forked from D-Net/dnet-hadoop
Merge branch 'master' of code-repo.d4science.org:D-Net/dnet-hadoop
This commit is contained in:
commit
96689a8994
|
@ -6,7 +6,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<artifactId>dhp-build</artifactId>
|
<artifactId>dhp-build</artifactId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
|
|
||||||
<artifactId>dhp-build-assembly-resources</artifactId>
|
<artifactId>dhp-build-assembly-resources</artifactId>
|
||||||
|
|
|
@ -6,7 +6,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<artifactId>dhp-build</artifactId>
|
<artifactId>dhp-build</artifactId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
|
|
||||||
<artifactId>dhp-build-properties-maven-plugin</artifactId>
|
<artifactId>dhp-build-properties-maven-plugin</artifactId>
|
||||||
|
|
|
@ -5,7 +5,7 @@
|
||||||
|
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<artifactId>dhp-code-style</artifactId>
|
<artifactId>dhp-code-style</artifactId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
|
|
||||||
<packaging>jar</packaging>
|
<packaging>jar</packaging>
|
||||||
|
|
||||||
|
|
|
@ -4,7 +4,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<artifactId>dhp</artifactId>
|
<artifactId>dhp</artifactId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
<artifactId>dhp-build</artifactId>
|
<artifactId>dhp-build</artifactId>
|
||||||
<packaging>pom</packaging>
|
<packaging>pom</packaging>
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||||||
|
|
|
@ -5,7 +5,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<artifactId>dhp</artifactId>
|
<artifactId>dhp</artifactId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
<relativePath>../</relativePath>
|
<relativePath>../</relativePath>
|
||||||
</parent>
|
</parent>
|
||||||
|
|
||||||
|
|
|
@ -5,7 +5,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<artifactId>dhp</artifactId>
|
<artifactId>dhp</artifactId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
<relativePath>../</relativePath>
|
<relativePath>../</relativePath>
|
||||||
</parent>
|
</parent>
|
||||||
|
|
||||||
|
|
|
@ -1,6 +1,10 @@
|
||||||
|
|
||||||
package eu.dnetlib.dhp.schema.common;
|
package eu.dnetlib.dhp.schema.common;
|
||||||
|
|
||||||
|
import java.security.Key;
|
||||||
|
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.DataInfo;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.KeyValue;
|
||||||
import eu.dnetlib.dhp.schema.oaf.Qualifier;
|
import eu.dnetlib.dhp.schema.oaf.Qualifier;
|
||||||
|
|
||||||
public class ModelConstants {
|
public class ModelConstants {
|
||||||
|
@ -95,6 +99,9 @@ public class ModelConstants {
|
||||||
SYSIMPORT_CROSSWALK_ENTITYREGISTRY, SYSIMPORT_CROSSWALK_ENTITYREGISTRY,
|
SYSIMPORT_CROSSWALK_ENTITYREGISTRY, SYSIMPORT_CROSSWALK_ENTITYREGISTRY,
|
||||||
DNET_PROVENANCE_ACTIONS, DNET_PROVENANCE_ACTIONS);
|
DNET_PROVENANCE_ACTIONS, DNET_PROVENANCE_ACTIONS);
|
||||||
|
|
||||||
|
public static final KeyValue UNKNOWN_REPOSITORY = keyValue(
|
||||||
|
"10|openaire____::55045bd2a65019fd8e6741a755395c8c", "Unknown Repository");
|
||||||
|
|
||||||
private static Qualifier qualifier(
|
private static Qualifier qualifier(
|
||||||
final String classid,
|
final String classid,
|
||||||
final String classname,
|
final String classname,
|
||||||
|
@ -107,4 +114,12 @@ public class ModelConstants {
|
||||||
q.setSchemename(schemename);
|
q.setSchemename(schemename);
|
||||||
return q;
|
return q;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
private static KeyValue keyValue(String key, String value) {
|
||||||
|
KeyValue kv = new KeyValue();
|
||||||
|
kv.setKey(key);
|
||||||
|
kv.setValue(value);
|
||||||
|
kv.setDataInfo(new DataInfo());
|
||||||
|
return kv;
|
||||||
|
}
|
||||||
}
|
}
|
||||||
|
|
|
@ -4,7 +4,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<artifactId>dhp-workflows</artifactId>
|
<artifactId>dhp-workflows</artifactId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
<artifactId>dhp-actionmanager</artifactId>
|
<artifactId>dhp-actionmanager</artifactId>
|
||||||
|
|
||||||
|
|
|
@ -4,6 +4,7 @@ package eu.dnetlib.dhp.actionmanager.promote;
|
||||||
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
|
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
|
||||||
import static eu.dnetlib.dhp.schema.common.ModelSupport.isSubClass;
|
import static eu.dnetlib.dhp.schema.common.ModelSupport.isSubClass;
|
||||||
|
|
||||||
|
import java.io.IOException;
|
||||||
import java.util.Objects;
|
import java.util.Objects;
|
||||||
import java.util.Optional;
|
import java.util.Optional;
|
||||||
import java.util.function.BiFunction;
|
import java.util.function.BiFunction;
|
||||||
|
@ -20,6 +21,7 @@ import org.slf4j.Logger;
|
||||||
import org.slf4j.LoggerFactory;
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
import com.fasterxml.jackson.databind.ObjectMapper;
|
import com.fasterxml.jackson.databind.ObjectMapper;
|
||||||
|
import com.fasterxml.jackson.databind.exc.UnrecognizedPropertyException;
|
||||||
|
|
||||||
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
||||||
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.SerializableSupplier;
|
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport.SerializableSupplier;
|
||||||
|
@ -134,24 +136,39 @@ public class PromoteActionPayloadForGraphTableJob {
|
||||||
.map(
|
.map(
|
||||||
(MapFunction<String, G>) value -> OBJECT_MAPPER.readValue(value, rowClazz),
|
(MapFunction<String, G>) value -> OBJECT_MAPPER.readValue(value, rowClazz),
|
||||||
Encoders.bean(rowClazz));
|
Encoders.bean(rowClazz));
|
||||||
|
|
||||||
/*
|
|
||||||
* return spark .read() .parquet(path) .as(Encoders.bean(rowClazz));
|
|
||||||
*/
|
|
||||||
}
|
}
|
||||||
|
|
||||||
private static <A extends Oaf> Dataset<A> readActionPayload(
|
private static <A extends Oaf> Dataset<A> readActionPayload(
|
||||||
SparkSession spark, String path, Class<A> actionPayloadClazz) {
|
SparkSession spark, String path, Class<A> actionPayloadClazz) {
|
||||||
logger.info("Reading action payload from path: {}", path);
|
logger.info("Reading action payload from path: {}", path);
|
||||||
|
|
||||||
return spark
|
return spark
|
||||||
.read()
|
.read()
|
||||||
.parquet(path)
|
.parquet(path)
|
||||||
|
.map((MapFunction<Row, String>) value -> extractPayload(value), Encoders.STRING())
|
||||||
.map(
|
.map(
|
||||||
(MapFunction<Row, A>) value -> OBJECT_MAPPER
|
(MapFunction<String, A>) value -> decodePayload(actionPayloadClazz, value),
|
||||||
.readValue(value.<String> getAs("payload"), actionPayloadClazz),
|
|
||||||
Encoders.bean(actionPayloadClazz));
|
Encoders.bean(actionPayloadClazz));
|
||||||
}
|
}
|
||||||
|
|
||||||
|
private static String extractPayload(Row value) {
|
||||||
|
try {
|
||||||
|
return value.<String> getAs("payload");
|
||||||
|
} catch (IllegalArgumentException | ClassCastException e) {
|
||||||
|
logger.error("cannot extract payload from action: {}", value.toString());
|
||||||
|
throw e;
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
|
private static <A extends Oaf> A decodePayload(Class<A> actionPayloadClazz, String payload) throws IOException {
|
||||||
|
try {
|
||||||
|
return OBJECT_MAPPER.readValue(payload, actionPayloadClazz);
|
||||||
|
} catch (UnrecognizedPropertyException e) {
|
||||||
|
logger.error("error decoding payload: {}", payload);
|
||||||
|
throw e;
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
private static <G extends Oaf, A extends Oaf> Dataset<G> promoteActionPayloadForGraphTable(
|
private static <G extends Oaf, A extends Oaf> Dataset<G> promoteActionPayloadForGraphTable(
|
||||||
Dataset<G> rowDS,
|
Dataset<G> rowDS,
|
||||||
Dataset<A> actionPayloadDS,
|
Dataset<A> actionPayloadDS,
|
||||||
|
|
|
@ -4,7 +4,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<artifactId>dhp-workflows</artifactId>
|
<artifactId>dhp-workflows</artifactId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
<artifactId>dhp-aggregation</artifactId>
|
<artifactId>dhp-aggregation</artifactId>
|
||||||
|
|
||||||
|
|
|
@ -3,7 +3,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<artifactId>dhp-workflows</artifactId>
|
<artifactId>dhp-workflows</artifactId>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
<modelVersion>4.0.0</modelVersion>
|
<modelVersion>4.0.0</modelVersion>
|
||||||
|
|
||||||
|
|
|
@ -3,7 +3,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<artifactId>dhp-workflows</artifactId>
|
<artifactId>dhp-workflows</artifactId>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
<modelVersion>4.0.0</modelVersion>
|
<modelVersion>4.0.0</modelVersion>
|
||||||
|
|
||||||
|
@ -53,7 +53,7 @@
|
||||||
<dependency>
|
<dependency>
|
||||||
<groupId>eu.dnetlib</groupId>
|
<groupId>eu.dnetlib</groupId>
|
||||||
<artifactId>dnet-openaire-broker-common</artifactId>
|
<artifactId>dnet-openaire-broker-common</artifactId>
|
||||||
<version>[3.0.2,4.0.0)</version>
|
<version>[3.0.3,4.0.0)</version>
|
||||||
</dependency>
|
</dependency>
|
||||||
|
|
||||||
</dependencies>
|
</dependencies>
|
||||||
|
|
|
@ -11,7 +11,7 @@ import org.apache.commons.codec.digest.DigestUtils;
|
||||||
import org.apache.commons.lang3.StringUtils;
|
import org.apache.commons.lang3.StringUtils;
|
||||||
import org.apache.commons.lang3.time.DateUtils;
|
import org.apache.commons.lang3.time.DateUtils;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.dhp.broker.oa.util.UpdateInfo;
|
import eu.dnetlib.dhp.broker.oa.util.UpdateInfo;
|
||||||
|
|
||||||
public class EventFactory {
|
public class EventFactory {
|
||||||
|
@ -49,8 +49,8 @@ public class EventFactory {
|
||||||
private static Map<String, Object> createMapFromResult(final UpdateInfo<?> updateInfo) {
|
private static Map<String, Object> createMapFromResult(final UpdateInfo<?> updateInfo) {
|
||||||
final Map<String, Object> map = new HashMap<>();
|
final Map<String, Object> map = new HashMap<>();
|
||||||
|
|
||||||
final OpenaireBrokerResult source = updateInfo.getSource();
|
final OaBrokerMainEntity source = updateInfo.getSource();
|
||||||
final OpenaireBrokerResult target = updateInfo.getTarget();
|
final OaBrokerMainEntity target = updateInfo.getTarget();
|
||||||
|
|
||||||
map.put("target_datasource_id", target.getCollectedFromId());
|
map.put("target_datasource_id", target.getCollectedFromId());
|
||||||
map.put("target_datasource_name", target.getCollectedFromName());
|
map.put("target_datasource_name", target.getCollectedFromName());
|
||||||
|
|
|
@ -1,229 +0,0 @@
|
||||||
|
|
||||||
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.OpenaireBrokerResult;
|
|
||||||
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.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.OpenaireBrokerResultAggregator;
|
|
||||||
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedEntityFactory;
|
|
||||||
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedProject;
|
|
||||||
import eu.dnetlib.dhp.common.HdfsSupport;
|
|
||||||
import eu.dnetlib.dhp.schema.oaf.Project;
|
|
||||||
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);
|
|
||||||
|
|
||||||
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
|
|
||||||
|
|
||||||
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 -> {
|
|
||||||
|
|
||||||
removeOutputDir(spark, eventsPath);
|
|
||||||
|
|
||||||
// TODO REMOVE THIS
|
|
||||||
final Dataset<Project> projects = readPath(spark, graphPath + "/project", Project.class);
|
|
||||||
final Dataset<Relation> rels = readPath(spark, graphPath + "/relation", Relation.class)
|
|
||||||
.filter(r -> !r.getRelClass().equals(BrokerConstants.IS_MERGED_IN_CLASS))
|
|
||||||
.cache();
|
|
||||||
relatedEntities(projects, rels, RelatedProject.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 void removeOutputDir(final SparkSession spark, final String path) {
|
|
||||||
HdfsSupport.remove(path, spark.sparkContext().hadoopConfiguration());
|
|
||||||
}
|
|
||||||
|
|
||||||
private static <SRC extends Result> Dataset<Event> generateEvents(
|
|
||||||
final SparkSession spark,
|
|
||||||
final String graphPath,
|
|
||||||
final Class<SRC> sourceClass,
|
|
||||||
final DedupConfig dedupConfig) {
|
|
||||||
|
|
||||||
final Dataset<OpenaireBrokerResult> results = expandResultsWithRelations(spark, graphPath, sourceClass);
|
|
||||||
|
|
||||||
final Dataset<Relation> mergedRels = readPath(spark, graphPath + "/relation", Relation.class)
|
|
||||||
.filter(r -> r.getRelClass().equals(BrokerConstants.IS_MERGED_IN_CLASS));
|
|
||||||
|
|
||||||
final TypedColumn<Tuple2<OpenaireBrokerResult, Relation>, ResultGroup> aggr = new ResultAggregator()
|
|
||||||
.toColumn();
|
|
||||||
|
|
||||||
return results
|
|
||||||
.joinWith(mergedRels, results.col("openaireId").equalTo(mergedRels.col("source")), "inner")
|
|
||||||
.groupByKey(
|
|
||||||
(MapFunction<Tuple2<OpenaireBrokerResult, 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<OpenaireBrokerResult> expandResultsWithRelations(
|
|
||||||
final SparkSession spark,
|
|
||||||
final String graphPath,
|
|
||||||
final Class<SRC> sourceClass) {
|
|
||||||
|
|
||||||
final Dataset<Project> projects = readPath(spark, graphPath + "/project", Project.class);
|
|
||||||
// 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<Relation> rels = readPath(spark, graphPath + "/relation", Relation.class)
|
|
||||||
.filter(r -> !r.getRelClass().equals(BrokerConstants.IS_MERGED_IN_CLASS))
|
|
||||||
.cache();
|
|
||||||
|
|
||||||
final Dataset<OpenaireBrokerResult> r0 = readPath(
|
|
||||||
spark, graphPath + "/" + sourceClass.getSimpleName().toLowerCase(), sourceClass)
|
|
||||||
.filter(r -> r.getDataInfo().getDeletedbyinference())
|
|
||||||
.map(ConversionUtils::oafResultToBrokerResult, Encoders.bean(OpenaireBrokerResult.class));
|
|
||||||
|
|
||||||
// TODO UNCOMMENT THIS
|
|
||||||
final Dataset<OpenaireBrokerResult> r1 = join(r0, rels, relatedEntities(projects, rels, RelatedProject.class));
|
|
||||||
// final Dataset<OpenaireBrokerResult> r2 = join(r1, rels, relatedEntities(softwares, rels,
|
|
||||||
// RelatedSoftware.class));
|
|
||||||
// final Dataset<OpenaireBrokerResult> r3 = join(r2, rels, relatedEntities(datasets, rels,
|
|
||||||
// RelatedDataset.class));
|
|
||||||
// final Dataset<OpenaireBrokerResult> r4 = join(r3, rels, relatedEntities(publications, rels,
|
|
||||||
// RelatedPublication.class));;
|
|
||||||
|
|
||||||
return r0; // TODO it should be r4
|
|
||||||
}
|
|
||||||
|
|
||||||
private static <T, RT> Dataset<RT> relatedEntities(final Dataset<T> targets,
|
|
||||||
final Dataset<Relation> rels,
|
|
||||||
final Class<RT> clazz) {
|
|
||||||
return rels
|
|
||||||
.joinWith(targets, targets.col("id").equalTo(rels.col("target")), "inner")
|
|
||||||
.map(
|
|
||||||
t -> RelatedEntityFactory.newRelatedEntity(t._1.getSource(), t._1.getRelType(), t._2, clazz),
|
|
||||||
Encoders.bean(clazz));
|
|
||||||
}
|
|
||||||
|
|
||||||
private static <T> Dataset<OpenaireBrokerResult> join(final Dataset<OpenaireBrokerResult> sources,
|
|
||||||
final Dataset<Relation> rels,
|
|
||||||
final Dataset<T> typedRels) {
|
|
||||||
|
|
||||||
final TypedColumn<Tuple2<OpenaireBrokerResult, T>, OpenaireBrokerResult> aggr = new OpenaireBrokerResultAggregator<T>()
|
|
||||||
.toColumn();
|
|
||||||
|
|
||||||
return sources
|
|
||||||
.joinWith(typedRels, sources.col("openaireId").equalTo(rels.col("source")), "left_outer")
|
|
||||||
.groupByKey(
|
|
||||||
(MapFunction<Tuple2<OpenaireBrokerResult, T>, String>) t -> t._1.getOpenaireId(), Encoders.STRING())
|
|
||||||
.agg(aggr)
|
|
||||||
.map(t -> t._2, Encoders.bean(OpenaireBrokerResult.class));
|
|
||||||
|
|
||||||
}
|
|
||||||
|
|
||||||
public static <R> Dataset<R> readPath(
|
|
||||||
final SparkSession spark,
|
|
||||||
final String inputPath,
|
|
||||||
final Class<R> clazz) {
|
|
||||||
return spark
|
|
||||||
.read()
|
|
||||||
.textFile(inputPath)
|
|
||||||
.map((MapFunction<String, R>) value -> OBJECT_MAPPER.readValue(value, clazz), Encoders.bean(clazz));
|
|
||||||
}
|
|
||||||
|
|
||||||
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;
|
|
||||||
}
|
|
||||||
|
|
||||||
}
|
|
|
@ -0,0 +1,103 @@
|
||||||
|
|
||||||
|
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.slf4j.Logger;
|
||||||
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
|
import com.fasterxml.jackson.databind.ObjectMapper;
|
||||||
|
|
||||||
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
||||||
|
import eu.dnetlib.dhp.broker.model.Event;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.ClusterUtils;
|
||||||
|
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.ResultGroup;
|
||||||
|
import eu.dnetlib.dhp.utils.ISLookupClientFactory;
|
||||||
|
import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpService;
|
||||||
|
import eu.dnetlib.pace.config.DedupConfig;
|
||||||
|
|
||||||
|
public class GenerateEventsJob {
|
||||||
|
|
||||||
|
private static final Logger log = LoggerFactory.getLogger(GenerateEventsJob.class);
|
||||||
|
|
||||||
|
public static void main(final String[] args) throws Exception {
|
||||||
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
|
IOUtils
|
||||||
|
.toString(
|
||||||
|
GenerateEventsJob.class
|
||||||
|
.getResourceAsStream("/eu/dnetlib/dhp/broker/oa/generate_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 workingPath = parser.get("workingPath");
|
||||||
|
log.info("workingPath: {}", workingPath);
|
||||||
|
|
||||||
|
final String isLookupUrl = parser.get("isLookupUrl");
|
||||||
|
log.info("isLookupUrl: {}", isLookupUrl);
|
||||||
|
|
||||||
|
final String dedupConfigProfileId = parser.get("dedupConfProfile");
|
||||||
|
log.info("dedupConfigProfileId: {}", dedupConfigProfileId);
|
||||||
|
|
||||||
|
final String eventsPath = workingPath + "/events";
|
||||||
|
log.info("eventsPath: {}", eventsPath);
|
||||||
|
|
||||||
|
final SparkConf conf = new SparkConf();
|
||||||
|
|
||||||
|
// TODO UNCOMMENT
|
||||||
|
// final DedupConfig dedupConfig = loadDedupConfig(isLookupUrl, dedupConfigProfileId);
|
||||||
|
final DedupConfig dedupConfig = null;
|
||||||
|
|
||||||
|
runWithSparkSession(conf, isSparkSessionManaged, spark -> {
|
||||||
|
|
||||||
|
ClusterUtils.removeDir(spark, eventsPath);
|
||||||
|
|
||||||
|
final Dataset<ResultGroup> groups = ClusterUtils
|
||||||
|
.readPath(spark, workingPath + "/duplicates", ResultGroup.class);
|
||||||
|
|
||||||
|
final Dataset<Event> events = groups
|
||||||
|
.map(
|
||||||
|
(MapFunction<ResultGroup, EventGroup>) g -> EventFinder.generateEvents(g, dedupConfig),
|
||||||
|
Encoders.bean(EventGroup.class))
|
||||||
|
.flatMap(group -> group.getData().iterator(), Encoders.bean(Event.class));
|
||||||
|
|
||||||
|
events.write().mode(SaveMode.Overwrite).json(eventsPath);
|
||||||
|
|
||||||
|
});
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
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;
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -0,0 +1,90 @@
|
||||||
|
|
||||||
|
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.expressions.Aggregator;
|
||||||
|
import org.slf4j.Logger;
|
||||||
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.ClusterUtils;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedProject;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedProjectAggregator;
|
||||||
|
import scala.Tuple2;
|
||||||
|
|
||||||
|
public class JoinEntitiesJob {
|
||||||
|
|
||||||
|
private static final Logger log = LoggerFactory.getLogger(JoinEntitiesJob.class);
|
||||||
|
|
||||||
|
public static void main(final String[] args) throws Exception {
|
||||||
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
|
IOUtils
|
||||||
|
.toString(
|
||||||
|
JoinEntitiesJob.class
|
||||||
|
.getResourceAsStream("/eu/dnetlib/dhp/broker/oa/common_params.json")));
|
||||||
|
parser.parseArgument(args);
|
||||||
|
|
||||||
|
final Boolean isSparkSessionManaged = Optional
|
||||||
|
.ofNullable(parser.get("isSparkSessionManaged"))
|
||||||
|
.map(Boolean::valueOf)
|
||||||
|
.orElse(Boolean.TRUE);
|
||||||
|
log.info("isSparkSessionManaged: {}", isSparkSessionManaged);
|
||||||
|
|
||||||
|
final String workingPath = parser.get("workingPath");
|
||||||
|
log.info("workingPath: {}", workingPath);
|
||||||
|
|
||||||
|
final String joinedEntitiesPath = workingPath + "/joinedEntities";
|
||||||
|
log.info("joinedEntitiesPath: {}", joinedEntitiesPath);
|
||||||
|
|
||||||
|
final SparkConf conf = new SparkConf();
|
||||||
|
|
||||||
|
runWithSparkSession(conf, isSparkSessionManaged, spark -> {
|
||||||
|
|
||||||
|
ClusterUtils.removeDir(spark, joinedEntitiesPath);
|
||||||
|
|
||||||
|
final Dataset<OaBrokerMainEntity> r0 = ClusterUtils
|
||||||
|
.readPath(spark, workingPath + "/simpleEntities", OaBrokerMainEntity.class);
|
||||||
|
|
||||||
|
final Dataset<OaBrokerMainEntity> r1 = join(
|
||||||
|
r0, ClusterUtils.readPath(spark, workingPath + "/relatedProjects", RelatedProject.class),
|
||||||
|
new RelatedProjectAggregator());
|
||||||
|
// final Dataset<OaBrokerMainEntity> r2 = join(
|
||||||
|
// r1, ClusterUtils.readPath(spark, workingPath + "/relatedDatasets", RelatedDataset.class), new
|
||||||
|
// RelatedDatasetAggregator());
|
||||||
|
// final Dataset<OaBrokerMainEntity> r3 = join(
|
||||||
|
// r2, ClusterUtils.readPath(spark, workingPath + "/relatedPublications", RelatedPublication.class), new
|
||||||
|
// RelatedPublicationAggregator());
|
||||||
|
// final Dataset<OaBrokerMainEntity> r4 = join(
|
||||||
|
// r3, ClusterUtils.readPath(spark, workingPath + "/relatedSoftwares", RelatedSoftware.class), new
|
||||||
|
// RelatedSoftwareAggregator());
|
||||||
|
|
||||||
|
r1.write().mode(SaveMode.Overwrite).json(joinedEntitiesPath);
|
||||||
|
|
||||||
|
});
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
private static <T> Dataset<OaBrokerMainEntity> join(final Dataset<OaBrokerMainEntity> sources,
|
||||||
|
final Dataset<T> typedRels,
|
||||||
|
final Aggregator<Tuple2<OaBrokerMainEntity, T>, OaBrokerMainEntity, OaBrokerMainEntity> aggr) {
|
||||||
|
|
||||||
|
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.toColumn())
|
||||||
|
.map(t -> t._2, Encoders.bean(OaBrokerMainEntity.class));
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -0,0 +1,88 @@
|
||||||
|
|
||||||
|
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.TypedColumn;
|
||||||
|
import org.slf4j.Logger;
|
||||||
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.ClusterUtils;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.aggregators.simple.ResultAggregator;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.aggregators.simple.ResultGroup;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
||||||
|
import scala.Tuple2;
|
||||||
|
|
||||||
|
public class PrepareGroupsJob {
|
||||||
|
|
||||||
|
private static final Logger log = LoggerFactory.getLogger(PrepareGroupsJob.class);
|
||||||
|
|
||||||
|
public static void main(final String[] args) throws Exception {
|
||||||
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
|
IOUtils
|
||||||
|
.toString(
|
||||||
|
JoinEntitiesJob.class
|
||||||
|
.getResourceAsStream("/eu/dnetlib/dhp/broker/oa/common_params.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 workingPath = parser.get("workingPath");
|
||||||
|
log.info("workingPath: {}", workingPath);
|
||||||
|
|
||||||
|
final String groupsPath = workingPath + "/duplicates";
|
||||||
|
log.info("groupsPath: {}", groupsPath);
|
||||||
|
|
||||||
|
final SparkConf conf = new SparkConf();
|
||||||
|
|
||||||
|
runWithSparkSession(conf, isSparkSessionManaged, spark -> {
|
||||||
|
|
||||||
|
ClusterUtils.removeDir(spark, groupsPath);
|
||||||
|
|
||||||
|
final Dataset<OaBrokerMainEntity> results = ClusterUtils
|
||||||
|
.readPath(spark, workingPath + "/joinedEntities", OaBrokerMainEntity.class);
|
||||||
|
|
||||||
|
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();
|
||||||
|
|
||||||
|
final Dataset<ResultGroup> groups = 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);
|
||||||
|
|
||||||
|
groups
|
||||||
|
.write()
|
||||||
|
.mode(SaveMode.Overwrite)
|
||||||
|
.json(groupsPath);
|
||||||
|
|
||||||
|
});
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -0,0 +1,84 @@
|
||||||
|
|
||||||
|
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.sql.Dataset;
|
||||||
|
import org.apache.spark.sql.Encoders;
|
||||||
|
import org.apache.spark.sql.SaveMode;
|
||||||
|
import org.slf4j.Logger;
|
||||||
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerRelatedDataset;
|
||||||
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.ClusterUtils;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.ConversionUtils;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedDataset;
|
||||||
|
import eu.dnetlib.dhp.schema.common.ModelConstants;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
||||||
|
|
||||||
|
public class PrepareRelatedDatasetsJob {
|
||||||
|
|
||||||
|
private static final Logger log = LoggerFactory.getLogger(PrepareRelatedDatasetsJob.class);
|
||||||
|
|
||||||
|
public static void main(final String[] args) throws Exception {
|
||||||
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
|
IOUtils
|
||||||
|
.toString(
|
||||||
|
PrepareRelatedDatasetsJob.class
|
||||||
|
.getResourceAsStream("/eu/dnetlib/dhp/broker/oa/common_params.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 workingPath = parser.get("workingPath");
|
||||||
|
log.info("workingPath: {}", workingPath);
|
||||||
|
|
||||||
|
final String relsPath = workingPath + "/relatedDatasets";
|
||||||
|
log.info("relsPath: {}", relsPath);
|
||||||
|
|
||||||
|
final SparkConf conf = new SparkConf();
|
||||||
|
|
||||||
|
runWithSparkSession(conf, isSparkSessionManaged, spark -> {
|
||||||
|
|
||||||
|
ClusterUtils.removeDir(spark, relsPath);
|
||||||
|
|
||||||
|
final Dataset<OaBrokerRelatedDataset> datasets = ClusterUtils
|
||||||
|
.readPath(spark, graphPath + "/dataset", eu.dnetlib.dhp.schema.oaf.Dataset.class)
|
||||||
|
.filter(d -> !ClusterUtils.isDedupRoot(d.getId()))
|
||||||
|
.map(ConversionUtils::oafDatasetToBrokerDataset, Encoders.bean(OaBrokerRelatedDataset.class));
|
||||||
|
|
||||||
|
final Dataset<Relation> rels = ClusterUtils
|
||||||
|
.readPath(spark, graphPath + "/relation", Relation.class)
|
||||||
|
.filter(r -> r.getRelType().equals(ModelConstants.RESULT_RESULT))
|
||||||
|
.filter(r -> ClusterUtils.isValidResultResultClass(r.getRelClass()))
|
||||||
|
.filter(r -> !ClusterUtils.isDedupRoot(r.getSource()))
|
||||||
|
.filter(r -> !ClusterUtils.isDedupRoot(r.getTarget()));
|
||||||
|
|
||||||
|
rels
|
||||||
|
.joinWith(datasets, datasets.col("openaireId").equalTo(rels.col("target")), "inner")
|
||||||
|
.map(t -> {
|
||||||
|
final RelatedDataset rel = new RelatedDataset(t._1.getSource(), t._2);
|
||||||
|
rel.getRelDataset().setRelType(t._1.getRelClass());
|
||||||
|
return rel;
|
||||||
|
}, Encoders.bean(RelatedDataset.class))
|
||||||
|
.write()
|
||||||
|
.mode(SaveMode.Overwrite)
|
||||||
|
.json(relsPath);
|
||||||
|
|
||||||
|
});
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -0,0 +1,85 @@
|
||||||
|
|
||||||
|
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.sql.Dataset;
|
||||||
|
import org.apache.spark.sql.Encoders;
|
||||||
|
import org.apache.spark.sql.SaveMode;
|
||||||
|
import org.slf4j.Logger;
|
||||||
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
|
import com.fasterxml.jackson.databind.ObjectMapper;
|
||||||
|
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerProject;
|
||||||
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
||||||
|
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.aggregators.withRels.RelatedProject;
|
||||||
|
import eu.dnetlib.dhp.schema.common.ModelConstants;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Project;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
||||||
|
|
||||||
|
public class PrepareRelatedProjectsJob {
|
||||||
|
|
||||||
|
private static final Logger log = LoggerFactory.getLogger(PrepareRelatedProjectsJob.class);
|
||||||
|
|
||||||
|
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
|
||||||
|
|
||||||
|
public static void main(final String[] args) throws Exception {
|
||||||
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
|
IOUtils
|
||||||
|
.toString(
|
||||||
|
PrepareRelatedProjectsJob.class
|
||||||
|
.getResourceAsStream("/eu/dnetlib/dhp/broker/oa/common_params.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 workingPath = parser.get("workingPath");
|
||||||
|
log.info("workingPath: {}", workingPath);
|
||||||
|
|
||||||
|
final String relsPath = workingPath + "/relatedProjects";
|
||||||
|
log.info("relsPath: {}", relsPath);
|
||||||
|
|
||||||
|
final SparkConf conf = new SparkConf();
|
||||||
|
|
||||||
|
runWithSparkSession(conf, isSparkSessionManaged, spark -> {
|
||||||
|
|
||||||
|
ClusterUtils.removeDir(spark, relsPath);
|
||||||
|
|
||||||
|
final Dataset<OaBrokerProject> projects = ClusterUtils
|
||||||
|
.readPath(spark, graphPath + "/project", Project.class)
|
||||||
|
.filter(p -> !ClusterUtils.isDedupRoot(p.getId()))
|
||||||
|
.map(ConversionUtils::oafProjectToBrokerProject, Encoders.bean(OaBrokerProject.class));
|
||||||
|
|
||||||
|
final Dataset<Relation> rels = ClusterUtils
|
||||||
|
.readPath(spark, graphPath + "/relation", Relation.class)
|
||||||
|
.filter(r -> r.getRelType().equals(ModelConstants.RESULT_PROJECT))
|
||||||
|
.filter(r -> !r.getRelClass().equals(BrokerConstants.IS_MERGED_IN_CLASS))
|
||||||
|
.filter(r -> !ClusterUtils.isDedupRoot(r.getSource()))
|
||||||
|
.filter(r -> !ClusterUtils.isDedupRoot(r.getTarget()));
|
||||||
|
|
||||||
|
rels
|
||||||
|
.joinWith(projects, projects.col("openaireId").equalTo(rels.col("target")), "inner")
|
||||||
|
.map(t -> new RelatedProject(t._1.getSource(), t._2), Encoders.bean(RelatedProject.class))
|
||||||
|
.write()
|
||||||
|
.mode(SaveMode.Overwrite)
|
||||||
|
.json(relsPath);
|
||||||
|
});
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -0,0 +1,91 @@
|
||||||
|
|
||||||
|
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.sql.Dataset;
|
||||||
|
import org.apache.spark.sql.Encoders;
|
||||||
|
import org.apache.spark.sql.SaveMode;
|
||||||
|
import org.slf4j.Logger;
|
||||||
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
|
import com.fasterxml.jackson.databind.ObjectMapper;
|
||||||
|
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerRelatedPublication;
|
||||||
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.ClusterUtils;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.ConversionUtils;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedPublication;
|
||||||
|
import eu.dnetlib.dhp.schema.common.ModelConstants;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Publication;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
||||||
|
|
||||||
|
public class PrepareRelatedPublicationsJob {
|
||||||
|
|
||||||
|
private static final Logger log = LoggerFactory.getLogger(PrepareRelatedPublicationsJob.class);
|
||||||
|
|
||||||
|
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
|
||||||
|
|
||||||
|
public static void main(final String[] args) throws Exception {
|
||||||
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
|
IOUtils
|
||||||
|
.toString(
|
||||||
|
PrepareRelatedPublicationsJob.class
|
||||||
|
.getResourceAsStream("/eu/dnetlib/dhp/broker/oa/common_params.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 workingPath = parser.get("workingPath");
|
||||||
|
log.info("workingPath: {}", workingPath);
|
||||||
|
|
||||||
|
final String relsPath = workingPath + "/relatedPublications";
|
||||||
|
log.info("relsPath: {}", relsPath);
|
||||||
|
|
||||||
|
final SparkConf conf = new SparkConf();
|
||||||
|
|
||||||
|
runWithSparkSession(conf, isSparkSessionManaged, spark -> {
|
||||||
|
|
||||||
|
ClusterUtils.removeDir(spark, relsPath);
|
||||||
|
|
||||||
|
final Dataset<OaBrokerRelatedPublication> pubs = ClusterUtils
|
||||||
|
.readPath(spark, graphPath + "/publication", Publication.class)
|
||||||
|
.filter(p -> !ClusterUtils.isDedupRoot(p.getId()))
|
||||||
|
.map(
|
||||||
|
ConversionUtils::oafPublicationToBrokerPublication,
|
||||||
|
Encoders.bean(OaBrokerRelatedPublication.class));
|
||||||
|
|
||||||
|
final Dataset<Relation> rels = ClusterUtils
|
||||||
|
.readPath(spark, graphPath + "/relation", Relation.class)
|
||||||
|
.filter(r -> r.getRelType().equals(ModelConstants.RESULT_RESULT))
|
||||||
|
.filter(r -> ClusterUtils.isValidResultResultClass(r.getRelClass()))
|
||||||
|
.filter(r -> !ClusterUtils.isDedupRoot(r.getSource()))
|
||||||
|
.filter(r -> !ClusterUtils.isDedupRoot(r.getTarget()));
|
||||||
|
|
||||||
|
rels
|
||||||
|
.joinWith(pubs, pubs.col("openaireId").equalTo(rels.col("target")), "inner")
|
||||||
|
.map(t -> {
|
||||||
|
final RelatedPublication rel = new RelatedPublication(t._1.getSource(), t._2);
|
||||||
|
rel.getRelPublication().setRelType(t._1.getRelClass());
|
||||||
|
return rel;
|
||||||
|
}, Encoders.bean(RelatedPublication.class))
|
||||||
|
.write()
|
||||||
|
.mode(SaveMode.Overwrite)
|
||||||
|
.json(relsPath);
|
||||||
|
|
||||||
|
});
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -0,0 +1,86 @@
|
||||||
|
|
||||||
|
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.sql.Dataset;
|
||||||
|
import org.apache.spark.sql.Encoders;
|
||||||
|
import org.apache.spark.sql.SaveMode;
|
||||||
|
import org.slf4j.Logger;
|
||||||
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
|
import com.fasterxml.jackson.databind.ObjectMapper;
|
||||||
|
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerRelatedSoftware;
|
||||||
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
||||||
|
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.aggregators.withRels.RelatedSoftware;
|
||||||
|
import eu.dnetlib.dhp.schema.common.ModelConstants;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Software;
|
||||||
|
|
||||||
|
public class PrepareRelatedSoftwaresJob {
|
||||||
|
|
||||||
|
private static final Logger log = LoggerFactory.getLogger(PrepareRelatedSoftwaresJob.class);
|
||||||
|
|
||||||
|
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
|
||||||
|
|
||||||
|
public static void main(final String[] args) throws Exception {
|
||||||
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
|
IOUtils
|
||||||
|
.toString(
|
||||||
|
PrepareRelatedSoftwaresJob.class
|
||||||
|
.getResourceAsStream("/eu/dnetlib/dhp/broker/oa/common_params.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 workingPath = parser.get("workingPath");
|
||||||
|
log.info("workingPath: {}", workingPath);
|
||||||
|
|
||||||
|
final String relsPath = workingPath + "/relatedSoftwares";
|
||||||
|
log.info("relsPath: {}", relsPath);
|
||||||
|
|
||||||
|
final SparkConf conf = new SparkConf();
|
||||||
|
|
||||||
|
runWithSparkSession(conf, isSparkSessionManaged, spark -> {
|
||||||
|
|
||||||
|
ClusterUtils.removeDir(spark, relsPath);
|
||||||
|
|
||||||
|
final Dataset<OaBrokerRelatedSoftware> softwares = ClusterUtils
|
||||||
|
.readPath(spark, graphPath + "/software", Software.class)
|
||||||
|
.filter(sw -> !ClusterUtils.isDedupRoot(sw.getId()))
|
||||||
|
.map(ConversionUtils::oafSoftwareToBrokerSoftware, Encoders.bean(OaBrokerRelatedSoftware.class));
|
||||||
|
|
||||||
|
final Dataset<Relation> rels = ClusterUtils
|
||||||
|
.readPath(spark, graphPath + "/relation", Relation.class)
|
||||||
|
.filter(r -> r.getRelType().equals(ModelConstants.RESULT_RESULT))
|
||||||
|
.filter(r -> !r.getRelClass().equals(BrokerConstants.IS_MERGED_IN_CLASS))
|
||||||
|
.filter(r -> !ClusterUtils.isDedupRoot(r.getSource()))
|
||||||
|
.filter(r -> !ClusterUtils.isDedupRoot(r.getTarget()));
|
||||||
|
|
||||||
|
rels
|
||||||
|
.joinWith(softwares, softwares.col("openaireId").equalTo(rels.col("target")), "inner")
|
||||||
|
.map(t -> new RelatedSoftware(t._1.getSource(), t._2), Encoders.bean(RelatedSoftware.class))
|
||||||
|
.write()
|
||||||
|
.mode(SaveMode.Overwrite)
|
||||||
|
.json(relsPath);
|
||||||
|
|
||||||
|
});
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -0,0 +1,82 @@
|
||||||
|
|
||||||
|
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.sql.Dataset;
|
||||||
|
import org.apache.spark.sql.Encoders;
|
||||||
|
import org.apache.spark.sql.SaveMode;
|
||||||
|
import org.apache.spark.sql.SparkSession;
|
||||||
|
import org.slf4j.Logger;
|
||||||
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.ClusterUtils;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.ConversionUtils;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.OtherResearchProduct;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Publication;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Result;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Software;
|
||||||
|
|
||||||
|
public class PrepareSimpleEntititiesJob {
|
||||||
|
|
||||||
|
private static final Logger log = LoggerFactory.getLogger(PrepareSimpleEntititiesJob.class);
|
||||||
|
|
||||||
|
public static void main(final String[] args) throws Exception {
|
||||||
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
|
IOUtils
|
||||||
|
.toString(
|
||||||
|
PrepareSimpleEntititiesJob.class
|
||||||
|
.getResourceAsStream("/eu/dnetlib/dhp/broker/oa/common_params.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 workingPath = parser.get("workingPath");
|
||||||
|
log.info("workingPath: {}", workingPath);
|
||||||
|
|
||||||
|
final String simpleEntitiesPath = workingPath + "/simpleEntities";
|
||||||
|
log.info("simpleEntitiesPath: {}", simpleEntitiesPath);
|
||||||
|
|
||||||
|
final SparkConf conf = new SparkConf();
|
||||||
|
|
||||||
|
runWithSparkSession(conf, isSparkSessionManaged, spark -> {
|
||||||
|
|
||||||
|
ClusterUtils.removeDir(spark, simpleEntitiesPath);
|
||||||
|
|
||||||
|
prepareSimpleEntities(spark, graphPath, Publication.class)
|
||||||
|
.union(prepareSimpleEntities(spark, graphPath, eu.dnetlib.dhp.schema.oaf.Dataset.class))
|
||||||
|
.union(prepareSimpleEntities(spark, graphPath, Software.class))
|
||||||
|
.union(prepareSimpleEntities(spark, graphPath, OtherResearchProduct.class))
|
||||||
|
.write()
|
||||||
|
.mode(SaveMode.Overwrite)
|
||||||
|
.json(simpleEntitiesPath);
|
||||||
|
});
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
private static <SRC extends Result> Dataset<OaBrokerMainEntity> prepareSimpleEntities(
|
||||||
|
final SparkSession spark,
|
||||||
|
final String graphPath,
|
||||||
|
final Class<SRC> sourceClass) {
|
||||||
|
|
||||||
|
return ClusterUtils
|
||||||
|
.readPath(spark, graphPath + "/" + sourceClass.getSimpleName().toLowerCase(), sourceClass)
|
||||||
|
.filter(r -> !ClusterUtils.isDedupRoot(r.getId()))
|
||||||
|
.filter(r -> r.getDataInfo().getDeletedbyinference())
|
||||||
|
.map(ConversionUtils::oafResultToBrokerResult, Encoders.bean(OaBrokerMainEntity.class));
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -12,7 +12,7 @@ import java.util.function.Function;
|
||||||
import org.apache.commons.codec.digest.DigestUtils;
|
import org.apache.commons.codec.digest.DigestUtils;
|
||||||
import org.apache.commons.lang3.StringUtils;
|
import org.apache.commons.lang3.StringUtils;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
import eu.dnetlib.dhp.broker.oa.util.UpdateInfo;
|
import eu.dnetlib.dhp.broker.oa.util.UpdateInfo;
|
||||||
import eu.dnetlib.pace.config.DedupConfig;
|
import eu.dnetlib.pace.config.DedupConfig;
|
||||||
|
@ -21,11 +21,11 @@ public abstract class UpdateMatcher<T> {
|
||||||
|
|
||||||
private final boolean multipleUpdate;
|
private final boolean multipleUpdate;
|
||||||
private final Function<T, Topic> topicFunction;
|
private final Function<T, Topic> topicFunction;
|
||||||
private final BiConsumer<OpenaireBrokerResult, T> compileHighlightFunction;
|
private final BiConsumer<OaBrokerMainEntity, T> compileHighlightFunction;
|
||||||
private final Function<T, String> highlightToStringFunction;
|
private final Function<T, String> highlightToStringFunction;
|
||||||
|
|
||||||
public UpdateMatcher(final boolean multipleUpdate, final Function<T, Topic> topicFunction,
|
public UpdateMatcher(final boolean multipleUpdate, final Function<T, Topic> topicFunction,
|
||||||
final BiConsumer<OpenaireBrokerResult, T> compileHighlightFunction,
|
final BiConsumer<OaBrokerMainEntity, T> compileHighlightFunction,
|
||||||
final Function<T, String> highlightToStringFunction) {
|
final Function<T, String> highlightToStringFunction) {
|
||||||
this.multipleUpdate = multipleUpdate;
|
this.multipleUpdate = multipleUpdate;
|
||||||
this.topicFunction = topicFunction;
|
this.topicFunction = topicFunction;
|
||||||
|
@ -33,13 +33,13 @@ public abstract class UpdateMatcher<T> {
|
||||||
this.highlightToStringFunction = highlightToStringFunction;
|
this.highlightToStringFunction = highlightToStringFunction;
|
||||||
}
|
}
|
||||||
|
|
||||||
public Collection<UpdateInfo<T>> searchUpdatesForRecord(final OpenaireBrokerResult res,
|
public Collection<UpdateInfo<T>> searchUpdatesForRecord(final OaBrokerMainEntity res,
|
||||||
final Collection<OpenaireBrokerResult> others,
|
final Collection<OaBrokerMainEntity> others,
|
||||||
final DedupConfig dedupConfig) {
|
final DedupConfig dedupConfig) {
|
||||||
|
|
||||||
final Map<String, UpdateInfo<T>> infoMap = new HashMap<>();
|
final Map<String, UpdateInfo<T>> infoMap = new HashMap<>();
|
||||||
|
|
||||||
for (final OpenaireBrokerResult source : others) {
|
for (final OaBrokerMainEntity source : others) {
|
||||||
if (source != res) {
|
if (source != res) {
|
||||||
for (final T hl : findDifferences(source, res)) {
|
for (final T hl : findDifferences(source, res)) {
|
||||||
final Topic topic = getTopicFunction().apply(hl);
|
final Topic topic = getTopicFunction().apply(hl);
|
||||||
|
@ -68,7 +68,7 @@ public abstract class UpdateMatcher<T> {
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
protected abstract List<T> findDifferences(OpenaireBrokerResult source, OpenaireBrokerResult target);
|
protected abstract List<T> findDifferences(OaBrokerMainEntity source, OaBrokerMainEntity target);
|
||||||
|
|
||||||
protected static boolean isMissing(final List<String> list) {
|
protected static boolean isMissing(final List<String> list) {
|
||||||
return list == null || list.isEmpty() || StringUtils.isBlank(list.get(0));
|
return list == null || list.isEmpty() || StringUtils.isBlank(list.get(0));
|
||||||
|
@ -86,7 +86,7 @@ public abstract class UpdateMatcher<T> {
|
||||||
return topicFunction;
|
return topicFunction;
|
||||||
}
|
}
|
||||||
|
|
||||||
public BiConsumer<OpenaireBrokerResult, T> getCompileHighlightFunction() {
|
public BiConsumer<OaBrokerMainEntity, T> getCompileHighlightFunction() {
|
||||||
return compileHighlightFunction;
|
return compileHighlightFunction;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
|
@ -5,13 +5,12 @@ import java.util.List;
|
||||||
import java.util.Set;
|
import java.util.Set;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.Dataset;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerRelatedDataset;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
|
|
||||||
public abstract class AbstractEnrichMissingDataset
|
public abstract class AbstractEnrichMissingDataset extends UpdateMatcher<OaBrokerRelatedDataset> {
|
||||||
extends UpdateMatcher<Dataset> {
|
|
||||||
|
|
||||||
public AbstractEnrichMissingDataset(final Topic topic) {
|
public AbstractEnrichMissingDataset(final Topic topic) {
|
||||||
super(true,
|
super(true,
|
||||||
|
@ -23,14 +22,14 @@ public abstract class AbstractEnrichMissingDataset
|
||||||
protected abstract boolean filterByType(String relType);
|
protected abstract boolean filterByType(String relType);
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
protected final List<Dataset> findDifferences(final OpenaireBrokerResult source,
|
protected final List<OaBrokerRelatedDataset> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OpenaireBrokerResult target) {
|
final OaBrokerMainEntity target) {
|
||||||
|
|
||||||
final Set<String> existingDatasets = target
|
final Set<String> existingDatasets = target
|
||||||
.getDatasets()
|
.getDatasets()
|
||||||
.stream()
|
.stream()
|
||||||
.filter(rel -> filterByType(rel.getRelType()))
|
.filter(rel -> filterByType(rel.getRelType()))
|
||||||
.map(Dataset::getOriginalId)
|
.map(OaBrokerRelatedDataset::getOriginalId)
|
||||||
.collect(Collectors.toSet());
|
.collect(Collectors.toSet());
|
||||||
|
|
||||||
return source
|
return source
|
||||||
|
|
|
@ -4,12 +4,12 @@ package eu.dnetlib.dhp.broker.oa.matchers.relatedProjects;
|
||||||
import java.util.ArrayList;
|
import java.util.ArrayList;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.broker.objects.Project;
|
import eu.dnetlib.broker.objects.OaBrokerProject;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
|
|
||||||
public class EnrichMissingProject extends UpdateMatcher<Project> {
|
public class EnrichMissingProject extends UpdateMatcher<OaBrokerProject> {
|
||||||
|
|
||||||
public EnrichMissingProject() {
|
public EnrichMissingProject() {
|
||||||
super(true,
|
super(true,
|
||||||
|
@ -19,7 +19,7 @@ public class EnrichMissingProject extends UpdateMatcher<Project> {
|
||||||
}
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
protected List<Project> findDifferences(final OpenaireBrokerResult source, final OpenaireBrokerResult target) {
|
protected List<OaBrokerProject> findDifferences(final OaBrokerMainEntity source, final OaBrokerMainEntity target) {
|
||||||
if (target.getProjects().isEmpty()) {
|
if (target.getProjects().isEmpty()) {
|
||||||
return source.getProjects();
|
return source.getProjects();
|
||||||
} else {
|
} else {
|
||||||
|
|
|
@ -5,12 +5,12 @@ import java.util.List;
|
||||||
import java.util.Set;
|
import java.util.Set;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.broker.objects.Project;
|
import eu.dnetlib.broker.objects.OaBrokerProject;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
|
|
||||||
public class EnrichMoreProject extends UpdateMatcher<Project> {
|
public class EnrichMoreProject extends UpdateMatcher<OaBrokerProject> {
|
||||||
|
|
||||||
public EnrichMoreProject() {
|
public EnrichMoreProject() {
|
||||||
super(true,
|
super(true,
|
||||||
|
@ -19,13 +19,13 @@ public class EnrichMoreProject extends UpdateMatcher<Project> {
|
||||||
prj -> projectAsString(prj));
|
prj -> projectAsString(prj));
|
||||||
}
|
}
|
||||||
|
|
||||||
private static String projectAsString(final Project prj) {
|
private static String projectAsString(final OaBrokerProject prj) {
|
||||||
return prj.getFunder() + "::" + prj.getFundingProgram() + "::" + prj.getCode();
|
return prj.getFunder() + "::" + prj.getFundingProgram() + "::" + prj.getCode();
|
||||||
}
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
protected List<eu.dnetlib.broker.objects.Project> findDifferences(final OpenaireBrokerResult source,
|
protected List<OaBrokerProject> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OpenaireBrokerResult target) {
|
final OaBrokerMainEntity target) {
|
||||||
|
|
||||||
final Set<String> existingProjects = target
|
final Set<String> existingProjects = target
|
||||||
.getProjects()
|
.getProjects()
|
||||||
|
|
|
@ -5,12 +5,12 @@ import java.util.List;
|
||||||
import java.util.Set;
|
import java.util.Set;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.broker.objects.Publication;
|
import eu.dnetlib.broker.objects.OaBrokerRelatedPublication;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
|
|
||||||
public abstract class AbstractEnrichMissingPublication extends UpdateMatcher<Publication> {
|
public abstract class AbstractEnrichMissingPublication extends UpdateMatcher<OaBrokerRelatedPublication> {
|
||||||
|
|
||||||
public AbstractEnrichMissingPublication(final Topic topic) {
|
public AbstractEnrichMissingPublication(final Topic topic) {
|
||||||
super(true,
|
super(true,
|
||||||
|
@ -23,15 +23,15 @@ public abstract class AbstractEnrichMissingPublication extends UpdateMatcher<Pub
|
||||||
protected abstract boolean filterByType(String relType);
|
protected abstract boolean filterByType(String relType);
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
protected final List<eu.dnetlib.broker.objects.Publication> findDifferences(
|
protected final List<OaBrokerRelatedPublication> findDifferences(
|
||||||
final OpenaireBrokerResult source,
|
final OaBrokerMainEntity source,
|
||||||
final OpenaireBrokerResult target) {
|
final OaBrokerMainEntity target) {
|
||||||
|
|
||||||
final Set<String> existingPublications = target
|
final Set<String> existingPublications = target
|
||||||
.getPublications()
|
.getPublications()
|
||||||
.stream()
|
.stream()
|
||||||
.filter(rel -> filterByType(rel.getRelType()))
|
.filter(rel -> filterByType(rel.getRelType()))
|
||||||
.map(Publication::getOriginalId)
|
.map(OaBrokerRelatedPublication::getOriginalId)
|
||||||
.collect(Collectors.toSet());
|
.collect(Collectors.toSet());
|
||||||
|
|
||||||
return source
|
return source
|
||||||
|
|
|
@ -4,12 +4,13 @@ package eu.dnetlib.dhp.broker.oa.matchers.relatedSoftware;
|
||||||
import java.util.ArrayList;
|
import java.util.ArrayList;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerRelatedSoftware;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
|
|
||||||
public class EnrichMissingSoftware
|
public class EnrichMissingSoftware
|
||||||
extends UpdateMatcher<eu.dnetlib.broker.objects.Software> {
|
extends UpdateMatcher<OaBrokerRelatedSoftware> {
|
||||||
|
|
||||||
public EnrichMissingSoftware() {
|
public EnrichMissingSoftware() {
|
||||||
super(true,
|
super(true,
|
||||||
|
@ -19,9 +20,9 @@ public class EnrichMissingSoftware
|
||||||
}
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
protected List<eu.dnetlib.broker.objects.Software> findDifferences(
|
protected List<OaBrokerRelatedSoftware> findDifferences(
|
||||||
final OpenaireBrokerResult source,
|
final OaBrokerMainEntity source,
|
||||||
final OpenaireBrokerResult target) {
|
final OaBrokerMainEntity target) {
|
||||||
|
|
||||||
if (target.getSoftwares().isEmpty()) {
|
if (target.getSoftwares().isEmpty()) {
|
||||||
return source.getSoftwares();
|
return source.getSoftwares();
|
||||||
|
|
|
@ -5,12 +5,12 @@ import java.util.List;
|
||||||
import java.util.Set;
|
import java.util.Set;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.broker.objects.Software;
|
import eu.dnetlib.broker.objects.OaBrokerRelatedSoftware;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
|
|
||||||
public class EnrichMoreSoftware extends UpdateMatcher<Software> {
|
public class EnrichMoreSoftware extends UpdateMatcher<OaBrokerRelatedSoftware> {
|
||||||
|
|
||||||
public EnrichMoreSoftware() {
|
public EnrichMoreSoftware() {
|
||||||
super(true,
|
super(true,
|
||||||
|
@ -20,14 +20,14 @@ public class EnrichMoreSoftware extends UpdateMatcher<Software> {
|
||||||
}
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
protected List<eu.dnetlib.broker.objects.Software> findDifferences(
|
protected List<OaBrokerRelatedSoftware> findDifferences(
|
||||||
final OpenaireBrokerResult source,
|
final OaBrokerMainEntity source,
|
||||||
final OpenaireBrokerResult target) {
|
final OaBrokerMainEntity target) {
|
||||||
|
|
||||||
final Set<String> existingSoftwares = source
|
final Set<String> existingSoftwares = source
|
||||||
.getSoftwares()
|
.getSoftwares()
|
||||||
.stream()
|
.stream()
|
||||||
.map(Software::getName)
|
.map(OaBrokerRelatedSoftware::getName)
|
||||||
.collect(Collectors.toSet());
|
.collect(Collectors.toSet());
|
||||||
|
|
||||||
return target
|
return target
|
||||||
|
|
|
@ -5,7 +5,7 @@ import java.util.ArrayList;
|
||||||
import java.util.Arrays;
|
import java.util.Arrays;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
|
|
||||||
|
@ -19,7 +19,7 @@ public class EnrichMissingAbstract extends UpdateMatcher<String> {
|
||||||
}
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
protected List<String> findDifferences(final OpenaireBrokerResult source, final OpenaireBrokerResult target) {
|
protected List<String> findDifferences(final OaBrokerMainEntity source, final OaBrokerMainEntity target) {
|
||||||
if (isMissing(target.getAbstracts()) && !isMissing(source.getAbstracts())) {
|
if (isMissing(target.getAbstracts()) && !isMissing(source.getAbstracts())) {
|
||||||
return Arrays.asList(source.getAbstracts().get(0));
|
return Arrays.asList(source.getAbstracts().get(0));
|
||||||
} else {
|
} else {
|
||||||
|
|
|
@ -7,12 +7,12 @@ import java.util.stream.Collectors;
|
||||||
|
|
||||||
import org.apache.commons.lang3.StringUtils;
|
import org.apache.commons.lang3.StringUtils;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.Author;
|
import eu.dnetlib.broker.objects.OaBrokerAuthor;
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
|
|
||||||
public class EnrichMissingAuthorOrcid extends UpdateMatcher<Author> {
|
public class EnrichMissingAuthorOrcid extends UpdateMatcher<OaBrokerAuthor> {
|
||||||
|
|
||||||
public EnrichMissingAuthorOrcid() {
|
public EnrichMissingAuthorOrcid() {
|
||||||
super(true,
|
super(true,
|
||||||
|
@ -22,13 +22,13 @@ public class EnrichMissingAuthorOrcid extends UpdateMatcher<Author> {
|
||||||
}
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
protected List<Author> findDifferences(final OpenaireBrokerResult source,
|
protected List<OaBrokerAuthor> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OpenaireBrokerResult target) {
|
final OaBrokerMainEntity target) {
|
||||||
|
|
||||||
final Set<String> existingOrcids = target
|
final Set<String> existingOrcids = target
|
||||||
.getCreators()
|
.getCreators()
|
||||||
.stream()
|
.stream()
|
||||||
.map(Author::getOrcid)
|
.map(OaBrokerAuthor::getOrcid)
|
||||||
.filter(StringUtils::isNotBlank)
|
.filter(StringUtils::isNotBlank)
|
||||||
.collect(Collectors.toSet());
|
.collect(Collectors.toSet());
|
||||||
|
|
||||||
|
|
|
@ -5,28 +5,28 @@ import java.util.Arrays;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.Instance;
|
import eu.dnetlib.broker.objects.OaBrokerInstance;
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
import eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
import eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
||||||
|
|
||||||
public class EnrichMissingOpenAccess extends UpdateMatcher<Instance> {
|
public class EnrichMissingOpenAccess extends UpdateMatcher<OaBrokerInstance> {
|
||||||
|
|
||||||
public EnrichMissingOpenAccess() {
|
public EnrichMissingOpenAccess() {
|
||||||
super(true,
|
super(true,
|
||||||
i -> Topic.ENRICH_MISSING_OA_VERSION,
|
i -> Topic.ENRICH_MISSING_OA_VERSION,
|
||||||
(p, i) -> p.getInstances().add(i),
|
(p, i) -> p.getInstances().add(i),
|
||||||
Instance::getUrl);
|
OaBrokerInstance::getUrl);
|
||||||
}
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
protected List<Instance> findDifferences(final OpenaireBrokerResult source,
|
protected List<OaBrokerInstance> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OpenaireBrokerResult target) {
|
final OaBrokerMainEntity target) {
|
||||||
final long count = target
|
final long count = target
|
||||||
.getInstances()
|
.getInstances()
|
||||||
.stream()
|
.stream()
|
||||||
.map(Instance::getLicense)
|
.map(OaBrokerInstance::getLicense)
|
||||||
.filter(right -> right.equals(BrokerConstants.OPEN_ACCESS))
|
.filter(right -> right.equals(BrokerConstants.OPEN_ACCESS))
|
||||||
.count();
|
.count();
|
||||||
|
|
||||||
|
|
|
@ -5,12 +5,12 @@ import java.util.Arrays;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.broker.objects.TypedValue;
|
import eu.dnetlib.broker.objects.OaBrokerTypedValue;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
|
|
||||||
public class EnrichMissingPid extends UpdateMatcher<TypedValue> {
|
public class EnrichMissingPid extends UpdateMatcher<OaBrokerTypedValue> {
|
||||||
|
|
||||||
public EnrichMissingPid() {
|
public EnrichMissingPid() {
|
||||||
super(true,
|
super(true,
|
||||||
|
@ -20,8 +20,8 @@ public class EnrichMissingPid extends UpdateMatcher<TypedValue> {
|
||||||
}
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
protected List<TypedValue> findDifferences(final OpenaireBrokerResult source,
|
protected List<OaBrokerTypedValue> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OpenaireBrokerResult target) {
|
final OaBrokerMainEntity target) {
|
||||||
final long count = target.getPids().size();
|
final long count = target.getPids().size();
|
||||||
|
|
||||||
if (count > 0) {
|
if (count > 0) {
|
||||||
|
|
|
@ -5,7 +5,7 @@ import java.util.ArrayList;
|
||||||
import java.util.Arrays;
|
import java.util.Arrays;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
|
|
||||||
|
@ -19,8 +19,8 @@ public class EnrichMissingPublicationDate extends UpdateMatcher<String> {
|
||||||
}
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
protected List<String> findDifferences(final OpenaireBrokerResult source,
|
protected List<String> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OpenaireBrokerResult target) {
|
final OaBrokerMainEntity target) {
|
||||||
|
|
||||||
if (isMissing(target.getPublicationdate()) && !isMissing(source.getPublicationdate())) {
|
if (isMissing(target.getPublicationdate()) && !isMissing(source.getPublicationdate())) {
|
||||||
return Arrays.asList(source.getPublicationdate());
|
return Arrays.asList(source.getPublicationdate());
|
||||||
|
|
|
@ -5,12 +5,12 @@ import java.util.List;
|
||||||
import java.util.Set;
|
import java.util.Set;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.broker.objects.TypedValue;
|
import eu.dnetlib.broker.objects.OaBrokerTypedValue;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
|
|
||||||
public class EnrichMissingSubject extends UpdateMatcher<TypedValue> {
|
public class EnrichMissingSubject extends UpdateMatcher<OaBrokerTypedValue> {
|
||||||
|
|
||||||
public EnrichMissingSubject() {
|
public EnrichMissingSubject() {
|
||||||
super(true,
|
super(true,
|
||||||
|
@ -20,8 +20,8 @@ public class EnrichMissingSubject extends UpdateMatcher<TypedValue> {
|
||||||
}
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
protected List<TypedValue> findDifferences(final OpenaireBrokerResult source,
|
protected List<OaBrokerTypedValue> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OpenaireBrokerResult target) {
|
final OaBrokerMainEntity target) {
|
||||||
final Set<String> existingSubject = target
|
final Set<String> existingSubject = target
|
||||||
.getSubjects()
|
.getSubjects()
|
||||||
.stream()
|
.stream()
|
||||||
|
@ -35,7 +35,7 @@ public class EnrichMissingSubject extends UpdateMatcher<TypedValue> {
|
||||||
.collect(Collectors.toList());
|
.collect(Collectors.toList());
|
||||||
}
|
}
|
||||||
|
|
||||||
private static String subjectAsString(final TypedValue s) {
|
private static String subjectAsString(final OaBrokerTypedValue s) {
|
||||||
return s.getType() + "::" + s.getValue();
|
return s.getType() + "::" + s.getValue();
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
|
@ -5,24 +5,24 @@ import java.util.List;
|
||||||
import java.util.Set;
|
import java.util.Set;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.Instance;
|
import eu.dnetlib.broker.objects.OaBrokerInstance;
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
import eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
import eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
||||||
|
|
||||||
public class EnrichMoreOpenAccess extends UpdateMatcher<Instance> {
|
public class EnrichMoreOpenAccess extends UpdateMatcher<OaBrokerInstance> {
|
||||||
|
|
||||||
public EnrichMoreOpenAccess() {
|
public EnrichMoreOpenAccess() {
|
||||||
super(true,
|
super(true,
|
||||||
i -> Topic.ENRICH_MORE_OA_VERSION,
|
i -> Topic.ENRICH_MORE_OA_VERSION,
|
||||||
(p, i) -> p.getInstances().add(i),
|
(p, i) -> p.getInstances().add(i),
|
||||||
Instance::getUrl);
|
OaBrokerInstance::getUrl);
|
||||||
}
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
protected List<Instance> findDifferences(final OpenaireBrokerResult source,
|
protected List<OaBrokerInstance> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OpenaireBrokerResult target) {
|
final OaBrokerMainEntity target) {
|
||||||
final Set<String> urls = target
|
final Set<String> urls = target
|
||||||
.getInstances()
|
.getInstances()
|
||||||
.stream()
|
.stream()
|
||||||
|
|
|
@ -5,12 +5,12 @@ import java.util.List;
|
||||||
import java.util.Set;
|
import java.util.Set;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.broker.objects.TypedValue;
|
import eu.dnetlib.broker.objects.OaBrokerTypedValue;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
|
|
||||||
public class EnrichMorePid extends UpdateMatcher<TypedValue> {
|
public class EnrichMorePid extends UpdateMatcher<OaBrokerTypedValue> {
|
||||||
|
|
||||||
public EnrichMorePid() {
|
public EnrichMorePid() {
|
||||||
super(true,
|
super(true,
|
||||||
|
@ -20,8 +20,8 @@ public class EnrichMorePid extends UpdateMatcher<TypedValue> {
|
||||||
}
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
protected List<TypedValue> findDifferences(final OpenaireBrokerResult source,
|
protected List<OaBrokerTypedValue> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OpenaireBrokerResult target) {
|
final OaBrokerMainEntity target) {
|
||||||
final Set<String> existingPids = target
|
final Set<String> existingPids = target
|
||||||
.getPids()
|
.getPids()
|
||||||
.stream()
|
.stream()
|
||||||
|
@ -35,7 +35,7 @@ public class EnrichMorePid extends UpdateMatcher<TypedValue> {
|
||||||
.collect(Collectors.toList());
|
.collect(Collectors.toList());
|
||||||
}
|
}
|
||||||
|
|
||||||
private static String pidAsString(final TypedValue pid) {
|
private static String pidAsString(final OaBrokerTypedValue pid) {
|
||||||
return pid.getType() + "::" + pid.getValue();
|
return pid.getType() + "::" + pid.getValue();
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
|
|
|
@ -5,12 +5,12 @@ import java.util.List;
|
||||||
import java.util.Set;
|
import java.util.Set;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.broker.objects.TypedValue;
|
import eu.dnetlib.broker.objects.OaBrokerTypedValue;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
|
|
||||||
public class EnrichMoreSubject extends UpdateMatcher<TypedValue> {
|
public class EnrichMoreSubject extends UpdateMatcher<OaBrokerTypedValue> {
|
||||||
|
|
||||||
public EnrichMoreSubject() {
|
public EnrichMoreSubject() {
|
||||||
super(true,
|
super(true,
|
||||||
|
@ -20,8 +20,8 @@ public class EnrichMoreSubject extends UpdateMatcher<TypedValue> {
|
||||||
}
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
protected List<TypedValue> findDifferences(final OpenaireBrokerResult source,
|
protected List<OaBrokerTypedValue> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OpenaireBrokerResult target) {
|
final OaBrokerMainEntity target) {
|
||||||
final Set<String> existingSubjects = target
|
final Set<String> existingSubjects = target
|
||||||
.getSubjects()
|
.getSubjects()
|
||||||
.stream()
|
.stream()
|
||||||
|
@ -35,7 +35,7 @@ public class EnrichMoreSubject extends UpdateMatcher<TypedValue> {
|
||||||
.collect(Collectors.toList());
|
.collect(Collectors.toList());
|
||||||
}
|
}
|
||||||
|
|
||||||
private static String subjectAsString(final TypedValue s) {
|
private static String subjectAsString(final OaBrokerTypedValue s) {
|
||||||
return s.getType() + "::" + s.getValue();
|
return s.getType() + "::" + s.getValue();
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
|
|
|
@ -0,0 +1,47 @@
|
||||||
|
|
||||||
|
package eu.dnetlib.dhp.broker.oa.util;
|
||||||
|
|
||||||
|
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.SparkSession;
|
||||||
|
|
||||||
|
import com.fasterxml.jackson.databind.ObjectMapper;
|
||||||
|
|
||||||
|
import eu.dnetlib.dhp.common.HdfsSupport;
|
||||||
|
|
||||||
|
public class ClusterUtils {
|
||||||
|
|
||||||
|
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
|
||||||
|
|
||||||
|
public static void createDirIfMissing(final SparkSession spark, final String path) {
|
||||||
|
HdfsSupport.remove(path, spark.sparkContext().hadoopConfiguration());
|
||||||
|
}
|
||||||
|
|
||||||
|
public static void removeDir(final SparkSession spark, final String path) {
|
||||||
|
HdfsSupport.remove(path, spark.sparkContext().hadoopConfiguration());
|
||||||
|
}
|
||||||
|
|
||||||
|
public static <R> Dataset<R> readPath(
|
||||||
|
final SparkSession spark,
|
||||||
|
final String inputPath,
|
||||||
|
final Class<R> clazz) {
|
||||||
|
return spark
|
||||||
|
.read()
|
||||||
|
.textFile(inputPath)
|
||||||
|
.map((MapFunction<String, R>) value -> OBJECT_MAPPER.readValue(value, clazz), Encoders.bean(clazz));
|
||||||
|
}
|
||||||
|
|
||||||
|
public static boolean isDedupRoot(final String id) {
|
||||||
|
return id.contains("dedup_wf_");
|
||||||
|
}
|
||||||
|
|
||||||
|
public static final boolean isValidResultResultClass(final String s) {
|
||||||
|
return s.equals("isReferencedBy")
|
||||||
|
|| s.equals("isRelatedTo")
|
||||||
|
|| s.equals("references")
|
||||||
|
|| s.equals("isSupplementedBy")
|
||||||
|
|| s.equals("isSupplementedTo");
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -15,8 +15,16 @@ import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
import com.google.common.base.Function;
|
import com.google.common.base.Function;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerAuthor;
|
||||||
import eu.dnetlib.broker.objects.TypedValue;
|
import eu.dnetlib.broker.objects.OaBrokerExternalReference;
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerInstance;
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerJournal;
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerProject;
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerRelatedDataset;
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerRelatedPublication;
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerRelatedSoftware;
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerTypedValue;
|
||||||
import eu.dnetlib.dhp.schema.oaf.Author;
|
import eu.dnetlib.dhp.schema.oaf.Author;
|
||||||
import eu.dnetlib.dhp.schema.oaf.Dataset;
|
import eu.dnetlib.dhp.schema.oaf.Dataset;
|
||||||
import eu.dnetlib.dhp.schema.oaf.ExternalReference;
|
import eu.dnetlib.dhp.schema.oaf.ExternalReference;
|
||||||
|
@ -35,13 +43,13 @@ public class ConversionUtils {
|
||||||
|
|
||||||
private static final Logger log = LoggerFactory.getLogger(ConversionUtils.class);
|
private static final Logger log = LoggerFactory.getLogger(ConversionUtils.class);
|
||||||
|
|
||||||
public static List<eu.dnetlib.broker.objects.Instance> oafInstanceToBrokerInstances(final Instance i) {
|
public static List<OaBrokerInstance> oafInstanceToBrokerInstances(final Instance i) {
|
||||||
if (i == null) {
|
if (i == null) {
|
||||||
return new ArrayList<>();
|
return new ArrayList<>();
|
||||||
}
|
}
|
||||||
|
|
||||||
return mappedList(i.getUrl(), url -> {
|
return mappedList(i.getUrl(), url -> {
|
||||||
final eu.dnetlib.broker.objects.Instance res = new eu.dnetlib.broker.objects.Instance();
|
final OaBrokerInstance res = new OaBrokerInstance();
|
||||||
res.setUrl(url);
|
res.setUrl(url);
|
||||||
res.setInstancetype(classId(i.getInstancetype()));
|
res.setInstancetype(classId(i.getInstancetype()));
|
||||||
res.setLicense(BrokerConstants.OPEN_ACCESS);
|
res.setLicense(BrokerConstants.OPEN_ACCESS);
|
||||||
|
@ -50,20 +58,21 @@ public class ConversionUtils {
|
||||||
});
|
});
|
||||||
}
|
}
|
||||||
|
|
||||||
public static TypedValue oafPidToBrokerPid(final StructuredProperty sp) {
|
public static OaBrokerTypedValue oafPidToBrokerPid(final StructuredProperty sp) {
|
||||||
return oafStructPropToBrokerTypedValue(sp);
|
return oafStructPropToBrokerTypedValue(sp);
|
||||||
}
|
}
|
||||||
|
|
||||||
public static TypedValue oafStructPropToBrokerTypedValue(final StructuredProperty sp) {
|
public static OaBrokerTypedValue oafStructPropToBrokerTypedValue(final StructuredProperty sp) {
|
||||||
return sp != null ? new TypedValue(classId(sp.getQualifier()), sp.getValue()) : null;
|
return sp != null ? new OaBrokerTypedValue(classId(sp.getQualifier()), sp.getValue()) : null;
|
||||||
}
|
}
|
||||||
|
|
||||||
public static final eu.dnetlib.broker.objects.Dataset oafDatasetToBrokerDataset(final Dataset d) {
|
public static final OaBrokerRelatedDataset oafDatasetToBrokerDataset(final Dataset d) {
|
||||||
if (d == null) {
|
if (d == null) {
|
||||||
return null;
|
return null;
|
||||||
}
|
}
|
||||||
|
|
||||||
final eu.dnetlib.broker.objects.Dataset res = new eu.dnetlib.broker.objects.Dataset();
|
final OaBrokerRelatedDataset res = new OaBrokerRelatedDataset();
|
||||||
|
res.setOpenaireId(d.getId());
|
||||||
res.setOriginalId(first(d.getOriginalId()));
|
res.setOriginalId(first(d.getOriginalId()));
|
||||||
res.setTitle(structPropValue(d.getTitle()));
|
res.setTitle(structPropValue(d.getTitle()));
|
||||||
res.setPids(mappedList(d.getPid(), ConversionUtils::oafPidToBrokerPid));
|
res.setPids(mappedList(d.getPid(), ConversionUtils::oafPidToBrokerPid));
|
||||||
|
@ -72,12 +81,13 @@ public class ConversionUtils {
|
||||||
return res;
|
return res;
|
||||||
}
|
}
|
||||||
|
|
||||||
public static eu.dnetlib.broker.objects.Publication oafPublicationToBrokerPublication(final Publication p) {
|
public static OaBrokerRelatedPublication oafPublicationToBrokerPublication(final Publication p) {
|
||||||
if (p == null) {
|
if (p == null) {
|
||||||
return null;
|
return null;
|
||||||
}
|
}
|
||||||
|
|
||||||
final eu.dnetlib.broker.objects.Publication res = new eu.dnetlib.broker.objects.Publication();
|
final OaBrokerRelatedPublication res = new OaBrokerRelatedPublication();
|
||||||
|
res.setOpenaireId(p.getId());
|
||||||
res.setOriginalId(first(p.getOriginalId()));
|
res.setOriginalId(first(p.getOriginalId()));
|
||||||
res.setTitle(structPropValue(p.getTitle()));
|
res.setTitle(structPropValue(p.getTitle()));
|
||||||
res.setPids(mappedList(p.getPid(), ConversionUtils::oafPidToBrokerPid));
|
res.setPids(mappedList(p.getPid(), ConversionUtils::oafPidToBrokerPid));
|
||||||
|
@ -87,12 +97,12 @@ public class ConversionUtils {
|
||||||
return res;
|
return res;
|
||||||
}
|
}
|
||||||
|
|
||||||
public static final OpenaireBrokerResult oafResultToBrokerResult(final Result result) {
|
public static final OaBrokerMainEntity oafResultToBrokerResult(final Result result) {
|
||||||
if (result == null) {
|
if (result == null) {
|
||||||
return null;
|
return null;
|
||||||
}
|
}
|
||||||
|
|
||||||
final OpenaireBrokerResult res = new OpenaireBrokerResult();
|
final OaBrokerMainEntity res = new OaBrokerMainEntity();
|
||||||
|
|
||||||
res.setOpenaireId(result.getId());
|
res.setOpenaireId(result.getId());
|
||||||
res.setOriginalId(first(result.getOriginalId()));
|
res.setOriginalId(first(result.getOriginalId()));
|
||||||
|
@ -118,7 +128,7 @@ public class ConversionUtils {
|
||||||
return res;
|
return res;
|
||||||
}
|
}
|
||||||
|
|
||||||
private static eu.dnetlib.broker.objects.Author oafAuthorToBrokerAuthor(final Author author) {
|
private static OaBrokerAuthor oafAuthorToBrokerAuthor(final Author author) {
|
||||||
if (author == null) {
|
if (author == null) {
|
||||||
return null;
|
return null;
|
||||||
}
|
}
|
||||||
|
@ -135,15 +145,15 @@ public class ConversionUtils {
|
||||||
.findFirst()
|
.findFirst()
|
||||||
.orElse(null) : null;
|
.orElse(null) : null;
|
||||||
|
|
||||||
return new eu.dnetlib.broker.objects.Author(author.getFullname(), pids);
|
return new OaBrokerAuthor(author.getFullname(), pids);
|
||||||
}
|
}
|
||||||
|
|
||||||
private static eu.dnetlib.broker.objects.Journal oafJournalToBrokerJournal(final Journal journal) {
|
private static OaBrokerJournal oafJournalToBrokerJournal(final Journal journal) {
|
||||||
if (journal == null) {
|
if (journal == null) {
|
||||||
return null;
|
return null;
|
||||||
}
|
}
|
||||||
|
|
||||||
final eu.dnetlib.broker.objects.Journal res = new eu.dnetlib.broker.objects.Journal();
|
final OaBrokerJournal res = new OaBrokerJournal();
|
||||||
res.setName(journal.getName());
|
res.setName(journal.getName());
|
||||||
res.setIssn(journal.getIssnPrinted());
|
res.setIssn(journal.getIssnPrinted());
|
||||||
res.setEissn(journal.getIssnOnline());
|
res.setEissn(journal.getIssnOnline());
|
||||||
|
@ -152,12 +162,12 @@ public class ConversionUtils {
|
||||||
return res;
|
return res;
|
||||||
}
|
}
|
||||||
|
|
||||||
private static eu.dnetlib.broker.objects.ExternalReference oafExtRefToBrokerExtRef(final ExternalReference ref) {
|
private static OaBrokerExternalReference oafExtRefToBrokerExtRef(final ExternalReference ref) {
|
||||||
if (ref == null) {
|
if (ref == null) {
|
||||||
return null;
|
return null;
|
||||||
}
|
}
|
||||||
|
|
||||||
final eu.dnetlib.broker.objects.ExternalReference res = new eu.dnetlib.broker.objects.ExternalReference();
|
final OaBrokerExternalReference res = new OaBrokerExternalReference();
|
||||||
res.setRefidentifier(ref.getRefidentifier());
|
res.setRefidentifier(ref.getRefidentifier());
|
||||||
res.setSitename(ref.getSitename());
|
res.setSitename(ref.getSitename());
|
||||||
res.setType(classId(ref.getQualifier()));
|
res.setType(classId(ref.getQualifier()));
|
||||||
|
@ -165,12 +175,13 @@ public class ConversionUtils {
|
||||||
return res;
|
return res;
|
||||||
}
|
}
|
||||||
|
|
||||||
public static final eu.dnetlib.broker.objects.Project oafProjectToBrokerProject(final Project p) {
|
public static final OaBrokerProject oafProjectToBrokerProject(final Project p) {
|
||||||
if (p == null) {
|
if (p == null) {
|
||||||
return null;
|
return null;
|
||||||
}
|
}
|
||||||
|
|
||||||
final eu.dnetlib.broker.objects.Project res = new eu.dnetlib.broker.objects.Project();
|
final OaBrokerProject res = new OaBrokerProject();
|
||||||
|
res.setOpenaireId(p.getId());
|
||||||
res.setTitle(fieldValue(p.getTitle()));
|
res.setTitle(fieldValue(p.getTitle()));
|
||||||
res.setAcronym(fieldValue(p.getAcronym()));
|
res.setAcronym(fieldValue(p.getAcronym()));
|
||||||
res.setCode(fieldValue(p.getCode()));
|
res.setCode(fieldValue(p.getCode()));
|
||||||
|
@ -190,12 +201,13 @@ public class ConversionUtils {
|
||||||
return res;
|
return res;
|
||||||
}
|
}
|
||||||
|
|
||||||
public static final eu.dnetlib.broker.objects.Software oafSoftwareToBrokerSoftware(final Software sw) {
|
public static final OaBrokerRelatedSoftware oafSoftwareToBrokerSoftware(final Software sw) {
|
||||||
if (sw == null) {
|
if (sw == null) {
|
||||||
return null;
|
return null;
|
||||||
}
|
}
|
||||||
|
|
||||||
final eu.dnetlib.broker.objects.Software res = new eu.dnetlib.broker.objects.Software();
|
final OaBrokerRelatedSoftware res = new OaBrokerRelatedSoftware();
|
||||||
|
res.setOpenaireId(sw.getId());
|
||||||
res.setName(structPropValue(sw.getTitle()));
|
res.setName(structPropValue(sw.getTitle()));
|
||||||
res.setDescription(fieldValue(sw.getDescription()));
|
res.setDescription(fieldValue(sw.getDescription()));
|
||||||
res.setRepository(fieldValue(sw.getCodeRepositoryUrl()));
|
res.setRepository(fieldValue(sw.getCodeRepositoryUrl()));
|
||||||
|
@ -247,7 +259,7 @@ public class ConversionUtils {
|
||||||
: new ArrayList<>();
|
: new ArrayList<>();
|
||||||
}
|
}
|
||||||
|
|
||||||
private static List<TypedValue> structPropTypedList(final List<StructuredProperty> list) {
|
private static List<OaBrokerTypedValue> structPropTypedList(final List<StructuredProperty> list) {
|
||||||
if (list == null) {
|
if (list == null) {
|
||||||
return new ArrayList<>();
|
return new ArrayList<>();
|
||||||
}
|
}
|
||||||
|
|
|
@ -4,7 +4,7 @@ package eu.dnetlib.dhp.broker.oa.util;
|
||||||
import java.util.ArrayList;
|
import java.util.ArrayList;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.dhp.broker.model.EventFactory;
|
import eu.dnetlib.dhp.broker.model.EventFactory;
|
||||||
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
import eu.dnetlib.dhp.broker.oa.matchers.relatedDatasets.EnrichMissingDatasetIsReferencedBy;
|
import eu.dnetlib.dhp.broker.oa.matchers.relatedDatasets.EnrichMissingDatasetIsReferencedBy;
|
||||||
|
@ -68,7 +68,7 @@ public class EventFinder {
|
||||||
public static EventGroup generateEvents(final ResultGroup results, final DedupConfig dedupConfig) {
|
public static EventGroup generateEvents(final ResultGroup results, final DedupConfig dedupConfig) {
|
||||||
final List<UpdateInfo<?>> list = new ArrayList<>();
|
final List<UpdateInfo<?>> list = new ArrayList<>();
|
||||||
|
|
||||||
for (final OpenaireBrokerResult target : results.getData()) {
|
for (final OaBrokerMainEntity target : results.getData()) {
|
||||||
for (final UpdateMatcher<?> matcher : matchers) {
|
for (final UpdateMatcher<?> matcher : matchers) {
|
||||||
list.addAll(matcher.searchUpdatesForRecord(target, results.getData(), dedupConfig));
|
list.addAll(matcher.searchUpdatesForRecord(target, results.getData(), dedupConfig));
|
||||||
}
|
}
|
||||||
|
|
|
@ -9,10 +9,10 @@ import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
import com.fasterxml.jackson.databind.ObjectMapper;
|
import com.fasterxml.jackson.databind.ObjectMapper;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.Instance;
|
import eu.dnetlib.broker.objects.OaBrokerEventPayload;
|
||||||
import eu.dnetlib.broker.objects.OpenAireEventPayload;
|
import eu.dnetlib.broker.objects.OaBrokerInstance;
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.broker.objects.Provenance;
|
import eu.dnetlib.broker.objects.OaBrokerProvenance;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
import eu.dnetlib.pace.config.DedupConfig;
|
import eu.dnetlib.pace.config.DedupConfig;
|
||||||
import eu.dnetlib.pace.model.MapDocument;
|
import eu.dnetlib.pace.model.MapDocument;
|
||||||
|
@ -25,11 +25,11 @@ public final class UpdateInfo<T> {
|
||||||
|
|
||||||
private final T highlightValue;
|
private final T highlightValue;
|
||||||
|
|
||||||
private final OpenaireBrokerResult source;
|
private final OaBrokerMainEntity source;
|
||||||
|
|
||||||
private final OpenaireBrokerResult target;
|
private final OaBrokerMainEntity target;
|
||||||
|
|
||||||
private final BiConsumer<OpenaireBrokerResult, T> compileHighlight;
|
private final BiConsumer<OaBrokerMainEntity, T> compileHighlight;
|
||||||
|
|
||||||
private final Function<T, String> highlightToString;
|
private final Function<T, String> highlightToString;
|
||||||
|
|
||||||
|
@ -37,9 +37,9 @@ public final class UpdateInfo<T> {
|
||||||
|
|
||||||
private static final Logger log = LoggerFactory.getLogger(UpdateInfo.class);
|
private static final Logger log = LoggerFactory.getLogger(UpdateInfo.class);
|
||||||
|
|
||||||
public UpdateInfo(final Topic topic, final T highlightValue, final OpenaireBrokerResult source,
|
public UpdateInfo(final Topic topic, final T highlightValue, final OaBrokerMainEntity source,
|
||||||
final OpenaireBrokerResult target,
|
final OaBrokerMainEntity target,
|
||||||
final BiConsumer<OpenaireBrokerResult, T> compileHighlight,
|
final BiConsumer<OaBrokerMainEntity, T> compileHighlight,
|
||||||
final Function<T, String> highlightToString,
|
final Function<T, String> highlightToString,
|
||||||
final DedupConfig dedupConfig) {
|
final DedupConfig dedupConfig) {
|
||||||
this.topic = topic;
|
this.topic = topic;
|
||||||
|
@ -55,17 +55,17 @@ public final class UpdateInfo<T> {
|
||||||
return highlightValue;
|
return highlightValue;
|
||||||
}
|
}
|
||||||
|
|
||||||
public OpenaireBrokerResult getSource() {
|
public OaBrokerMainEntity getSource() {
|
||||||
return source;
|
return source;
|
||||||
}
|
}
|
||||||
|
|
||||||
public OpenaireBrokerResult getTarget() {
|
public OaBrokerMainEntity getTarget() {
|
||||||
return target;
|
return target;
|
||||||
}
|
}
|
||||||
|
|
||||||
private float calculateTrust(final DedupConfig dedupConfig,
|
private float calculateTrust(final DedupConfig dedupConfig,
|
||||||
final OpenaireBrokerResult r1,
|
final OaBrokerMainEntity r1,
|
||||||
final OpenaireBrokerResult r2) {
|
final OaBrokerMainEntity r2) {
|
||||||
|
|
||||||
if (dedupConfig == null) {
|
if (dedupConfig == null) {
|
||||||
return BrokerConstants.MIN_TRUST;
|
return BrokerConstants.MIN_TRUST;
|
||||||
|
@ -104,11 +104,11 @@ public final class UpdateInfo<T> {
|
||||||
return highlightToString.apply(getHighlightValue());
|
return highlightToString.apply(getHighlightValue());
|
||||||
}
|
}
|
||||||
|
|
||||||
public OpenAireEventPayload asBrokerPayload() {
|
public OaBrokerEventPayload asBrokerPayload() {
|
||||||
|
|
||||||
compileHighlight.accept(target, getHighlightValue());
|
compileHighlight.accept(target, getHighlightValue());
|
||||||
|
|
||||||
final OpenaireBrokerResult hl = new OpenaireBrokerResult();
|
final OaBrokerMainEntity hl = new OaBrokerMainEntity();
|
||||||
compileHighlight.accept(hl, getHighlightValue());
|
compileHighlight.accept(hl, getHighlightValue());
|
||||||
|
|
||||||
final String provId = getSource().getOriginalId();
|
final String provId = getSource().getOriginalId();
|
||||||
|
@ -117,14 +117,14 @@ public final class UpdateInfo<T> {
|
||||||
final String provUrl = getSource()
|
final String provUrl = getSource()
|
||||||
.getInstances()
|
.getInstances()
|
||||||
.stream()
|
.stream()
|
||||||
.map(Instance::getUrl)
|
.map(OaBrokerInstance::getUrl)
|
||||||
.findFirst()
|
.findFirst()
|
||||||
.orElse(null);
|
.orElse(null);
|
||||||
;
|
;
|
||||||
|
|
||||||
final Provenance provenance = new Provenance(provId, provRepo, provUrl);
|
final OaBrokerProvenance provenance = new OaBrokerProvenance(provId, provRepo, provUrl);
|
||||||
|
|
||||||
final OpenAireEventPayload res = new OpenAireEventPayload();
|
final OaBrokerEventPayload res = new OaBrokerEventPayload();
|
||||||
res.setResult(target);
|
res.setResult(target);
|
||||||
res.setHighlight(hl);
|
res.setHighlight(hl);
|
||||||
res.setTrust(trust);
|
res.setTrust(trust);
|
||||||
|
|
|
@ -5,11 +5,11 @@ import org.apache.spark.sql.Encoder;
|
||||||
import org.apache.spark.sql.Encoders;
|
import org.apache.spark.sql.Encoders;
|
||||||
import org.apache.spark.sql.expressions.Aggregator;
|
import org.apache.spark.sql.expressions.Aggregator;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.dhp.schema.oaf.Relation;
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
||||||
import scala.Tuple2;
|
import scala.Tuple2;
|
||||||
|
|
||||||
public class ResultAggregator extends Aggregator<Tuple2<OpenaireBrokerResult, Relation>, ResultGroup, ResultGroup> {
|
public class ResultAggregator extends Aggregator<Tuple2<OaBrokerMainEntity, Relation>, ResultGroup, ResultGroup> {
|
||||||
|
|
||||||
/**
|
/**
|
||||||
*
|
*
|
||||||
|
@ -22,7 +22,7 @@ public class ResultAggregator extends Aggregator<Tuple2<OpenaireBrokerResult, Re
|
||||||
}
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
public ResultGroup reduce(final ResultGroup group, final Tuple2<OpenaireBrokerResult, Relation> t) {
|
public ResultGroup reduce(final ResultGroup group, final Tuple2<OaBrokerMainEntity, Relation> t) {
|
||||||
group.getData().add(t._1);
|
group.getData().add(t._1);
|
||||||
return group;
|
return group;
|
||||||
}
|
}
|
||||||
|
|
|
@ -5,7 +5,7 @@ import java.io.Serializable;
|
||||||
import java.util.ArrayList;
|
import java.util.ArrayList;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
|
|
||||||
public class ResultGroup implements Serializable {
|
public class ResultGroup implements Serializable {
|
||||||
|
|
||||||
|
@ -14,13 +14,13 @@ public class ResultGroup implements Serializable {
|
||||||
*/
|
*/
|
||||||
private static final long serialVersionUID = -3360828477088669296L;
|
private static final long serialVersionUID = -3360828477088669296L;
|
||||||
|
|
||||||
private List<OpenaireBrokerResult> data = new ArrayList<>();
|
private List<OaBrokerMainEntity> data = new ArrayList<>();
|
||||||
|
|
||||||
public List<OpenaireBrokerResult> getData() {
|
public List<OaBrokerMainEntity> getData() {
|
||||||
return data;
|
return data;
|
||||||
}
|
}
|
||||||
|
|
||||||
public void setData(final List<OpenaireBrokerResult> data) {
|
public void setData(final List<OaBrokerMainEntity> data) {
|
||||||
this.data = data;
|
this.data = data;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
|
@ -1,69 +0,0 @@
|
||||||
|
|
||||||
package eu.dnetlib.dhp.broker.oa.util.aggregators.withRels;
|
|
||||||
|
|
||||||
import org.apache.spark.sql.Encoder;
|
|
||||||
import org.apache.spark.sql.Encoders;
|
|
||||||
import org.apache.spark.sql.expressions.Aggregator;
|
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OpenaireBrokerResult;
|
|
||||||
import scala.Tuple2;
|
|
||||||
|
|
||||||
public class OpenaireBrokerResultAggregator<T>
|
|
||||||
extends Aggregator<Tuple2<OpenaireBrokerResult, T>, OpenaireBrokerResult, OpenaireBrokerResult> {
|
|
||||||
|
|
||||||
/**
|
|
||||||
*
|
|
||||||
*/
|
|
||||||
private static final long serialVersionUID = -3687878788861013488L;
|
|
||||||
|
|
||||||
@Override
|
|
||||||
public OpenaireBrokerResult zero() {
|
|
||||||
return new OpenaireBrokerResult();
|
|
||||||
}
|
|
||||||
|
|
||||||
@Override
|
|
||||||
public OpenaireBrokerResult finish(final OpenaireBrokerResult g) {
|
|
||||||
return g;
|
|
||||||
}
|
|
||||||
|
|
||||||
@Override
|
|
||||||
public OpenaireBrokerResult reduce(final OpenaireBrokerResult g, final Tuple2<OpenaireBrokerResult, T> t) {
|
|
||||||
if (g.getOriginalId() == null) {
|
|
||||||
return t._1;
|
|
||||||
} else if (t._2 instanceof RelatedSoftware) {
|
|
||||||
g.getSoftwares().add(((RelatedSoftware) t._2).getRelSoftware());
|
|
||||||
} else if (t._2 instanceof RelatedDataset) {
|
|
||||||
g.getDatasets().add(((RelatedDataset) t._2).getRelDataset());
|
|
||||||
} else if (t._2 instanceof RelatedPublication) {
|
|
||||||
g.getPublications().add(((RelatedPublication) t._2).getRelPublication());
|
|
||||||
} else if (t._2 instanceof RelatedProject) {
|
|
||||||
g.getProjects().add(((RelatedProject) t._2).getRelProject());
|
|
||||||
}
|
|
||||||
return g;
|
|
||||||
|
|
||||||
}
|
|
||||||
|
|
||||||
@Override
|
|
||||||
public OpenaireBrokerResult merge(final OpenaireBrokerResult g1, final OpenaireBrokerResult g2) {
|
|
||||||
if (g1.getOriginalId() != null) {
|
|
||||||
g1.getSoftwares().addAll(g2.getSoftwares());
|
|
||||||
g1.getDatasets().addAll(g2.getDatasets());
|
|
||||||
g1.getPublications().addAll(g2.getPublications());
|
|
||||||
g1.getProjects().addAll(g2.getProjects());
|
|
||||||
return g1;
|
|
||||||
} else {
|
|
||||||
return g2;
|
|
||||||
}
|
|
||||||
}
|
|
||||||
|
|
||||||
@Override
|
|
||||||
public Encoder<OpenaireBrokerResult> bufferEncoder() {
|
|
||||||
return Encoders.bean(OpenaireBrokerResult.class);
|
|
||||||
}
|
|
||||||
|
|
||||||
@Override
|
|
||||||
public Encoder<OpenaireBrokerResult> outputEncoder() {
|
|
||||||
return Encoders.bean(OpenaireBrokerResult.class);
|
|
||||||
}
|
|
||||||
|
|
||||||
}
|
|
|
@ -3,7 +3,7 @@ package eu.dnetlib.dhp.broker.oa.util.aggregators.withRels;
|
||||||
|
|
||||||
import java.io.Serializable;
|
import java.io.Serializable;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.Dataset;
|
import eu.dnetlib.broker.objects.OaBrokerRelatedDataset;
|
||||||
|
|
||||||
public class RelatedDataset implements Serializable {
|
public class RelatedDataset implements Serializable {
|
||||||
|
|
||||||
|
@ -11,16 +11,15 @@ public class RelatedDataset implements Serializable {
|
||||||
*
|
*
|
||||||
*/
|
*/
|
||||||
private static final long serialVersionUID = 774487705184038324L;
|
private static final long serialVersionUID = 774487705184038324L;
|
||||||
|
|
||||||
private String source;
|
private String source;
|
||||||
private String relType;
|
private OaBrokerRelatedDataset relDataset;
|
||||||
private Dataset relDataset;
|
|
||||||
|
|
||||||
public RelatedDataset() {
|
public RelatedDataset() {
|
||||||
}
|
}
|
||||||
|
|
||||||
public RelatedDataset(final String source, final String relType, final Dataset relDataset) {
|
public RelatedDataset(final String source, final OaBrokerRelatedDataset relDataset) {
|
||||||
this.source = source;
|
this.source = source;
|
||||||
this.relType = relType;
|
|
||||||
this.relDataset = relDataset;
|
this.relDataset = relDataset;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@ -32,19 +31,11 @@ public class RelatedDataset implements Serializable {
|
||||||
this.source = source;
|
this.source = source;
|
||||||
}
|
}
|
||||||
|
|
||||||
public String getRelType() {
|
public OaBrokerRelatedDataset getRelDataset() {
|
||||||
return relType;
|
|
||||||
}
|
|
||||||
|
|
||||||
public void setRelType(final String relType) {
|
|
||||||
this.relType = relType;
|
|
||||||
}
|
|
||||||
|
|
||||||
public Dataset getRelDataset() {
|
|
||||||
return relDataset;
|
return relDataset;
|
||||||
}
|
}
|
||||||
|
|
||||||
public void setRelDataset(final Dataset relDataset) {
|
public void setRelDataset(final OaBrokerRelatedDataset relDataset) {
|
||||||
this.relDataset = relDataset;
|
this.relDataset = relDataset;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
|
@ -0,0 +1,60 @@
|
||||||
|
|
||||||
|
package eu.dnetlib.dhp.broker.oa.util.aggregators.withRels;
|
||||||
|
|
||||||
|
import org.apache.commons.lang3.StringUtils;
|
||||||
|
import org.apache.spark.sql.Encoder;
|
||||||
|
import org.apache.spark.sql.Encoders;
|
||||||
|
import org.apache.spark.sql.expressions.Aggregator;
|
||||||
|
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
|
import scala.Tuple2;
|
||||||
|
|
||||||
|
public class RelatedDatasetAggregator
|
||||||
|
extends Aggregator<Tuple2<OaBrokerMainEntity, RelatedDataset>, OaBrokerMainEntity, OaBrokerMainEntity> {
|
||||||
|
|
||||||
|
/**
|
||||||
|
*
|
||||||
|
*/
|
||||||
|
private static final long serialVersionUID = 6969761680131482557L;
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity zero() {
|
||||||
|
return new OaBrokerMainEntity();
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity finish(final OaBrokerMainEntity g) {
|
||||||
|
return g;
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity reduce(final OaBrokerMainEntity g, final Tuple2<OaBrokerMainEntity, RelatedDataset> t) {
|
||||||
|
final OaBrokerMainEntity res = StringUtils.isNotBlank(g.getOpenaireId()) ? g : t._1;
|
||||||
|
if (t._2 != null) {
|
||||||
|
res.getDatasets().add(t._2.getRelDataset());
|
||||||
|
}
|
||||||
|
return res;
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity merge(final OaBrokerMainEntity g1, final OaBrokerMainEntity g2) {
|
||||||
|
if (StringUtils.isNotBlank(g1.getOpenaireId())) {
|
||||||
|
g1.getDatasets().addAll(g2.getDatasets());
|
||||||
|
return g1;
|
||||||
|
} else {
|
||||||
|
return g2;
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public Encoder<OaBrokerMainEntity> bufferEncoder() {
|
||||||
|
return Encoders.bean(OaBrokerMainEntity.class);
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public Encoder<OaBrokerMainEntity> outputEncoder() {
|
||||||
|
return Encoders.bean(OaBrokerMainEntity.class);
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -1,34 +0,0 @@
|
||||||
|
|
||||||
package eu.dnetlib.dhp.broker.oa.util.aggregators.withRels;
|
|
||||||
|
|
||||||
import eu.dnetlib.dhp.broker.oa.util.ConversionUtils;
|
|
||||||
import eu.dnetlib.dhp.schema.oaf.Dataset;
|
|
||||||
import eu.dnetlib.dhp.schema.oaf.Project;
|
|
||||||
import eu.dnetlib.dhp.schema.oaf.Publication;
|
|
||||||
import eu.dnetlib.dhp.schema.oaf.Software;
|
|
||||||
|
|
||||||
public class RelatedEntityFactory {
|
|
||||||
|
|
||||||
@SuppressWarnings("unchecked")
|
|
||||||
public static <RT, T> RT newRelatedEntity(final String sourceId,
|
|
||||||
final String relType,
|
|
||||||
final T target,
|
|
||||||
final Class<RT> clazz) {
|
|
||||||
|
|
||||||
if (clazz == RelatedProject.class) {
|
|
||||||
return (RT) new RelatedProject(sourceId, relType,
|
|
||||||
ConversionUtils.oafProjectToBrokerProject((Project) target));
|
|
||||||
} else if (clazz == RelatedSoftware.class) {
|
|
||||||
return (RT) new RelatedSoftware(sourceId, relType,
|
|
||||||
ConversionUtils.oafSoftwareToBrokerSoftware((Software) target));
|
|
||||||
} else if (clazz == RelatedDataset.class) {
|
|
||||||
return (RT) new RelatedDataset(sourceId, relType,
|
|
||||||
ConversionUtils.oafDatasetToBrokerDataset((Dataset) target));
|
|
||||||
} else if (clazz == RelatedPublication.class) {
|
|
||||||
return (RT) new RelatedPublication(sourceId, relType,
|
|
||||||
ConversionUtils.oafPublicationToBrokerPublication((Publication) target));
|
|
||||||
} else {
|
|
||||||
return null;
|
|
||||||
}
|
|
||||||
}
|
|
||||||
}
|
|
|
@ -3,7 +3,7 @@ package eu.dnetlib.dhp.broker.oa.util.aggregators.withRels;
|
||||||
|
|
||||||
import java.io.Serializable;
|
import java.io.Serializable;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.Project;
|
import eu.dnetlib.broker.objects.OaBrokerProject;
|
||||||
|
|
||||||
public class RelatedProject implements Serializable {
|
public class RelatedProject implements Serializable {
|
||||||
|
|
||||||
|
@ -13,15 +13,13 @@ public class RelatedProject implements Serializable {
|
||||||
private static final long serialVersionUID = 4941437626549329870L;
|
private static final long serialVersionUID = 4941437626549329870L;
|
||||||
|
|
||||||
private String source;
|
private String source;
|
||||||
private String relType;
|
private OaBrokerProject relProject;
|
||||||
private Project relProject;
|
|
||||||
|
|
||||||
public RelatedProject() {
|
public RelatedProject() {
|
||||||
}
|
}
|
||||||
|
|
||||||
public RelatedProject(final String source, final String relType, final Project relProject) {
|
public RelatedProject(final String source, final OaBrokerProject relProject) {
|
||||||
this.source = source;
|
this.source = source;
|
||||||
this.relType = relType;
|
|
||||||
this.relProject = relProject;
|
this.relProject = relProject;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@ -33,19 +31,11 @@ public class RelatedProject implements Serializable {
|
||||||
this.source = source;
|
this.source = source;
|
||||||
}
|
}
|
||||||
|
|
||||||
public String getRelType() {
|
public OaBrokerProject getRelProject() {
|
||||||
return relType;
|
|
||||||
}
|
|
||||||
|
|
||||||
public void setRelType(final String relType) {
|
|
||||||
this.relType = relType;
|
|
||||||
}
|
|
||||||
|
|
||||||
public Project getRelProject() {
|
|
||||||
return relProject;
|
return relProject;
|
||||||
}
|
}
|
||||||
|
|
||||||
public void setRelProject(final Project relProject) {
|
public void setRelProject(final OaBrokerProject relProject) {
|
||||||
this.relProject = relProject;
|
this.relProject = relProject;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
|
@ -0,0 +1,60 @@
|
||||||
|
|
||||||
|
package eu.dnetlib.dhp.broker.oa.util.aggregators.withRels;
|
||||||
|
|
||||||
|
import org.apache.commons.lang3.StringUtils;
|
||||||
|
import org.apache.spark.sql.Encoder;
|
||||||
|
import org.apache.spark.sql.Encoders;
|
||||||
|
import org.apache.spark.sql.expressions.Aggregator;
|
||||||
|
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
|
import scala.Tuple2;
|
||||||
|
|
||||||
|
public class RelatedProjectAggregator
|
||||||
|
extends Aggregator<Tuple2<OaBrokerMainEntity, RelatedProject>, OaBrokerMainEntity, OaBrokerMainEntity> {
|
||||||
|
|
||||||
|
/**
|
||||||
|
*
|
||||||
|
*/
|
||||||
|
private static final long serialVersionUID = 8559808519152275763L;
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity zero() {
|
||||||
|
return new OaBrokerMainEntity();
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity finish(final OaBrokerMainEntity g) {
|
||||||
|
return g;
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity reduce(final OaBrokerMainEntity g, final Tuple2<OaBrokerMainEntity, RelatedProject> t) {
|
||||||
|
final OaBrokerMainEntity res = StringUtils.isNotBlank(g.getOpenaireId()) ? g : t._1;
|
||||||
|
if (t._2 != null) {
|
||||||
|
res.getProjects().add(t._2.getRelProject());
|
||||||
|
}
|
||||||
|
return res;
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity merge(final OaBrokerMainEntity g1, final OaBrokerMainEntity g2) {
|
||||||
|
if (StringUtils.isNotBlank(g1.getOpenaireId())) {
|
||||||
|
g1.getProjects().addAll(g2.getProjects());
|
||||||
|
return g1;
|
||||||
|
} else {
|
||||||
|
return g2;
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public Encoder<OaBrokerMainEntity> bufferEncoder() {
|
||||||
|
return Encoders.bean(OaBrokerMainEntity.class);
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public Encoder<OaBrokerMainEntity> outputEncoder() {
|
||||||
|
return Encoders.bean(OaBrokerMainEntity.class);
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -3,7 +3,7 @@ package eu.dnetlib.dhp.broker.oa.util.aggregators.withRels;
|
||||||
|
|
||||||
import java.io.Serializable;
|
import java.io.Serializable;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.Publication;
|
import eu.dnetlib.broker.objects.OaBrokerRelatedPublication;
|
||||||
|
|
||||||
public class RelatedPublication implements Serializable {
|
public class RelatedPublication implements Serializable {
|
||||||
|
|
||||||
|
@ -13,15 +13,13 @@ public class RelatedPublication implements Serializable {
|
||||||
private static final long serialVersionUID = 9021609640411395128L;
|
private static final long serialVersionUID = 9021609640411395128L;
|
||||||
|
|
||||||
private String source;
|
private String source;
|
||||||
private String relType;
|
private OaBrokerRelatedPublication relPublication;
|
||||||
private Publication relPublication;
|
|
||||||
|
|
||||||
public RelatedPublication() {
|
public RelatedPublication() {
|
||||||
}
|
}
|
||||||
|
|
||||||
public RelatedPublication(final String source, final String relType, final Publication relPublication) {
|
public RelatedPublication(final String source, final OaBrokerRelatedPublication relPublication) {
|
||||||
this.source = source;
|
this.source = source;
|
||||||
this.relType = relType;
|
|
||||||
this.relPublication = relPublication;
|
this.relPublication = relPublication;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@ -33,19 +31,11 @@ public class RelatedPublication implements Serializable {
|
||||||
this.source = source;
|
this.source = source;
|
||||||
}
|
}
|
||||||
|
|
||||||
public String getRelType() {
|
public OaBrokerRelatedPublication getRelPublication() {
|
||||||
return relType;
|
|
||||||
}
|
|
||||||
|
|
||||||
public void setRelType(final String relType) {
|
|
||||||
this.relType = relType;
|
|
||||||
}
|
|
||||||
|
|
||||||
public Publication getRelPublication() {
|
|
||||||
return relPublication;
|
return relPublication;
|
||||||
}
|
}
|
||||||
|
|
||||||
public void setRelPublication(final Publication relPublication) {
|
public void setRelPublication(final OaBrokerRelatedPublication relPublication) {
|
||||||
this.relPublication = relPublication;
|
this.relPublication = relPublication;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
|
@ -0,0 +1,61 @@
|
||||||
|
|
||||||
|
package eu.dnetlib.dhp.broker.oa.util.aggregators.withRels;
|
||||||
|
|
||||||
|
import org.apache.commons.lang3.StringUtils;
|
||||||
|
import org.apache.spark.sql.Encoder;
|
||||||
|
import org.apache.spark.sql.Encoders;
|
||||||
|
import org.apache.spark.sql.expressions.Aggregator;
|
||||||
|
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
|
import scala.Tuple2;
|
||||||
|
|
||||||
|
public class RelatedPublicationAggregator
|
||||||
|
extends Aggregator<Tuple2<OaBrokerMainEntity, RelatedPublication>, OaBrokerMainEntity, OaBrokerMainEntity> {
|
||||||
|
|
||||||
|
/**
|
||||||
|
*
|
||||||
|
*/
|
||||||
|
private static final long serialVersionUID = 4656934981558135919L;
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity zero() {
|
||||||
|
return new OaBrokerMainEntity();
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity finish(final OaBrokerMainEntity g) {
|
||||||
|
return g;
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity reduce(final OaBrokerMainEntity g,
|
||||||
|
final Tuple2<OaBrokerMainEntity, RelatedPublication> t) {
|
||||||
|
final OaBrokerMainEntity res = StringUtils.isNotBlank(g.getOpenaireId()) ? g : t._1;
|
||||||
|
if (t._2 != null) {
|
||||||
|
res.getPublications().add(t._2.getRelPublication());
|
||||||
|
}
|
||||||
|
return res;
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity merge(final OaBrokerMainEntity g1, final OaBrokerMainEntity g2) {
|
||||||
|
if (StringUtils.isNotBlank(g1.getOpenaireId())) {
|
||||||
|
g1.getPublications().addAll(g2.getPublications());
|
||||||
|
return g1;
|
||||||
|
} else {
|
||||||
|
return g2;
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public Encoder<OaBrokerMainEntity> bufferEncoder() {
|
||||||
|
return Encoders.bean(OaBrokerMainEntity.class);
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public Encoder<OaBrokerMainEntity> outputEncoder() {
|
||||||
|
return Encoders.bean(OaBrokerMainEntity.class);
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -3,7 +3,7 @@ package eu.dnetlib.dhp.broker.oa.util.aggregators.withRels;
|
||||||
|
|
||||||
import java.io.Serializable;
|
import java.io.Serializable;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.Software;
|
import eu.dnetlib.broker.objects.OaBrokerRelatedSoftware;
|
||||||
|
|
||||||
public class RelatedSoftware implements Serializable {
|
public class RelatedSoftware implements Serializable {
|
||||||
|
|
||||||
|
@ -11,16 +11,15 @@ public class RelatedSoftware implements Serializable {
|
||||||
*
|
*
|
||||||
*/
|
*/
|
||||||
private static final long serialVersionUID = 7573383356943300157L;
|
private static final long serialVersionUID = 7573383356943300157L;
|
||||||
|
|
||||||
private String source;
|
private String source;
|
||||||
private String relType;
|
private OaBrokerRelatedSoftware relSoftware;
|
||||||
private Software relSoftware;
|
|
||||||
|
|
||||||
public RelatedSoftware() {
|
public RelatedSoftware() {
|
||||||
}
|
}
|
||||||
|
|
||||||
public RelatedSoftware(final String source, final String relType, final Software relSoftware) {
|
public RelatedSoftware(final String source, final OaBrokerRelatedSoftware relSoftware) {
|
||||||
this.source = source;
|
this.source = source;
|
||||||
this.relType = relType;
|
|
||||||
this.relSoftware = relSoftware;
|
this.relSoftware = relSoftware;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@ -32,19 +31,11 @@ public class RelatedSoftware implements Serializable {
|
||||||
this.source = source;
|
this.source = source;
|
||||||
}
|
}
|
||||||
|
|
||||||
public String getRelType() {
|
public OaBrokerRelatedSoftware getRelSoftware() {
|
||||||
return relType;
|
|
||||||
}
|
|
||||||
|
|
||||||
public void setRelType(final String relType) {
|
|
||||||
this.relType = relType;
|
|
||||||
}
|
|
||||||
|
|
||||||
public Software getRelSoftware() {
|
|
||||||
return relSoftware;
|
return relSoftware;
|
||||||
}
|
}
|
||||||
|
|
||||||
public void setRelSoftware(final Software relSoftware) {
|
public void setRelSoftware(final OaBrokerRelatedSoftware relSoftware) {
|
||||||
this.relSoftware = relSoftware;
|
this.relSoftware = relSoftware;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
|
@ -0,0 +1,60 @@
|
||||||
|
|
||||||
|
package eu.dnetlib.dhp.broker.oa.util.aggregators.withRels;
|
||||||
|
|
||||||
|
import org.apache.commons.lang3.StringUtils;
|
||||||
|
import org.apache.spark.sql.Encoder;
|
||||||
|
import org.apache.spark.sql.Encoders;
|
||||||
|
import org.apache.spark.sql.expressions.Aggregator;
|
||||||
|
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
|
import scala.Tuple2;
|
||||||
|
|
||||||
|
public class RelatedSoftwareAggregator
|
||||||
|
extends Aggregator<Tuple2<OaBrokerMainEntity, RelatedSoftware>, OaBrokerMainEntity, OaBrokerMainEntity> {
|
||||||
|
|
||||||
|
/**
|
||||||
|
*
|
||||||
|
*/
|
||||||
|
private static final long serialVersionUID = -8987959389106443702L;
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity zero() {
|
||||||
|
return new OaBrokerMainEntity();
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity finish(final OaBrokerMainEntity g) {
|
||||||
|
return g;
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity reduce(final OaBrokerMainEntity g, final Tuple2<OaBrokerMainEntity, RelatedSoftware> t) {
|
||||||
|
final OaBrokerMainEntity res = StringUtils.isNotBlank(g.getOpenaireId()) ? g : t._1;
|
||||||
|
if (t._2 != null) {
|
||||||
|
res.getSoftwares().add(t._2.getRelSoftware());
|
||||||
|
}
|
||||||
|
return res;
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity merge(final OaBrokerMainEntity g1, final OaBrokerMainEntity g2) {
|
||||||
|
if (StringUtils.isNotBlank(g1.getOpenaireId())) {
|
||||||
|
g1.getSoftwares().addAll(g2.getSoftwares());
|
||||||
|
return g1;
|
||||||
|
} else {
|
||||||
|
return g2;
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public Encoder<OaBrokerMainEntity> bufferEncoder() {
|
||||||
|
return Encoders.bean(OaBrokerMainEntity.class);
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public Encoder<OaBrokerMainEntity> outputEncoder() {
|
||||||
|
return Encoders.bean(OaBrokerMainEntity.class);
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -0,0 +1,14 @@
|
||||||
|
[
|
||||||
|
{
|
||||||
|
"paramName": "g",
|
||||||
|
"paramLongName": "graphPath",
|
||||||
|
"paramDescription": "the path where there the graph is stored",
|
||||||
|
"paramRequired": true
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"paramName": "o",
|
||||||
|
"paramLongName": "workingPath",
|
||||||
|
"paramDescription": "the path where the temporary data will be stored",
|
||||||
|
"paramRequired": true
|
||||||
|
}
|
||||||
|
]
|
|
@ -6,8 +6,8 @@
|
||||||
<description>the path where the graph is stored</description>
|
<description>the path where the graph is stored</description>
|
||||||
</property>
|
</property>
|
||||||
<property>
|
<property>
|
||||||
<name>eventsOutputPath</name>
|
<name>workingPath</name>
|
||||||
<description>the path where the the events will be stored</description>
|
<description>the path where the the generated data will be stored</description>
|
||||||
</property>
|
</property>
|
||||||
<property>
|
<property>
|
||||||
<name>isLookupUrl</name>
|
<name>isLookupUrl</name>
|
||||||
|
@ -73,18 +73,34 @@
|
||||||
</configuration>
|
</configuration>
|
||||||
</global>
|
</global>
|
||||||
|
|
||||||
<start to="generate_events"/>
|
<start to="ensure_working_path"/>
|
||||||
|
|
||||||
<kill name="Kill">
|
<kill name="Kill">
|
||||||
<message>Action failed, error message[${wf:errorMessage(wf:lastErrorNode())}]</message>
|
<message>Action failed, error message[${wf:errorMessage(wf:lastErrorNode())}]</message>
|
||||||
</kill>
|
</kill>
|
||||||
|
|
||||||
<action name="generate_events">
|
<action name="ensure_working_path">
|
||||||
|
<fs>
|
||||||
|
<mkdir path='${workingPath}'/>
|
||||||
|
</fs>
|
||||||
|
<ok to="start_entities_and_rels"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<fork name="start_entities_and_rels">
|
||||||
|
<path start="prepare_simple_entities"/>
|
||||||
|
<path start="prepare_related_softwares"/>
|
||||||
|
<path start="prepare_related_datasets"/>
|
||||||
|
<path start="prepare_related_projects"/>
|
||||||
|
<path start="prepare_related_publications"/>
|
||||||
|
</fork>
|
||||||
|
|
||||||
|
<action name="prepare_simple_entities">
|
||||||
<spark xmlns="uri:oozie:spark-action:0.2">
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
<master>yarn</master>
|
<master>yarn</master>
|
||||||
<mode>cluster</mode>
|
<mode>cluster</mode>
|
||||||
<name>GenerateEvents</name>
|
<name>PrepareSimpleEntititiesJob</name>
|
||||||
<class>eu.dnetlib.dhp.broker.oa.GenerateEventsApplication</class>
|
<class>eu.dnetlib.dhp.broker.oa.PrepareSimpleEntititiesJob</class>
|
||||||
<jar>dhp-broker-events-${projectVersion}.jar</jar>
|
<jar>dhp-broker-events-${projectVersion}.jar</jar>
|
||||||
<spark-opts>
|
<spark-opts>
|
||||||
--executor-cores=${sparkExecutorCores}
|
--executor-cores=${sparkExecutorCores}
|
||||||
|
@ -97,14 +113,183 @@
|
||||||
--conf spark.sql.shuffle.partitions=3840
|
--conf spark.sql.shuffle.partitions=3840
|
||||||
</spark-opts>
|
</spark-opts>
|
||||||
<arg>--graphPath</arg><arg>${graphInputPath}</arg>
|
<arg>--graphPath</arg><arg>${graphInputPath}</arg>
|
||||||
<arg>--eventsPath</arg><arg>${eventsOutputPath}</arg>
|
<arg>--workingPath</arg><arg>${workingPath}</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="wait_entities_and_rels"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
|
||||||
|
<action name="prepare_related_datasets">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>PrepareRelatedDatasetsJob</name>
|
||||||
|
<class>eu.dnetlib.dhp.broker.oa.PrepareRelatedDatasetsJob</class>
|
||||||
|
<jar>dhp-broker-events-${projectVersion}.jar</jar>
|
||||||
|
<spark-opts>
|
||||||
|
--executor-cores=${sparkExecutorCores}
|
||||||
|
--executor-memory=${sparkExecutorMemory}
|
||||||
|
--driver-memory=${sparkDriverMemory}
|
||||||
|
--conf spark.extraListeners=${spark2ExtraListeners}
|
||||||
|
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
|
||||||
|
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
|
||||||
|
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
|
||||||
|
--conf spark.sql.shuffle.partitions=3840
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--graphPath</arg><arg>${graphInputPath}</arg>
|
||||||
|
<arg>--workingPath</arg><arg>${workingPath}</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="wait_entities_and_rels"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="prepare_related_projects">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>PrepareRelatedProjectsJob</name>
|
||||||
|
<class>eu.dnetlib.dhp.broker.oa.PrepareRelatedProjectsJob</class>
|
||||||
|
<jar>dhp-broker-events-${projectVersion}.jar</jar>
|
||||||
|
<spark-opts>
|
||||||
|
--executor-cores=${sparkExecutorCores}
|
||||||
|
--executor-memory=${sparkExecutorMemory}
|
||||||
|
--driver-memory=${sparkDriverMemory}
|
||||||
|
--conf spark.extraListeners=${spark2ExtraListeners}
|
||||||
|
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
|
||||||
|
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
|
||||||
|
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
|
||||||
|
--conf spark.sql.shuffle.partitions=3840
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--graphPath</arg><arg>${graphInputPath}</arg>
|
||||||
|
<arg>--workingPath</arg><arg>${workingPath}</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="wait_entities_and_rels"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="prepare_related_publications">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>PrepareRelatedPublicationsJob</name>
|
||||||
|
<class>eu.dnetlib.dhp.broker.oa.PrepareRelatedPublicationsJob</class>
|
||||||
|
<jar>dhp-broker-events-${projectVersion}.jar</jar>
|
||||||
|
<spark-opts>
|
||||||
|
--executor-cores=${sparkExecutorCores}
|
||||||
|
--executor-memory=${sparkExecutorMemory}
|
||||||
|
--driver-memory=${sparkDriverMemory}
|
||||||
|
--conf spark.extraListeners=${spark2ExtraListeners}
|
||||||
|
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
|
||||||
|
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
|
||||||
|
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
|
||||||
|
--conf spark.sql.shuffle.partitions=3840
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--graphPath</arg><arg>${graphInputPath}</arg>
|
||||||
|
<arg>--workingPath</arg><arg>${workingPath}</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="wait_entities_and_rels"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="prepare_related_softwares">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>PrepareRelatedSoftwaresJob</name>
|
||||||
|
<class>eu.dnetlib.dhp.broker.oa.PrepareRelatedSoftwaresJob</class>
|
||||||
|
<jar>dhp-broker-events-${projectVersion}.jar</jar>
|
||||||
|
<spark-opts>
|
||||||
|
--executor-cores=${sparkExecutorCores}
|
||||||
|
--executor-memory=${sparkExecutorMemory}
|
||||||
|
--driver-memory=${sparkDriverMemory}
|
||||||
|
--conf spark.extraListeners=${spark2ExtraListeners}
|
||||||
|
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
|
||||||
|
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
|
||||||
|
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
|
||||||
|
--conf spark.sql.shuffle.partitions=3840
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--graphPath</arg><arg>${graphInputPath}</arg>
|
||||||
|
<arg>--workingPath</arg><arg>${workingPath}</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="wait_entities_and_rels"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<join name="wait_entities_and_rels" to="join_entities"/>
|
||||||
|
|
||||||
|
<action name="join_entities">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>JoinEntitiesJob</name>
|
||||||
|
<class>eu.dnetlib.dhp.broker.oa.JoinEntitiesJob</class>
|
||||||
|
<jar>dhp-broker-events-${projectVersion}.jar</jar>
|
||||||
|
<spark-opts>
|
||||||
|
--executor-cores=${sparkExecutorCores}
|
||||||
|
--executor-memory=${sparkExecutorMemory}
|
||||||
|
--driver-memory=${sparkDriverMemory}
|
||||||
|
--conf spark.extraListeners=${spark2ExtraListeners}
|
||||||
|
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
|
||||||
|
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
|
||||||
|
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
|
||||||
|
--conf spark.sql.shuffle.partitions=3840
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--graphPath</arg><arg>${graphInputPath}</arg>
|
||||||
|
<arg>--workingPath</arg><arg>${workingPath}</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="prepare_groups"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="prepare_groups">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>PrepareGroupsJob</name>
|
||||||
|
<class>eu.dnetlib.dhp.broker.oa.PrepareGroupsJob</class>
|
||||||
|
<jar>dhp-broker-events-${projectVersion}.jar</jar>
|
||||||
|
<spark-opts>
|
||||||
|
--executor-cores=${sparkExecutorCores}
|
||||||
|
--executor-memory=${sparkExecutorMemory}
|
||||||
|
--driver-memory=${sparkDriverMemory}
|
||||||
|
--conf spark.extraListeners=${spark2ExtraListeners}
|
||||||
|
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
|
||||||
|
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
|
||||||
|
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
|
||||||
|
--conf spark.sql.shuffle.partitions=3840
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--graphPath</arg><arg>${graphInputPath}</arg>
|
||||||
|
<arg>--workingPath</arg><arg>${workingPath}</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="generate_events"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="generate_events">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>GenerateEventsJob</name>
|
||||||
|
<class>eu.dnetlib.dhp.broker.oa.GenerateEventsJob</class>
|
||||||
|
<jar>dhp-broker-events-${projectVersion}.jar</jar>
|
||||||
|
<spark-opts>
|
||||||
|
--executor-cores=${sparkExecutorCores}
|
||||||
|
--executor-memory=${sparkExecutorMemory}
|
||||||
|
--driver-memory=${sparkDriverMemory}
|
||||||
|
--conf spark.extraListeners=${spark2ExtraListeners}
|
||||||
|
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
|
||||||
|
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
|
||||||
|
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
|
||||||
|
--conf spark.sql.shuffle.partitions=3840
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--workingPath</arg><arg>${workingPath}</arg>
|
||||||
<arg>--isLookupUrl</arg><arg>${isLookupUrl}</arg>
|
<arg>--isLookupUrl</arg><arg>${isLookupUrl}</arg>
|
||||||
<arg>--dedupConfProfile</arg><arg>${dedupConfProfId}</arg>
|
<arg>--dedupConfProfile</arg><arg>${dedupConfProfId}</arg>
|
||||||
</spark>
|
</spark>
|
||||||
<ok to="End"/>
|
<ok to="End"/>
|
||||||
<error to="Kill"/>
|
<error to="Kill"/>
|
||||||
</action>
|
</action>
|
||||||
|
|
||||||
|
|
||||||
<end name="End"/>
|
<end name="End"/>
|
||||||
|
|
||||||
|
|
|
@ -1,13 +1,7 @@
|
||||||
[
|
[
|
||||||
{
|
|
||||||
"paramName": "g",
|
|
||||||
"paramLongName": "graphPath",
|
|
||||||
"paramDescription": "the path where there the graph is stored",
|
|
||||||
"paramRequired": true
|
|
||||||
},
|
|
||||||
{
|
{
|
||||||
"paramName": "o",
|
"paramName": "o",
|
||||||
"paramLongName": "eventsPath",
|
"paramLongName": "workingPath",
|
||||||
"paramDescription": "the path where the generated events will be stored",
|
"paramDescription": "the path where the generated events will be stored",
|
||||||
"paramRequired": true
|
"paramRequired": true
|
||||||
},
|
},
|
|
@ -0,0 +1,18 @@
|
||||||
|
<configuration>
|
||||||
|
<property>
|
||||||
|
<name>jobTracker</name>
|
||||||
|
<value>yarnRM</value>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>nameNode</name>
|
||||||
|
<value>hdfs://nameservice1</value>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>oozie.use.system.libpath</name>
|
||||||
|
<value>true</value>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>oozie.action.sharelib.for.spark</name>
|
||||||
|
<value>spark2</value>
|
||||||
|
</property>
|
||||||
|
</configuration>
|
|
@ -0,0 +1,158 @@
|
||||||
|
<workflow-app name="create broker events" xmlns="uri:oozie:workflow:0.5">
|
||||||
|
|
||||||
|
<parameters>
|
||||||
|
<property>
|
||||||
|
<name>graphInputPath</name>
|
||||||
|
<description>the path where the graph is stored</description>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>workingPath</name>
|
||||||
|
<description>the path where the the generated data will be stored</description>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>isLookupUrl</name>
|
||||||
|
<description>the address of the lookUp service</description>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>dedupConfProfId</name>
|
||||||
|
<description>the id of a valid Dedup Configuration Profile</description>
|
||||||
|
</property>
|
||||||
|
|
||||||
|
<property>
|
||||||
|
<name>sparkDriverMemory</name>
|
||||||
|
<description>memory for driver process</description>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>sparkExecutorMemory</name>
|
||||||
|
<description>memory for individual executor</description>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>sparkExecutorCores</name>
|
||||||
|
<description>number of cores used by single executor</description>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>oozieActionShareLibForSpark2</name>
|
||||||
|
<description>oozie action sharelib for spark 2.*</description>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>spark2ExtraListeners</name>
|
||||||
|
<value>com.cloudera.spark.lineage.NavigatorAppListener</value>
|
||||||
|
<description>spark 2.* extra listeners classname</description>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>spark2SqlQueryExecutionListeners</name>
|
||||||
|
<value>com.cloudera.spark.lineage.NavigatorQueryListener</value>
|
||||||
|
<description>spark 2.* sql query execution listeners classname</description>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>spark2YarnHistoryServerAddress</name>
|
||||||
|
<description>spark 2.* yarn history server address</description>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>spark2EventLogDir</name>
|
||||||
|
<description>spark 2.* event log dir location</description>
|
||||||
|
</property>
|
||||||
|
</parameters>
|
||||||
|
|
||||||
|
<global>
|
||||||
|
<job-tracker>${jobTracker}</job-tracker>
|
||||||
|
<name-node>${nameNode}</name-node>
|
||||||
|
<configuration>
|
||||||
|
<property>
|
||||||
|
<name>mapreduce.job.queuename</name>
|
||||||
|
<value>${queueName}</value>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>oozie.launcher.mapred.job.queue.name</name>
|
||||||
|
<value>${oozieLauncherQueueName}</value>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>oozie.action.sharelib.for.spark</name>
|
||||||
|
<value>${oozieActionShareLibForSpark2}</value>
|
||||||
|
</property>
|
||||||
|
</configuration>
|
||||||
|
</global>
|
||||||
|
|
||||||
|
<start to="join_entities"/>
|
||||||
|
|
||||||
|
<kill name="Kill">
|
||||||
|
<message>Action failed, error message[${wf:errorMessage(wf:lastErrorNode())}]</message>
|
||||||
|
</kill>
|
||||||
|
|
||||||
|
|
||||||
|
<action name="join_entities">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>JoinEntitiesJob</name>
|
||||||
|
<class>eu.dnetlib.dhp.broker.oa.JoinEntitiesJob</class>
|
||||||
|
<jar>dhp-broker-events-${projectVersion}.jar</jar>
|
||||||
|
<spark-opts>
|
||||||
|
--executor-cores=${sparkExecutorCores}
|
||||||
|
--executor-memory=${sparkExecutorMemory}
|
||||||
|
--driver-memory=${sparkDriverMemory}
|
||||||
|
--conf spark.extraListeners=${spark2ExtraListeners}
|
||||||
|
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
|
||||||
|
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
|
||||||
|
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
|
||||||
|
--conf spark.sql.shuffle.partitions=3840
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--graphPath</arg><arg>${graphInputPath}</arg>
|
||||||
|
<arg>--workingPath</arg><arg>${workingPath}</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="prepare_groups"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="prepare_groups">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>PrepareGroupsJob</name>
|
||||||
|
<class>eu.dnetlib.dhp.broker.oa.PrepareGroupsJob</class>
|
||||||
|
<jar>dhp-broker-events-${projectVersion}.jar</jar>
|
||||||
|
<spark-opts>
|
||||||
|
--executor-cores=${sparkExecutorCores}
|
||||||
|
--executor-memory=${sparkExecutorMemory}
|
||||||
|
--driver-memory=${sparkDriverMemory}
|
||||||
|
--conf spark.extraListeners=${spark2ExtraListeners}
|
||||||
|
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
|
||||||
|
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
|
||||||
|
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
|
||||||
|
--conf spark.sql.shuffle.partitions=3840
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--graphPath</arg><arg>${graphInputPath}</arg>
|
||||||
|
<arg>--workingPath</arg><arg>${workingPath}</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="generate_events"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="generate_events">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>GenerateEventsJob</name>
|
||||||
|
<class>eu.dnetlib.dhp.broker.oa.GenerateEventsJob</class>
|
||||||
|
<jar>dhp-broker-events-${projectVersion}.jar</jar>
|
||||||
|
<spark-opts>
|
||||||
|
--executor-cores=${sparkExecutorCores}
|
||||||
|
--executor-memory=${sparkExecutorMemory}
|
||||||
|
--driver-memory=${sparkDriverMemory}
|
||||||
|
--conf spark.extraListeners=${spark2ExtraListeners}
|
||||||
|
--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
|
||||||
|
--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
|
||||||
|
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
|
||||||
|
--conf spark.sql.shuffle.partitions=3840
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--workingPath</arg><arg>${workingPath}</arg>
|
||||||
|
<arg>--isLookupUrl</arg><arg>${isLookupUrl}</arg>
|
||||||
|
<arg>--dedupConfProfile</arg><arg>${dedupConfProfId}</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="End"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<end name="End"/>
|
||||||
|
|
||||||
|
</workflow-app>
|
|
@ -3,7 +3,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<artifactId>dhp-workflows</artifactId>
|
<artifactId>dhp-workflows</artifactId>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
<modelVersion>4.0.0</modelVersion>
|
<modelVersion>4.0.0</modelVersion>
|
||||||
<artifactId>dhp-dedup-openaire</artifactId>
|
<artifactId>dhp-dedup-openaire</artifactId>
|
||||||
|
|
|
@ -3,7 +3,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<artifactId>dhp-workflows</artifactId>
|
<artifactId>dhp-workflows</artifactId>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
<modelVersion>4.0.0</modelVersion>
|
<modelVersion>4.0.0</modelVersion>
|
||||||
|
|
||||||
|
|
|
@ -3,7 +3,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<artifactId>dhp-workflows</artifactId>
|
<artifactId>dhp-workflows</artifactId>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
<modelVersion>4.0.0</modelVersion>
|
<modelVersion>4.0.0</modelVersion>
|
||||||
|
|
||||||
|
|
|
@ -3,7 +3,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<artifactId>dhp-workflows</artifactId>
|
<artifactId>dhp-workflows</artifactId>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
<modelVersion>4.0.0</modelVersion>
|
<modelVersion>4.0.0</modelVersion>
|
||||||
|
|
||||||
|
|
|
@ -3,7 +3,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<artifactId>dhp-workflows</artifactId>
|
<artifactId>dhp-workflows</artifactId>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
<modelVersion>4.0.0</modelVersion>
|
<modelVersion>4.0.0</modelVersion>
|
||||||
|
|
||||||
|
|
|
@ -3,7 +3,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<artifactId>dhp-workflows</artifactId>
|
<artifactId>dhp-workflows</artifactId>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
<modelVersion>4.0.0</modelVersion>
|
<modelVersion>4.0.0</modelVersion>
|
||||||
|
|
||||||
|
|
|
@ -144,6 +144,9 @@ public class CleanGraphSparkJob {
|
||||||
if (Objects.isNull(i.getAccessright()) || StringUtils.isBlank(i.getAccessright().getClassid())) {
|
if (Objects.isNull(i.getAccessright()) || StringUtils.isBlank(i.getAccessright().getClassid())) {
|
||||||
i.setAccessright(qualifier("UNKNOWN", "not available", ModelConstants.DNET_ACCESS_MODES));
|
i.setAccessright(qualifier("UNKNOWN", "not available", ModelConstants.DNET_ACCESS_MODES));
|
||||||
}
|
}
|
||||||
|
if (Objects.isNull(i.getHostedby()) || StringUtils.isBlank(i.getHostedby().getKey())) {
|
||||||
|
i.setHostedby(ModelConstants.UNKNOWN_REPOSITORY);
|
||||||
|
}
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
|
@ -111,6 +111,7 @@ public class MappersTest {
|
||||||
assertNotNull(i.getAccessright());
|
assertNotNull(i.getAccessright());
|
||||||
assertEquals("OPEN", i.getAccessright().getClassid());
|
assertEquals("OPEN", i.getAccessright().getClassid());
|
||||||
});
|
});
|
||||||
|
assertEquals("0001", p.getInstance().get(0).getRefereed().getClassid());
|
||||||
|
|
||||||
assertNotNull(p.getBestaccessright());
|
assertNotNull(p.getBestaccessright());
|
||||||
assertEquals("OPEN", p.getBestaccessright().getClassid());
|
assertEquals("OPEN", p.getBestaccessright().getClassid());
|
||||||
|
@ -217,6 +218,7 @@ public class MappersTest {
|
||||||
assertNotNull(i.getAccessright());
|
assertNotNull(i.getAccessright());
|
||||||
assertEquals("OPEN", i.getAccessright().getClassid());
|
assertEquals("OPEN", i.getAccessright().getClassid());
|
||||||
});
|
});
|
||||||
|
assertEquals("0001", d.getInstance().get(0).getRefereed().getClassid());
|
||||||
|
|
||||||
assertValidId(r1.getSource());
|
assertValidId(r1.getSource());
|
||||||
assertValidId(r1.getTarget());
|
assertValidId(r1.getTarget());
|
||||||
|
|
|
@ -57,6 +57,7 @@
|
||||||
<oaf:identifier identifierType="doi">10.3897/oneeco.2.e13718</oaf:identifier>
|
<oaf:identifier identifierType="doi">10.3897/oneeco.2.e13718</oaf:identifier>
|
||||||
<oaf:fulltext>https://oneecosystem.pensoft.net/article/13718/</oaf:fulltext>
|
<oaf:fulltext>https://oneecosystem.pensoft.net/article/13718/</oaf:fulltext>
|
||||||
<oaf:journal eissn="2367-8194" issn="">One Ecosystem</oaf:journal>
|
<oaf:journal eissn="2367-8194" issn="">One Ecosystem</oaf:journal>
|
||||||
|
<oaf:refereed>0001</oaf:refereed>
|
||||||
</metadata>
|
</metadata>
|
||||||
<about xmlns:oai="http://www.openarchives.org/OAI/2.0/">
|
<about xmlns:oai="http://www.openarchives.org/OAI/2.0/">
|
||||||
<provenance xmlns="http://www.openarchives.org/OAI/2.0/provenance" xsi:schemaLocation="http://www.openarchives.org/OAI/2.0/provenance http://www.openarchives.org/OAI/2.0/provenance.xsd">
|
<provenance xmlns="http://www.openarchives.org/OAI/2.0/provenance" xsi:schemaLocation="http://www.openarchives.org/OAI/2.0/provenance http://www.openarchives.org/OAI/2.0/provenance.xsd">
|
||||||
|
|
|
@ -90,6 +90,7 @@
|
||||||
<oaf:hostedBy id="re3data_____::r3d100010468" name="Zenodo"/>
|
<oaf:hostedBy id="re3data_____::r3d100010468" name="Zenodo"/>
|
||||||
<oaf:projectid>corda_______::226852</oaf:projectid>
|
<oaf:projectid>corda_______::226852</oaf:projectid>
|
||||||
<oaf:collectedFrom id="re3data_____::r3d100010468" name="Zenodo"/>
|
<oaf:collectedFrom id="re3data_____::r3d100010468" name="Zenodo"/>
|
||||||
|
<oaf:refereed>0001</oaf:refereed>s
|
||||||
</metadata>
|
</metadata>
|
||||||
<about xmlns:dc="http://purl.org/dc/elements/1.1/"
|
<about xmlns:dc="http://purl.org/dc/elements/1.1/"
|
||||||
xmlns:dri="http://www.driver-repository.eu/namespace/dri"
|
xmlns:dri="http://www.driver-repository.eu/namespace/dri"
|
||||||
|
|
|
@ -3,7 +3,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<artifactId>dhp-workflows</artifactId>
|
<artifactId>dhp-workflows</artifactId>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
<modelVersion>4.0.0</modelVersion>
|
<modelVersion>4.0.0</modelVersion>
|
||||||
|
|
||||||
|
|
|
@ -3,7 +3,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<artifactId>dhp-workflows</artifactId>
|
<artifactId>dhp-workflows</artifactId>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
<modelVersion>4.0.0</modelVersion>
|
<modelVersion>4.0.0</modelVersion>
|
||||||
|
|
||||||
|
|
|
@ -3,7 +3,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<artifactId>dhp-workflows</artifactId>
|
<artifactId>dhp-workflows</artifactId>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
<modelVersion>4.0.0</modelVersion>
|
<modelVersion>4.0.0</modelVersion>
|
||||||
<artifactId>dhp-stats-update</artifactId>
|
<artifactId>dhp-stats-update</artifactId>
|
||||||
|
|
|
@ -3,7 +3,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<artifactId>dhp-workflows</artifactId>
|
<artifactId>dhp-workflows</artifactId>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
</parent>
|
</parent>
|
||||||
<modelVersion>4.0.0</modelVersion>
|
<modelVersion>4.0.0</modelVersion>
|
||||||
|
|
||||||
|
|
|
@ -7,7 +7,7 @@
|
||||||
<DATE_OF_CREATION value="2020-06-15T16:35:09+00:00"/>
|
<DATE_OF_CREATION value="2020-06-15T16:35:09+00:00"/>
|
||||||
</HEADER>
|
</HEADER>
|
||||||
<BODY>
|
<BODY>
|
||||||
<WORKFLOW_NAME>Data Provision [OCEAN]</WORKFLOW_NAME>
|
<WORKFLOW_NAME>Graph Construction [OCEAN]</WORKFLOW_NAME>
|
||||||
<WORKFLOW_TYPE>Data Provision</WORKFLOW_TYPE>
|
<WORKFLOW_TYPE>Data Provision</WORKFLOW_TYPE>
|
||||||
<WORKFLOW_PRIORITY>30</WORKFLOW_PRIORITY>
|
<WORKFLOW_PRIORITY>30</WORKFLOW_PRIORITY>
|
||||||
<CONFIGURATION start="manual">
|
<CONFIGURATION start="manual">
|
|
@ -0,0 +1,73 @@
|
||||||
|
<RESOURCE_PROFILE>
|
||||||
|
<HEADER>
|
||||||
|
<RESOURCE_IDENTIFIER value="5d750977-bec2-47f4-97bb-1b7500e4704e_V29ya2Zsb3dEU1Jlc291cmNlcy9Xb3JrZmxvd0RTUmVzb3VyY2VUeXBl"/>
|
||||||
|
<RESOURCE_TYPE value="WorkflowDSResourceType"/>
|
||||||
|
<RESOURCE_KIND value="WorkflowDSResources"/>
|
||||||
|
<RESOURCE_URI value=""/>
|
||||||
|
<DATE_OF_CREATION value="2020-06-15T16:35:09+00:00"/>
|
||||||
|
</HEADER>
|
||||||
|
<BODY>
|
||||||
|
<WORKFLOW_NAME>Graph to HiveDB [OCEAN]</WORKFLOW_NAME>
|
||||||
|
<WORKFLOW_TYPE>Data Provision</WORKFLOW_TYPE>
|
||||||
|
<WORKFLOW_PRIORITY>30</WORKFLOW_PRIORITY>
|
||||||
|
<CONFIGURATION start="manual">
|
||||||
|
<NODE isStart="true" name="setInputPath" type="SetEnvParameter">
|
||||||
|
<DESCRIPTION>Set the path containing the AGGREGATOR graph</DESCRIPTION>
|
||||||
|
<PARAMETERS>
|
||||||
|
<PARAM managedBy="system" name="parameterName" required="true" type="string">inputPath</PARAM>
|
||||||
|
<PARAM managedBy="user" name="parameterValue" required="true" type="string"></PARAM>
|
||||||
|
</PARAMETERS>
|
||||||
|
<ARCS>
|
||||||
|
<ARC to="waitConfig"/>
|
||||||
|
</ARCS>
|
||||||
|
</NODE>
|
||||||
|
<NODE isStart="true" name="setHiveDbName" type="SetEnvParameter">
|
||||||
|
<DESCRIPTION>Set the target path to store the RAW graph</DESCRIPTION>
|
||||||
|
<PARAMETERS>
|
||||||
|
<PARAM managedBy="system" name="parameterName" required="true" type="string">hiveDbName</PARAM>
|
||||||
|
<PARAM managedBy="user" name="parameterValue" required="true" type="string"></PARAM>
|
||||||
|
</PARAMETERS>
|
||||||
|
<ARCS>
|
||||||
|
<ARC to="waitConfig"/>
|
||||||
|
</ARCS>
|
||||||
|
</NODE>
|
||||||
|
|
||||||
|
<NODE isJoin="true" name="waitConfig">
|
||||||
|
<DESCRIPTION>wait configurations</DESCRIPTION>
|
||||||
|
<PARAMETERS/>
|
||||||
|
<ARCS>
|
||||||
|
<ARC to="aggregatorGraph"/>
|
||||||
|
</ARCS>
|
||||||
|
</NODE>
|
||||||
|
<NODE name="graph2hive" type="SubmitHadoopJob">
|
||||||
|
<DESCRIPTION>create the AGGREGATOR graph</DESCRIPTION>
|
||||||
|
<PARAMETERS>
|
||||||
|
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||||
|
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||||
|
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||||
|
{
|
||||||
|
'inputPath' : 'inputPath',
|
||||||
|
'hiveDbName' : 'hiveDbName'
|
||||||
|
}
|
||||||
|
</PARAM>
|
||||||
|
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||||
|
{
|
||||||
|
'oozie.wf.application.path' : '/lib/dnet/oa/graph/hive/oozie_app'
|
||||||
|
}
|
||||||
|
</PARAM>
|
||||||
|
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||||
|
</PARAMETERS>
|
||||||
|
<ARCS>
|
||||||
|
<ARC to="success"/>
|
||||||
|
</ARCS>
|
||||||
|
</NODE>
|
||||||
|
|
||||||
|
</CONFIGURATION>
|
||||||
|
<STATUS>
|
||||||
|
<LAST_EXECUTION_ID>wf_20200615_163630_609</LAST_EXECUTION_ID>
|
||||||
|
<LAST_EXECUTION_DATE>2020-06-15T17:08:00+00:00</LAST_EXECUTION_DATE>
|
||||||
|
<LAST_EXECUTION_STATUS>SUCCESS</LAST_EXECUTION_STATUS>
|
||||||
|
<LAST_EXECUTION_ERROR/>
|
||||||
|
</STATUS>
|
||||||
|
</BODY>
|
||||||
|
</RESOURCE_PROFILE>
|
|
@ -0,0 +1,98 @@
|
||||||
|
<RESOURCE_PROFILE>
|
||||||
|
<HEADER>
|
||||||
|
<RESOURCE_IDENTIFIER value="8d36cc94-5b82-413c-923f-e7b3953e41ba_V29ya2Zsb3dEU1Jlc291cmNlcy9Xb3JrZmxvd0RTUmVzb3VyY2VUeXBl"/>
|
||||||
|
<RESOURCE_TYPE value="WorkflowDSResourceType"/>
|
||||||
|
<RESOURCE_KIND value="WorkflowDSResources"/>
|
||||||
|
<RESOURCE_URI value=""/>
|
||||||
|
<DATE_OF_CREATION value="2020-06-15T16:35:09+00:00"/>
|
||||||
|
</HEADER>
|
||||||
|
<BODY>
|
||||||
|
<WORKFLOW_NAME>Update Solr [OCEAN]</WORKFLOW_NAME>
|
||||||
|
<WORKFLOW_TYPE>Data Provision</WORKFLOW_TYPE>
|
||||||
|
<WORKFLOW_PRIORITY>30</WORKFLOW_PRIORITY>
|
||||||
|
<CONFIGURATION start="manual">
|
||||||
|
<NODE isStart="true" name="setInputPath" type="SetEnvParameter">
|
||||||
|
<DESCRIPTION>Set the path containing the AGGREGATOR graph</DESCRIPTION>
|
||||||
|
<PARAMETERS>
|
||||||
|
<PARAM managedBy="system" name="parameterName" required="true" type="string">inputGraphRootPath</PARAM>
|
||||||
|
<PARAM managedBy="user" name="parameterValue" required="true" type="string"></PARAM>
|
||||||
|
</PARAMETERS>
|
||||||
|
<ARCS>
|
||||||
|
<ARC to="waitConfig"/>
|
||||||
|
</ARCS>
|
||||||
|
</NODE>
|
||||||
|
<NODE isStart="true" name="setCollection" type="SetEnvParameter">
|
||||||
|
<DESCRIPTION>Set the target path to store the RAW graph</DESCRIPTION>
|
||||||
|
<PARAMETERS>
|
||||||
|
<PARAM managedBy="system" name="parameterName" required="true" type="string">format</PARAM>
|
||||||
|
<PARAM function="validValues(['TMF', 'DMF'])" managedBy="user" name="parameterValue" required="true" type="string">TMF</PARAM>
|
||||||
|
</PARAMETERS>
|
||||||
|
<ARCS>
|
||||||
|
<ARC to="waitConfig"/>
|
||||||
|
</ARCS>
|
||||||
|
</NODE>
|
||||||
|
<NODE isStart="true" name="setIsLookUpUrl" type="SetEnvParameter">
|
||||||
|
<DESCRIPTION>Set the lookup address</DESCRIPTION>
|
||||||
|
<PARAMETERS>
|
||||||
|
<PARAM managedBy="system" name="parameterName" required="true" type="string">isLookupUrl</PARAM>
|
||||||
|
<PARAM managedBy="system" name="parameterValue" required="true" type="string">http://beta.services.openaire.eu:8280/is/services/isLookUp?wsdl</PARAM>
|
||||||
|
</PARAMETERS>
|
||||||
|
<ARCS>
|
||||||
|
<ARC to="waitConfig"/>
|
||||||
|
</ARCS>
|
||||||
|
</NODE>
|
||||||
|
|
||||||
|
<NODE isJoin="true" name="waitConfig">
|
||||||
|
<DESCRIPTION>wait configurations</DESCRIPTION>
|
||||||
|
<PARAMETERS/>
|
||||||
|
<ARCS>
|
||||||
|
<ARC to="updateSolr"/>
|
||||||
|
</ARCS>
|
||||||
|
</NODE>
|
||||||
|
<NODE name="updateSolr" type="SubmitHadoopJob">
|
||||||
|
<DESCRIPTION>create the AGGREGATOR graph</DESCRIPTION>
|
||||||
|
<PARAMETERS>
|
||||||
|
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||||
|
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||||
|
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||||
|
{
|
||||||
|
'inputGraphRootPath' : 'inputGraphRootPath',
|
||||||
|
'isLookupUrl' : 'isLookupUrl',
|
||||||
|
'format' : 'format'
|
||||||
|
}
|
||||||
|
</PARAM>
|
||||||
|
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||||
|
{
|
||||||
|
'oozie.wf.application.path' : '/lib/dnet/oa/provision/oozie_app',
|
||||||
|
'maxRelations' : '100',
|
||||||
|
'relPartitions' : '3000',
|
||||||
|
'batchSize' : '2000',
|
||||||
|
'relationFilter' : 'isAuthorInstitutionOf,produces,hasAmongTopNSimilarDocuments',
|
||||||
|
'otherDsTypeId' : 'scholarcomminfra,infospace,pubsrepository::mock,entityregistry,entityregistry::projects,entityregistry::repositories,websource',
|
||||||
|
'resumeFrom' : 'prepare_relations',
|
||||||
|
'sparkDriverMemoryForJoining' : '3G',
|
||||||
|
'sparkExecutorMemoryForJoining' : '7G',
|
||||||
|
'sparkExecutorCoresForJoining' : '4',
|
||||||
|
'sparkDriverMemoryForIndexing' : '2G',
|
||||||
|
'sparkExecutorMemoryForIndexing' : '2G',
|
||||||
|
'sparkExecutorCoresForIndexing' : '64',
|
||||||
|
'sparkNetworkTimeout' : '600',
|
||||||
|
'workingDir' : '/tmp/beta_provision/working_dir/update_solr'
|
||||||
|
}
|
||||||
|
</PARAM>
|
||||||
|
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||||
|
</PARAMETERS>
|
||||||
|
<ARCS>
|
||||||
|
<ARC to="success"/>
|
||||||
|
</ARCS>
|
||||||
|
</NODE>
|
||||||
|
|
||||||
|
</CONFIGURATION>
|
||||||
|
<STATUS>
|
||||||
|
<LAST_EXECUTION_ID>wf_20200615_163630_609</LAST_EXECUTION_ID>
|
||||||
|
<LAST_EXECUTION_DATE>2020-06-15T17:08:00+00:00</LAST_EXECUTION_DATE>
|
||||||
|
<LAST_EXECUTION_STATUS>SUCCESS</LAST_EXECUTION_STATUS>
|
||||||
|
<LAST_EXECUTION_ERROR/>
|
||||||
|
</STATUS>
|
||||||
|
</BODY>
|
||||||
|
</RESOURCE_PROFILE>
|
|
@ -0,0 +1,74 @@
|
||||||
|
<RESOURCE_PROFILE>
|
||||||
|
<HEADER>
|
||||||
|
<RESOURCE_IDENTIFIER value="65ca9122-f8fe-4aa6-9fb2-bc1e1ffb2dda_V29ya2Zsb3dEU1Jlc291cmNlcy9Xb3JrZmxvd0RTUmVzb3VyY2VUeXBl"/>
|
||||||
|
<RESOURCE_TYPE value="WorkflowDSResourceType"/>
|
||||||
|
<RESOURCE_KIND value="WorkflowDSResources"/>
|
||||||
|
<RESOURCE_URI value=""/>
|
||||||
|
<DATE_OF_CREATION value="2020-06-15T16:35:09+00:00"/>
|
||||||
|
</HEADER>
|
||||||
|
<BODY>
|
||||||
|
<WORKFLOW_NAME>Update Stats [OCEAN]</WORKFLOW_NAME>
|
||||||
|
<WORKFLOW_TYPE>Data Provision</WORKFLOW_TYPE>
|
||||||
|
<WORKFLOW_PRIORITY>30</WORKFLOW_PRIORITY>
|
||||||
|
<CONFIGURATION start="manual">
|
||||||
|
<NODE isStart="true" name="setGraphDbName" type="SetEnvParameter">
|
||||||
|
<DESCRIPTION>Set the path containing the AGGREGATOR graph</DESCRIPTION>
|
||||||
|
<PARAMETERS>
|
||||||
|
<PARAM managedBy="system" name="parameterName" required="true" type="string">openaire_db_name</PARAM>
|
||||||
|
<PARAM managedBy="user" name="parameterValue" required="true" type="string"></PARAM>
|
||||||
|
</PARAMETERS>
|
||||||
|
<ARCS>
|
||||||
|
<ARC to="waitConfig"/>
|
||||||
|
</ARCS>
|
||||||
|
</NODE>
|
||||||
|
<NODE isStart="true" name="setStatsDbNameCollection" type="SetEnvParameter">
|
||||||
|
<DESCRIPTION>Set the target path to store the RAW graph</DESCRIPTION>
|
||||||
|
<PARAMETERS>
|
||||||
|
<PARAM managedBy="system" name="parameterName" required="true" type="string">stats_db_name</PARAM>
|
||||||
|
<PARAM managedBy="user" name="parameterValue" required="true" type="string"></PARAM>
|
||||||
|
</PARAMETERS>
|
||||||
|
<ARCS>
|
||||||
|
<ARC to="waitConfig"/>
|
||||||
|
</ARCS>
|
||||||
|
</NODE>
|
||||||
|
|
||||||
|
<NODE isJoin="true" name="waitConfig">
|
||||||
|
<DESCRIPTION>wait configurations</DESCRIPTION>
|
||||||
|
<PARAMETERS/>
|
||||||
|
<ARCS>
|
||||||
|
<ARC to="updateStatsDB"/>
|
||||||
|
</ARCS>
|
||||||
|
</NODE>
|
||||||
|
<NODE name="updateStatsDB" type="SubmitHadoopJob">
|
||||||
|
<DESCRIPTION>create the AGGREGATOR graph</DESCRIPTION>
|
||||||
|
<PARAMETERS>
|
||||||
|
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||||
|
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||||
|
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||||
|
{
|
||||||
|
'openaire_db_name' : 'openaire_db_name',
|
||||||
|
'stats_db_name' : 'stats_db_name'
|
||||||
|
}
|
||||||
|
</PARAM>
|
||||||
|
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||||
|
{
|
||||||
|
'oozie.wf.application.path' : '/lib/dnet/oa/graph/stats/oozie_app',
|
||||||
|
'hive_timeout' : '3000'
|
||||||
|
}
|
||||||
|
</PARAM>
|
||||||
|
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||||
|
</PARAMETERS>
|
||||||
|
<ARCS>
|
||||||
|
<ARC to="success"/>
|
||||||
|
</ARCS>
|
||||||
|
</NODE>
|
||||||
|
|
||||||
|
</CONFIGURATION>
|
||||||
|
<STATUS>
|
||||||
|
<LAST_EXECUTION_ID>wf_20200615_163630_609</LAST_EXECUTION_ID>
|
||||||
|
<LAST_EXECUTION_DATE>2020-06-15T17:08:00+00:00</LAST_EXECUTION_DATE>
|
||||||
|
<LAST_EXECUTION_STATUS>SUCCESS</LAST_EXECUTION_STATUS>
|
||||||
|
<LAST_EXECUTION_ERROR/>
|
||||||
|
</STATUS>
|
||||||
|
</BODY>
|
||||||
|
</RESOURCE_PROFILE>
|
|
@ -6,7 +6,7 @@
|
||||||
<parent>
|
<parent>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<artifactId>dhp</artifactId>
|
<artifactId>dhp</artifactId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
<relativePath>../</relativePath>
|
<relativePath>../</relativePath>
|
||||||
</parent>
|
</parent>
|
||||||
|
|
||||||
|
|
2
pom.xml
2
pom.xml
|
@ -3,7 +3,7 @@
|
||||||
<modelVersion>4.0.0</modelVersion>
|
<modelVersion>4.0.0</modelVersion>
|
||||||
<groupId>eu.dnetlib.dhp</groupId>
|
<groupId>eu.dnetlib.dhp</groupId>
|
||||||
<artifactId>dhp</artifactId>
|
<artifactId>dhp</artifactId>
|
||||||
<version>1.2.3-SNAPSHOT</version>
|
<version>1.2.4-SNAPSHOT</version>
|
||||||
<packaging>pom</packaging>
|
<packaging>pom</packaging>
|
||||||
|
|
||||||
<licenses>
|
<licenses>
|
||||||
|
|
Loading…
Reference in New Issue