidated(field(Boolean.toString(rs.getBoolean("ecsmevalidated")), info));
|
||||||
o.setEcresearchorganization(
|
o.setEcnutscode(field(Boolean.toString(rs.getBoolean("ecnutscode")), info));
|
||||||
field(Boolean.toString(rs.getBoolean("ecresearchorganization")), info));
|
o.setCountry(prepareQualifierSplitting(rs.getString("country")));
|
||||||
o.setEchighereducation(field(Boolean.toString(rs.getBoolean("echighereducation")), info));
|
o.setDataInfo(info);
|
||||||
o.setEcinternationalorganizationeurinterests(
|
o.setLastupdatetimestamp(lastUpdateTimestamp);
|
||||||
field(Boolean.toString(rs.getBoolean("ecinternationalorganizationeurinterests")), info));
|
|
||||||
o.setEcinternationalorganization(
|
return Arrays.asList(o);
|
||||||
field(Boolean.toString(rs.getBoolean("ecinternationalorganization")), info));
|
} catch (final Exception e) {
|
||||||
o.setEcenterprise(field(Boolean.toString(rs.getBoolean("ecenterprise")), info));
|
throw new RuntimeException(e);
|
||||||
o.setEcsmevalidated(field(Boolean.toString(rs.getBoolean("ecsmevalidated")), info));
|
}
|
||||||
o.setEcnutscode(field(Boolean.toString(rs.getBoolean("ecnutscode")), info));
|
}
|
||||||
o.setCountry(prepareQualifierSplitting(rs.getString("country")));
|
|
||||||
o.setDataInfo(info);
|
public List<Oaf> processDatasourceOrganization(final ResultSet rs) {
|
||||||
o.setLastupdatetimestamp(lastUpdateTimestamp);
|
try {
|
||||||
|
final DataInfo info = prepareDataInfo(rs);
|
||||||
return Arrays.asList(o);
|
final String orgId = createOpenaireId(20, rs.getString("organization"), true);
|
||||||
} catch (final Exception e) {
|
final String dsId = createOpenaireId(10, rs.getString("datasource"), true);
|
||||||
throw new RuntimeException(e);
|
final List<KeyValue> collectedFrom = listKeyValues(createOpenaireId(10, rs.getString("collectedfromid"), true), rs.getString("collectedfromname"));
|
||||||
}
|
|
||||||
}
|
final Relation r1 = new Relation();
|
||||||
|
r1.setRelType("datasourceOrganization");
|
||||||
public List<Oaf> processDatasourceOrganization(final ResultSet rs) {
|
r1.setSubRelType("provision");
|
||||||
try {
|
r1.setRelClass("isProvidedBy");
|
||||||
final DataInfo info = prepareDataInfo(rs);
|
r1.setSource(dsId);
|
||||||
final String orgId = createOpenaireId(20, rs.getString("organization"), true);
|
r1.setTarget(orgId);
|
||||||
final String dsId = createOpenaireId(10, rs.getString("datasource"), true);
|
r1.setCollectedfrom(collectedFrom);
|
||||||
final List<KeyValue> collectedFrom =
|
r1.setDataInfo(info);
|
||||||
listKeyValues(
|
r1.setLastupdatetimestamp(lastUpdateTimestamp);
|
||||||
createOpenaireId(10, rs.getString("collectedfromid"), true),
|
|
||||||
rs.getString("collectedfromname"));
|
final Relation r2 = new Relation();
|
||||||
|
r2.setRelType("datasourceOrganization");
|
||||||
final Relation r1 = new Relation();
|
r2.setSubRelType("provision");
|
||||||
r1.setRelType("datasourceOrganization");
|
r2.setRelClass("provides");
|
||||||
r1.setSubRelType("provision");
|
r2.setSource(orgId);
|
||||||
r1.setRelClass("isProvidedBy");
|
r2.setTarget(dsId);
|
||||||
r1.setSource(dsId);
|
r2.setCollectedfrom(collectedFrom);
|
||||||
r1.setTarget(orgId);
|
r2.setDataInfo(info);
|
||||||
r1.setCollectedfrom(collectedFrom);
|
r2.setLastupdatetimestamp(lastUpdateTimestamp);
|
||||||
r1.setDataInfo(info);
|
|
||||||
r1.setLastupdatetimestamp(lastUpdateTimestamp);
|
return Arrays.asList(r1, r2);
|
||||||
|
} catch (final Exception e) {
|
||||||
final Relation r2 = new Relation();
|
throw new RuntimeException(e);
|
||||||
r2.setRelType("datasourceOrganization");
|
}
|
||||||
r2.setSubRelType("provision");
|
}
|
||||||
r2.setRelClass("provides");
|
|
||||||
r2.setSource(orgId);
|
public List<Oaf> processProjectOrganization(final ResultSet rs) {
|
||||||
r2.setTarget(dsId);
|
try {
|
||||||
r2.setCollectedfrom(collectedFrom);
|
final DataInfo info = prepareDataInfo(rs);
|
||||||
r2.setDataInfo(info);
|
final String orgId = createOpenaireId(20, rs.getString("resporganization"), true);
|
||||||
r2.setLastupdatetimestamp(lastUpdateTimestamp);
|
final String projectId = createOpenaireId(40, rs.getString("project"), true);
|
||||||
|
final List<KeyValue> collectedFrom = listKeyValues(createOpenaireId(10, rs.getString("collectedfromid"), true), rs.getString("collectedfromname"));
|
||||||
return Arrays.asList(r1, r2);
|
|
||||||
} catch (final Exception e) {
|
final Relation r1 = new Relation();
|
||||||
throw new RuntimeException(e);
|
r1.setRelType("projectOrganization");
|
||||||
}
|
r1.setSubRelType("participation");
|
||||||
}
|
r1.setRelClass("hasParticipant");
|
||||||
|
r1.setSource(projectId);
|
||||||
public List<Oaf> processProjectOrganization(final ResultSet rs) {
|
r1.setTarget(orgId);
|
||||||
try {
|
r1.setCollectedfrom(collectedFrom);
|
||||||
final DataInfo info = prepareDataInfo(rs);
|
r1.setDataInfo(info);
|
||||||
final String orgId = createOpenaireId(20, rs.getString("resporganization"), true);
|
r1.setLastupdatetimestamp(lastUpdateTimestamp);
|
||||||
final String projectId = createOpenaireId(40, rs.getString("project"), true);
|
|
||||||
final List<KeyValue> collectedFrom =
|
final Relation r2 = new Relation();
|
||||||
listKeyValues(
|
r2.setRelType("projectOrganization");
|
||||||
createOpenaireId(10, rs.getString("collectedfromid"), true),
|
r2.setSubRelType("participation");
|
||||||
rs.getString("collectedfromname"));
|
r2.setRelClass("isParticipant");
|
||||||
|
r2.setSource(orgId);
|
||||||
final Relation r1 = new Relation();
|
r2.setTarget(projectId);
|
||||||
r1.setRelType("projectOrganization");
|
r2.setCollectedfrom(collectedFrom);
|
||||||
r1.setSubRelType("participation");
|
r2.setDataInfo(info);
|
||||||
r1.setRelClass("hasParticipant");
|
r2.setLastupdatetimestamp(lastUpdateTimestamp);
|
||||||
r1.setSource(projectId);
|
|
||||||
r1.setTarget(orgId);
|
return Arrays.asList(r1, r2);
|
||||||
r1.setCollectedfrom(collectedFrom);
|
} catch (final Exception e) {
|
||||||
r1.setDataInfo(info);
|
throw new RuntimeException(e);
|
||||||
r1.setLastupdatetimestamp(lastUpdateTimestamp);
|
}
|
||||||
|
}
|
||||||
final Relation r2 = new Relation();
|
|
||||||
r2.setRelType("projectOrganization");
|
public List<Oaf> processClaims(final ResultSet rs) {
|
||||||
r2.setSubRelType("participation");
|
|
||||||
r2.setRelClass("isParticipant");
|
final DataInfo info =
|
||||||
r2.setSource(orgId);
|
dataInfo(false, null, false, false, qualifier("user:claim", "user:claim", "dnet:provenanceActions", "dnet:provenanceActions"), "0.9");
|
||||||
r2.setTarget(projectId);
|
|
||||||
r2.setCollectedfrom(collectedFrom);
|
final List<KeyValue> collectedFrom = listKeyValues(createOpenaireId(10, "infrastruct_::openaire", true), "OpenAIRE");
|
||||||
r2.setDataInfo(info);
|
|
||||||
r2.setLastupdatetimestamp(lastUpdateTimestamp);
|
try {
|
||||||
|
|
||||||
return Arrays.asList(r1, r2);
|
if (rs.getString("source_type").equals("context")) {
|
||||||
} catch (final Exception e) {
|
final Result r;
|
||||||
throw new RuntimeException(e);
|
|
||||||
}
|
if (rs.getString("target_type").equals("dataset")) {
|
||||||
}
|
r = new Dataset();
|
||||||
|
r.setResulttype(MigrationConstants.DATASET_RESULTTYPE_QUALIFIER);
|
||||||
public List<Oaf> processClaims(final ResultSet rs) {
|
} else if (rs.getString("target_type").equals("software")) {
|
||||||
|
r = new Software();
|
||||||
final DataInfo info =
|
r.setResulttype(MigrationConstants.SOFTWARE_RESULTTYPE_QUALIFIER);
|
||||||
dataInfo(
|
} else if (rs.getString("target_type").equals("other")) {
|
||||||
false,
|
r = new OtherResearchProduct();
|
||||||
null,
|
r.setResulttype(MigrationConstants.OTHER_RESULTTYPE_QUALIFIER);
|
||||||
false,
|
} else {
|
||||||
false,
|
r = new Publication();
|
||||||
qualifier(
|
r.setResulttype(MigrationConstants.PUBLICATION_RESULTTYPE_QUALIFIER);
|
||||||
"user:claim", "user:claim", "dnet:provenanceActions", "dnet:provenanceActions"),
|
}
|
||||||
"0.9");
|
r.setId(createOpenaireId(50, rs.getString("target_id"), false));
|
||||||
|
r.setLastupdatetimestamp(lastUpdateTimestamp);
|
||||||
final List<KeyValue> collectedFrom =
|
r.setContext(prepareContext(rs.getString("source_id"), info));
|
||||||
listKeyValues(createOpenaireId(10, "infrastruct_::openaire", true), "OpenAIRE");
|
r.setDataInfo(info);
|
||||||
|
r.setCollectedfrom(collectedFrom);
|
||||||
try {
|
|
||||||
|
return Arrays.asList(r);
|
||||||
if (rs.getString("source_type").equals("context")) {
|
} else {
|
||||||
final Result r;
|
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);
|
||||||
if (rs.getString("target_type").equals("dataset")) {
|
|
||||||
r = new Dataset();
|
final Relation r1 = new Relation();
|
||||||
r.setResulttype(MigrationConstants.DATASET_RESULTTYPE_QUALIFIER);
|
final Relation r2 = new Relation();
|
||||||
} else if (rs.getString("target_type").equals("software")) {
|
|
||||||
r = new Software();
|
if (rs.getString("source_type").equals("project")) {
|
||||||
r.setResulttype(MigrationConstants.SOFTWARE_RESULTTYPE_QUALIFIER);
|
r1.setCollectedfrom(collectedFrom);
|
||||||
} else if (rs.getString("target_type").equals("other")) {
|
r1.setRelType("resultProject");
|
||||||
r = new OtherResearchProduct();
|
r1.setSubRelType("outcome");
|
||||||
r.setResulttype(MigrationConstants.OTHER_RESULTTYPE_QUALIFIER);
|
r1.setRelClass("produces");
|
||||||
} else {
|
|
||||||
r = new Publication();
|
r2.setCollectedfrom(collectedFrom);
|
||||||
r.setResulttype(MigrationConstants.PUBLICATION_RESULTTYPE_QUALIFIER);
|
r2.setRelType("resultProject");
|
||||||
}
|
r2.setSubRelType("outcome");
|
||||||
r.setId(createOpenaireId(50, rs.getString("target_id"), false));
|
r2.setRelClass("isProducedBy");
|
||||||
r.setLastupdatetimestamp(lastUpdateTimestamp);
|
} else {
|
||||||
r.setContext(prepareContext(rs.getString("source_id"), info));
|
r1.setCollectedfrom(collectedFrom);
|
||||||
r.setDataInfo(info);
|
r1.setRelType("resultResult");
|
||||||
r.setCollectedfrom(collectedFrom);
|
r1.setSubRelType("relationship");
|
||||||
|
r1.setRelClass("isRelatedTo");
|
||||||
return Arrays.asList(r);
|
|
||||||
} else {
|
r2.setCollectedfrom(collectedFrom);
|
||||||
final String sourceId =
|
r2.setRelType("resultResult");
|
||||||
createOpenaireId(rs.getString("source_type"), rs.getString("source_id"), false);
|
r2.setSubRelType("relationship");
|
||||||
final String targetId =
|
r2.setRelClass("isRelatedTo");
|
||||||
createOpenaireId(rs.getString("target_type"), rs.getString("target_id"), false);
|
}
|
||||||
|
|
||||||
final Relation r1 = new Relation();
|
r1.setSource(sourceId);
|
||||||
final Relation r2 = new Relation();
|
r1.setTarget(targetId);
|
||||||
|
r1.setDataInfo(info);
|
||||||
if (rs.getString("source_type").equals("project")) {
|
r1.setLastupdatetimestamp(lastUpdateTimestamp);
|
||||||
r1.setCollectedfrom(collectedFrom);
|
|
||||||
r1.setRelType("resultProject");
|
r2.setSource(targetId);
|
||||||
r1.setSubRelType("outcome");
|
r2.setTarget(sourceId);
|
||||||
r1.setRelClass("produces");
|
r2.setDataInfo(info);
|
||||||
|
r2.setLastupdatetimestamp(lastUpdateTimestamp);
|
||||||
r2.setCollectedfrom(collectedFrom);
|
|
||||||
r2.setRelType("resultProject");
|
return Arrays.asList(r1, r2);
|
||||||
r2.setSubRelType("outcome");
|
}
|
||||||
r2.setRelClass("isProducedBy");
|
|
||||||
} else {
|
} catch (final Exception e) {
|
||||||
r1.setCollectedfrom(collectedFrom);
|
throw new RuntimeException(e);
|
||||||
r1.setRelType("resultResult");
|
}
|
||||||
r1.setSubRelType("relationship");
|
}
|
||||||
r1.setRelClass("isRelatedTo");
|
|
||||||
|
private List<Context> prepareContext(final String id, final DataInfo dataInfo) {
|
||||||
r2.setCollectedfrom(collectedFrom);
|
final Context context = new Context();
|
||||||
r2.setRelType("resultResult");
|
context.setId(id);
|
||||||
r2.setSubRelType("relationship");
|
context.setDataInfo(Arrays.asList(dataInfo));
|
||||||
r2.setRelClass("isRelatedTo");
|
return Arrays.asList(context);
|
||||||
}
|
}
|
||||||
|
|
||||||
r1.setSource(sourceId);
|
private DataInfo prepareDataInfo(final ResultSet rs) throws SQLException {
|
||||||
r1.setTarget(targetId);
|
final Boolean deletedbyinference = rs.getBoolean("deletedbyinference");
|
||||||
r1.setDataInfo(info);
|
final String inferenceprovenance = rs.getString("inferenceprovenance");
|
||||||
r1.setLastupdatetimestamp(lastUpdateTimestamp);
|
final Boolean inferred = rs.getBoolean("inferred");
|
||||||
|
final String trust = rs.getString("trust");
|
||||||
r2.setSource(targetId);
|
return dataInfo(deletedbyinference, inferenceprovenance, inferred, false, MigrationConstants.ENTITYREGISTRY_PROVENANCE_ACTION, trust);
|
||||||
r2.setTarget(sourceId);
|
}
|
||||||
r2.setDataInfo(info);
|
|
||||||
r2.setLastupdatetimestamp(lastUpdateTimestamp);
|
private Qualifier prepareQualifierSplitting(final String s) {
|
||||||
|
if (StringUtils.isBlank(s)) { return null; }
|
||||||
return Arrays.asList(r1, r2);
|
final String[] arr = s.split("@@@");
|
||||||
}
|
return arr.length == 4 ? qualifier(arr[0], arr[1], arr[2], arr[3]) : null;
|
||||||
|
}
|
||||||
} catch (final Exception e) {
|
|
||||||
throw new RuntimeException(e);
|
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) {
|
||||||
private List<Context> prepareContext(final String id, final DataInfo dataInfo) {
|
throw new RuntimeException("Invalid SQL array", e);
|
||||||
final Context context = new Context();
|
}
|
||||||
context.setId(id);
|
}
|
||||||
context.setDataInfo(Arrays.asList(dataInfo));
|
|
||||||
return Arrays.asList(context);
|
private StructuredProperty prepareStructProp(final String s, final DataInfo dataInfo) {
|
||||||
}
|
if (StringUtils.isBlank(s)) { return null; }
|
||||||
|
final String[] parts = s.split("###");
|
||||||
private DataInfo prepareDataInfo(final ResultSet rs) throws SQLException {
|
if (parts.length == 2) {
|
||||||
final Boolean deletedbyinference = rs.getBoolean("deletedbyinference");
|
final String value = parts[0];
|
||||||
final String inferenceprovenance = rs.getString("inferenceprovenance");
|
final String[] arr = parts[1].split("@@@");
|
||||||
final Boolean inferred = rs.getBoolean("inferred");
|
if (arr.length == 4) { return structuredProperty(value, arr[0], arr[1], arr[2], arr[3], dataInfo); }
|
||||||
final String trust = rs.getString("trust");
|
}
|
||||||
return dataInfo(
|
return null;
|
||||||
deletedbyinference,
|
}
|
||||||
inferenceprovenance,
|
|
||||||
inferred,
|
private List<StructuredProperty> prepareListOfStructProps(
|
||||||
false,
|
final Array array,
|
||||||
MigrationConstants.ENTITYREGISTRY_PROVENANCE_ACTION,
|
final DataInfo dataInfo) throws SQLException {
|
||||||
trust);
|
final List<StructuredProperty> res = new ArrayList<>();
|
||||||
}
|
if (array != null) {
|
||||||
|
for (final String s : (String[]) array.getArray()) {
|
||||||
private Qualifier prepareQualifierSplitting(final String s) {
|
final StructuredProperty sp = prepareStructProp(s, dataInfo);
|
||||||
if (StringUtils.isBlank(s)) {
|
if (sp != null) {
|
||||||
return null;
|
res.add(sp);
|
||||||
}
|
}
|
||||||
final String[] arr = s.split("@@@");
|
}
|
||||||
return arr.length == 4 ? qualifier(arr[0], arr[1], arr[2], arr[3]) : null;
|
}
|
||||||
}
|
|
||||||
|
return res;
|
||||||
private List<Field<String>> prepareListFields(final Array array, final DataInfo info) {
|
}
|
||||||
try {
|
|
||||||
return array != null ? listFields(info, (String[]) array.getArray()) : new ArrayList<>();
|
private Journal prepareJournal(final String name, final String sj, final DataInfo info) {
|
||||||
} catch (final SQLException e) {
|
if (StringUtils.isNotBlank(sj)) {
|
||||||
throw new RuntimeException("Invalid SQL array", e);
|
final String[] arr = sj.split("@@@");
|
||||||
}
|
if (arr.length == 3) {
|
||||||
}
|
final String issn = StringUtils.isNotBlank(arr[0]) ? arr[0] : null;
|
||||||
|
final String eissn = StringUtils.isNotBlank(arr[1]) ? arr[1] : null;;
|
||||||
private StructuredProperty prepareStructProp(final String s, final DataInfo dataInfo) {
|
final String lissn = StringUtils.isNotBlank(arr[2]) ? arr[2] : null;;
|
||||||
if (StringUtils.isBlank(s)) {
|
if (issn != null || eissn != null || lissn != null) {
|
||||||
return null;
|
return journal(name, issn, eissn, eissn, null, null, null, null, null, null, null, info);
|
||||||
}
|
}
|
||||||
final String[] parts = s.split("###");
|
}
|
||||||
if (parts.length == 2) {
|
}
|
||||||
final String value = parts[0];
|
return null;
|
||||||
final String[] arr = parts[1].split("@@@");
|
}
|
||||||
if (arr.length == 4) {
|
|
||||||
return structuredProperty(value, arr[0], arr[1], arr[2], arr[3], dataInfo);
|
@Override
|
||||||
}
|
public void close() throws IOException {
|
||||||
}
|
super.close();
|
||||||
return null;
|
dbClient.close();
|
||||||
}
|
}
|
||||||
|
|
||||||
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;
|
|
||||||
}
|
|
||||||
|
|
||||||
private Journal prepareJournal(final String name, final String sj, final DataInfo info) {
|
|
||||||
if (StringUtils.isNotBlank(sj)) {
|
|
||||||
final String[] arr = sj.split("@@@");
|
|
||||||
if (arr.length == 3) {
|
|
||||||
final String issn = StringUtils.isNotBlank(arr[0]) ? arr[0] : null;
|
|
||||||
final String eissn = StringUtils.isNotBlank(arr[1]) ? arr[1] : null;
|
|
||||||
;
|
|
||||||
final String lissn = StringUtils.isNotBlank(arr[2]) ? arr[2] : null;
|
|
||||||
;
|
|
||||||
if (issn != null || eissn != null || lissn != null) {
|
|
||||||
return journal(name, issn, eissn, eissn, null, null, null, null, null, null, null, info);
|
|
||||||
}
|
|
||||||
}
|
|
||||||
}
|
|
||||||
return null;
|
|
||||||
}
|
|
||||||
|
|
||||||
@Override
|
|
||||||
public void close() throws IOException {
|
|
||||||
super.close();
|
|
||||||
dbClient.close();
|
|
||||||
}
|
|
||||||
}
|
}
|
||||||
|
|
|
||||||
|
|
@ -3,10 +3,10 @@
|
||||||
<parent>
|
<parent>
|
||||||
<artifactId>dhp-workflows</artifactId>
|
<artifactId>dhp-workflows</artifactId>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<version>1.1.6-SNAPSHOT</version>
|
<version>1.1.7-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
<modelVersion>4.0.0</modelVersion>
|
<modelVersion>4.0.0</modelVersion>
|
||||||
<artifactId>dhp-statistics-workflow</artifactId>
|
<artifactId>dhp-stats-update</artifactId>
|
||||||
<dependencies>
|
<dependencies>
|
||||||
<dependency>
|
<dependency>
|
||||||
<groupId>org.apache.spark</groupId>
|
<groupId>org.apache.spark</groupId>
|
||||||
|
|
|
||||||
Loading…
Reference in New Issue