forked from D-Net/dnet-hadoop
191 lines
7.4 KiB
Java
191 lines
7.4 KiB
Java
|
|
package eu.dnetlib.dhp.broker.oa;
|
|
|
|
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
|
|
|
|
import java.util.Optional;
|
|
|
|
import org.apache.commons.io.IOUtils;
|
|
import org.apache.spark.SparkConf;
|
|
import org.apache.spark.api.java.function.MapFunction;
|
|
import org.apache.spark.sql.Dataset;
|
|
import org.apache.spark.sql.Encoders;
|
|
import org.apache.spark.sql.SaveMode;
|
|
import org.apache.spark.sql.SparkSession;
|
|
import org.apache.spark.sql.TypedColumn;
|
|
import org.slf4j.Logger;
|
|
import org.slf4j.LoggerFactory;
|
|
|
|
import com.fasterxml.jackson.databind.ObjectMapper;
|
|
|
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
|
import eu.dnetlib.dhp.broker.model.Event;
|
|
import eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
|
import eu.dnetlib.dhp.broker.oa.util.ClusterUtils;
|
|
import eu.dnetlib.dhp.broker.oa.util.ConversionUtils;
|
|
import eu.dnetlib.dhp.broker.oa.util.EventFinder;
|
|
import eu.dnetlib.dhp.broker.oa.util.EventGroup;
|
|
import eu.dnetlib.dhp.broker.oa.util.aggregators.simple.ResultAggregator;
|
|
import eu.dnetlib.dhp.broker.oa.util.aggregators.simple.ResultGroup;
|
|
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.OaBrokerMainEntityAggregator;
|
|
import eu.dnetlib.dhp.schema.oaf.Publication;
|
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
|
import eu.dnetlib.dhp.schema.oaf.Result;
|
|
import eu.dnetlib.dhp.utils.ISLookupClientFactory;
|
|
import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpService;
|
|
import eu.dnetlib.pace.config.DedupConfig;
|
|
import scala.Tuple2;
|
|
|
|
public class GenerateEventsApplication {
|
|
|
|
private static final Logger log = LoggerFactory.getLogger(GenerateEventsApplication.class);
|
|
|
|
public static void main(final String[] args) throws Exception {
|
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
|
IOUtils
|
|
.toString(
|
|
GenerateEventsApplication.class
|
|
.getResourceAsStream("/eu/dnetlib/dhp/broker/oa/generate_broker_events.json")));
|
|
parser.parseArgument(args);
|
|
|
|
final Boolean isSparkSessionManaged = Optional
|
|
.ofNullable(parser.get("isSparkSessionManaged"))
|
|
.map(Boolean::valueOf)
|
|
.orElse(Boolean.TRUE);
|
|
log.info("isSparkSessionManaged: {}", isSparkSessionManaged);
|
|
|
|
final String graphPath = parser.get("graphPath");
|
|
log.info("graphPath: {}", graphPath);
|
|
|
|
final String eventsPath = parser.get("eventsPath");
|
|
log.info("eventsPath: {}", eventsPath);
|
|
|
|
final String isLookupUrl = parser.get("isLookupUrl");
|
|
log.info("isLookupUrl: {}", isLookupUrl);
|
|
|
|
final String dedupConfigProfileId = parser.get("dedupConfProfile");
|
|
log.info("dedupConfigProfileId: {}", dedupConfigProfileId);
|
|
|
|
final SparkConf conf = new SparkConf();
|
|
// conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer");
|
|
// conf.registerKryoClasses(BrokerConstants.getModelClasses());
|
|
|
|
// TODO UNCOMMENT
|
|
// final DedupConfig dedupConfig = loadDedupConfig(isLookupUrl, dedupConfigProfileId);
|
|
final DedupConfig dedupConfig = null;
|
|
|
|
runWithSparkSession(conf, isSparkSessionManaged, spark -> {
|
|
|
|
ClusterUtils.removeDir(spark, eventsPath);
|
|
|
|
// TODO REMOVE THIS
|
|
|
|
expandResultsWithRelations(spark, graphPath, Publication.class)
|
|
.write()
|
|
.mode(SaveMode.Overwrite)
|
|
.json(eventsPath);
|
|
|
|
// TODO UNCOMMENT THIS
|
|
// spark
|
|
// .emptyDataset(Encoders.bean(Event.class))
|
|
// .union(generateEvents(spark, graphPath, Publication.class, dedupConfig))
|
|
// .union(generateEvents(spark, graphPath, eu.dnetlib.dhp.schema.oaf.Dataset.class, dedupConfig))
|
|
// .union(generateEvents(spark, graphPath, Software.class, dedupConfig))
|
|
// .union(generateEvents(spark, graphPath, OtherResearchProduct.class, dedupConfig))
|
|
// .write()
|
|
// .mode(SaveMode.Overwrite)
|
|
// .option("compression", "gzip")
|
|
// .json(eventsPath);
|
|
});
|
|
|
|
}
|
|
|
|
private static <SRC extends Result> Dataset<Event> generateEvents(
|
|
final SparkSession spark,
|
|
final String graphPath,
|
|
final Class<SRC> sourceClass,
|
|
final DedupConfig dedupConfig) {
|
|
|
|
final Dataset<OaBrokerMainEntity> results = expandResultsWithRelations(spark, graphPath, sourceClass);
|
|
|
|
final Dataset<Relation> mergedRels = ClusterUtils
|
|
.readPath(spark, graphPath + "/relation", Relation.class)
|
|
.filter(r -> r.getRelClass().equals(BrokerConstants.IS_MERGED_IN_CLASS));
|
|
|
|
final TypedColumn<Tuple2<OaBrokerMainEntity, Relation>, ResultGroup> aggr = new ResultAggregator()
|
|
.toColumn();
|
|
|
|
return results
|
|
.joinWith(mergedRels, results.col("openaireId").equalTo(mergedRels.col("source")), "inner")
|
|
.groupByKey(
|
|
(MapFunction<Tuple2<OaBrokerMainEntity, Relation>, String>) t -> t._2.getTarget(), Encoders.STRING())
|
|
.agg(aggr)
|
|
.map((MapFunction<Tuple2<String, ResultGroup>, ResultGroup>) t -> t._2, Encoders.bean(ResultGroup.class))
|
|
.filter(rg -> rg.getData().size() > 1)
|
|
.map(
|
|
(MapFunction<ResultGroup, EventGroup>) g -> EventFinder.generateEvents(g, dedupConfig),
|
|
Encoders.bean(EventGroup.class))
|
|
.flatMap(group -> group.getData().iterator(), Encoders.bean(Event.class));
|
|
}
|
|
|
|
private static <SRC extends Result> Dataset<OaBrokerMainEntity> expandResultsWithRelations(
|
|
final SparkSession spark,
|
|
final String graphPath,
|
|
final Class<SRC> sourceClass) {
|
|
|
|
// final Dataset<eu.dnetlib.dhp.schema.oaf.Dataset> datasets = readPath(
|
|
// spark, graphPath + "/dataset", eu.dnetlib.dhp.schema.oaf.Dataset.class);
|
|
// final Dataset<Software> softwares = readPath(spark, graphPath + "/software", Software.class);
|
|
// final Dataset<Publication> publications = readPath(spark, graphPath + "/publication", Publication.class);
|
|
|
|
final Dataset<OaBrokerMainEntity> r0 = ClusterUtils
|
|
.readPath(spark, graphPath + "/" + sourceClass.getSimpleName().toLowerCase(), sourceClass)
|
|
.filter(r -> r.getDataInfo().getDeletedbyinference())
|
|
.map(ConversionUtils::oafResultToBrokerResult, Encoders.bean(OaBrokerMainEntity.class));
|
|
|
|
// TODO UNCOMMENT THIS
|
|
// final Dataset<OaBrokerMainEntity> r1 = join(r0, relatedProjects(spark, graphPath));
|
|
// final Dataset<OaBrokerMainEntity> r2 = join(r1, relatedDataset(spark, graphPath));
|
|
// final Dataset<OaBrokerMainEntity> r3 = join(r2, relatedPublications(spark, graphPath));
|
|
// final Dataset<OaBrokerMainEntity> r4 = join(r3, relatedSoftwares(spark, graphPath));
|
|
|
|
return r0; // TODO it should be r4
|
|
}
|
|
|
|
private static <T> Dataset<OaBrokerMainEntity> join(final Dataset<OaBrokerMainEntity> sources,
|
|
final Dataset<T> typedRels) {
|
|
|
|
final TypedColumn<Tuple2<OaBrokerMainEntity, T>, OaBrokerMainEntity> aggr = new OaBrokerMainEntityAggregator<T>()
|
|
.toColumn();
|
|
|
|
return sources
|
|
.joinWith(typedRels, sources.col("openaireId").equalTo(typedRels.col("source")), "left_outer")
|
|
.groupByKey(
|
|
(MapFunction<Tuple2<OaBrokerMainEntity, T>, String>) t -> t._1.getOpenaireId(), Encoders.STRING())
|
|
.agg(aggr)
|
|
.map(t -> t._2, Encoders.bean(OaBrokerMainEntity.class));
|
|
|
|
}
|
|
|
|
private static DedupConfig loadDedupConfig(final String isLookupUrl, final String profId) throws Exception {
|
|
|
|
final ISLookUpService isLookUpService = ISLookupClientFactory.getLookUpService(isLookupUrl);
|
|
|
|
final String conf = isLookUpService
|
|
.getResourceProfileByQuery(
|
|
String
|
|
.format(
|
|
"for $x in /RESOURCE_PROFILE[.//RESOURCE_IDENTIFIER/@value = '%s'] return $x//DEDUPLICATION/text()",
|
|
profId));
|
|
|
|
final DedupConfig dedupConfig = new ObjectMapper().readValue(conf, DedupConfig.class);
|
|
dedupConfig.getPace().initModel();
|
|
dedupConfig.getPace().initTranslationMap();
|
|
// dedupConfig.getWf().setConfigurationId("???");
|
|
|
|
return dedupConfig;
|
|
}
|
|
|
|
}
|