forked from D-Net/dnet-hadoop
merge upstream
This commit is contained in:
commit
c133a23cf0
|
@ -1,5 +1,7 @@
|
||||||
<?xml version="1.0" encoding="UTF-8"?>
|
<?xml version="1.0" encoding="UTF-8"?>
|
||||||
<project xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd">
|
<project xmlns="http://maven.apache.org/POM/4.0.0"
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||||||
|
xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
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||||||
|
xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd">
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||||||
<parent>
|
<parent>
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||||||
<artifactId>dhp-workflows</artifactId>
|
<artifactId>dhp-workflows</artifactId>
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||||||
<groupId>eu.dnetlib.dhp</groupId>
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<groupId>eu.dnetlib.dhp</groupId>
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||||||
|
@ -24,6 +26,10 @@
|
||||||
<groupId>org.apache.spark</groupId>
|
<groupId>org.apache.spark</groupId>
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||||||
<artifactId>spark-sql_2.11</artifactId>
|
<artifactId>spark-sql_2.11</artifactId>
|
||||||
</dependency>
|
</dependency>
|
||||||
|
<dependency>
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||||||
|
<groupId>org.elasticsearch</groupId>
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||||||
|
<artifactId>elasticsearch-hadoop</artifactId>
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||||||
|
</dependency>
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||||||
|
|
||||||
|
|
||||||
<dependency>
|
<dependency>
|
||||||
|
@ -53,7 +59,7 @@
|
||||||
<dependency>
|
<dependency>
|
||||||
<groupId>eu.dnetlib</groupId>
|
<groupId>eu.dnetlib</groupId>
|
||||||
<artifactId>dnet-openaire-broker-common</artifactId>
|
<artifactId>dnet-openaire-broker-common</artifactId>
|
||||||
<version>[3.0.3,4.0.0)</version>
|
<version>[3.0.4,4.0.0)</version>
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||||||
</dependency>
|
</dependency>
|
||||||
|
|
||||||
</dependencies>
|
</dependencies>
|
||||||
|
|
|
@ -2,7 +2,6 @@
|
||||||
package eu.dnetlib.dhp.broker.model;
|
package eu.dnetlib.dhp.broker.model;
|
||||||
|
|
||||||
import java.io.Serializable;
|
import java.io.Serializable;
|
||||||
import java.util.Map;
|
|
||||||
|
|
||||||
public class Event implements Serializable {
|
public class Event implements Serializable {
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||||||
|
|
||||||
|
@ -25,7 +24,7 @@ public class Event implements Serializable {
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||||||
|
|
||||||
private boolean instantMessage;
|
private boolean instantMessage;
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||||||
|
|
||||||
private Map<String, Object> map;
|
private MappedFields map;
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||||||
|
|
||||||
public Event() {
|
public Event() {
|
||||||
}
|
}
|
||||||
|
@ -33,7 +32,7 @@ public class Event implements Serializable {
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public Event(final String producerId, final String eventId, final String topic, final String payload,
|
public Event(final String producerId, final String eventId, final String topic, final String payload,
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||||||
final Long creationDate, final Long expiryDate,
|
final Long creationDate, final Long expiryDate,
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final boolean instantMessage,
|
final boolean instantMessage,
|
||||||
final Map<String, Object> map) {
|
final MappedFields map) {
|
||||||
this.producerId = producerId;
|
this.producerId = producerId;
|
||||||
this.eventId = eventId;
|
this.eventId = eventId;
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||||||
this.topic = topic;
|
this.topic = topic;
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||||||
|
@ -100,11 +99,11 @@ public class Event implements Serializable {
|
||||||
this.instantMessage = instantMessage;
|
this.instantMessage = instantMessage;
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||||||
}
|
}
|
||||||
|
|
||||||
public Map<String, Object> getMap() {
|
public MappedFields getMap() {
|
||||||
return this.map;
|
return this.map;
|
||||||
}
|
}
|
||||||
|
|
||||||
public void setMap(final Map<String, Object> map) {
|
public void setMap(final MappedFields map) {
|
||||||
this.map = map;
|
this.map = map;
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
|
|
|
@ -3,9 +3,8 @@ package eu.dnetlib.dhp.broker.model;
|
||||||
|
|
||||||
import java.text.ParseException;
|
import java.text.ParseException;
|
||||||
import java.util.Date;
|
import java.util.Date;
|
||||||
import java.util.HashMap;
|
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
import java.util.Map;
|
import java.util.stream.Collectors;
|
||||||
|
|
||||||
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;
|
||||||
|
@ -30,10 +29,10 @@ public class EventFactory {
|
||||||
|
|
||||||
final Event res = new Event();
|
final Event res = new Event();
|
||||||
|
|
||||||
final Map<String, Object> map = createMapFromResult(updateInfo);
|
final MappedFields map = createMapFromResult(updateInfo);
|
||||||
|
|
||||||
final String eventId = calculateEventId(
|
final String eventId = calculateEventId(
|
||||||
updateInfo.getTopicPath(), updateInfo.getTarget().getOriginalId(), updateInfo.getHighlightValueAsString());
|
updateInfo.getTopicPath(), updateInfo.getTarget().getOpenaireId(), updateInfo.getHighlightValueAsString());
|
||||||
|
|
||||||
res.setEventId(eventId);
|
res.setEventId(eventId);
|
||||||
res.setProducerId(PRODUCER_ID);
|
res.setProducerId(PRODUCER_ID);
|
||||||
|
@ -43,38 +42,41 @@ public class EventFactory {
|
||||||
res.setCreationDate(now);
|
res.setCreationDate(now);
|
||||||
res.setExpiryDate(calculateExpiryDate(now));
|
res.setExpiryDate(calculateExpiryDate(now));
|
||||||
res.setInstantMessage(false);
|
res.setInstantMessage(false);
|
||||||
|
|
||||||
return res;
|
return res;
|
||||||
}
|
}
|
||||||
|
|
||||||
private static Map<String, Object> createMapFromResult(final UpdateInfo<?> updateInfo) {
|
private static MappedFields createMapFromResult(final UpdateInfo<?> updateInfo) {
|
||||||
final Map<String, Object> map = new HashMap<>();
|
final MappedFields map = new MappedFields();
|
||||||
|
|
||||||
final OaBrokerMainEntity source = updateInfo.getSource();
|
final OaBrokerMainEntity source = updateInfo.getSource();
|
||||||
final OaBrokerMainEntity target = updateInfo.getTarget();
|
final OaBrokerMainEntity target = updateInfo.getTarget();
|
||||||
|
|
||||||
map.put("target_datasource_id", target.getCollectedFromId());
|
map.setTargetDatasourceId(target.getCollectedFromId());
|
||||||
map.put("target_datasource_name", target.getCollectedFromName());
|
map.setTargetDatasourceName(target.getCollectedFromName());
|
||||||
|
map.setTargetDatasourceType(target.getCollectedFromType());
|
||||||
|
|
||||||
map.put("target_publication_id", target.getOriginalId());
|
map.setTargetResultId(target.getOpenaireId());
|
||||||
|
|
||||||
final List<String> titles = target.getTitles();
|
final List<String> titles = target.getTitles();
|
||||||
if (titles.size() > 0) {
|
if (titles.size() > 0) {
|
||||||
map.put("target_publication_title", titles.get(0));
|
map.setTargetResultTitle(titles.get(0));
|
||||||
}
|
}
|
||||||
|
|
||||||
final long date = parseDateTolong(target.getPublicationdate());
|
final long date = parseDateTolong(target.getPublicationdate());
|
||||||
if (date > 0) {
|
if (date > 0) {
|
||||||
map.put("target_dateofacceptance", date);
|
map.setTargetDateofacceptance(date);
|
||||||
}
|
}
|
||||||
|
|
||||||
map.put("target_publication_subject_list", target.getSubjects());
|
map.setTargetSubjects(target.getSubjects().stream().map(s -> s.getValue()).collect(Collectors.toList()));
|
||||||
map.put("target_publication_author_list", target.getCreators());
|
map.setTargetAuthors(target.getCreators().stream().map(a -> a.getFullname()).collect(Collectors.toList()));
|
||||||
|
|
||||||
// PROVENANCE INFO
|
// PROVENANCE INFO
|
||||||
map.put("trust", updateInfo.getTrust());
|
map.setTrust(updateInfo.getTrust());
|
||||||
map.put("provenance_datasource_id", source.getCollectedFromId());
|
map.setProvenanceDatasourceId(source.getCollectedFromId());
|
||||||
map.put("provenance_datasource_name", source.getCollectedFromName());
|
map.setProvenanceDatasourceName(source.getCollectedFromName());
|
||||||
map.put("provenance_publication_id_list", source.getOriginalId());
|
map.setProvenanceDatasourceType(source.getCollectedFromType());
|
||||||
|
map.setProvenanceResultId(source.getOpenaireId());
|
||||||
|
|
||||||
return map;
|
return map;
|
||||||
}
|
}
|
||||||
|
|
|
@ -0,0 +1,136 @@
|
||||||
|
|
||||||
|
package eu.dnetlib.dhp.broker.model;
|
||||||
|
|
||||||
|
import java.io.Serializable;
|
||||||
|
import java.util.List;
|
||||||
|
|
||||||
|
public class MappedFields implements Serializable {
|
||||||
|
|
||||||
|
/**
|
||||||
|
*
|
||||||
|
*/
|
||||||
|
private static final long serialVersionUID = -7999704113195802008L;
|
||||||
|
|
||||||
|
private String targetDatasourceId;
|
||||||
|
private String targetDatasourceName;
|
||||||
|
private String targetDatasourceType;
|
||||||
|
private String targetResultId;
|
||||||
|
private String targetResultTitle;
|
||||||
|
private long targetDateofacceptance;
|
||||||
|
private List<String> targetSubjects;
|
||||||
|
private List<String> targetAuthors;
|
||||||
|
private float trust;
|
||||||
|
private String provenanceDatasourceId;
|
||||||
|
private String provenanceDatasourceName;
|
||||||
|
private String provenanceDatasourceType;
|
||||||
|
private String provenanceResultId;
|
||||||
|
|
||||||
|
public String getTargetDatasourceId() {
|
||||||
|
return targetDatasourceId;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setTargetDatasourceId(final String targetDatasourceId) {
|
||||||
|
this.targetDatasourceId = targetDatasourceId;
|
||||||
|
}
|
||||||
|
|
||||||
|
public String getTargetDatasourceName() {
|
||||||
|
return targetDatasourceName;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setTargetDatasourceName(final String targetDatasourceName) {
|
||||||
|
this.targetDatasourceName = targetDatasourceName;
|
||||||
|
}
|
||||||
|
|
||||||
|
public String getTargetDatasourceType() {
|
||||||
|
return targetDatasourceType;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setTargetDatasourceType(final String targetDatasourceType) {
|
||||||
|
this.targetDatasourceType = targetDatasourceType;
|
||||||
|
}
|
||||||
|
|
||||||
|
public String getTargetResultId() {
|
||||||
|
return targetResultId;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setTargetResultId(final String targetResultId) {
|
||||||
|
this.targetResultId = targetResultId;
|
||||||
|
}
|
||||||
|
|
||||||
|
public String getTargetResultTitle() {
|
||||||
|
return targetResultTitle;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setTargetResultTitle(final String targetResultTitle) {
|
||||||
|
this.targetResultTitle = targetResultTitle;
|
||||||
|
}
|
||||||
|
|
||||||
|
public long getTargetDateofacceptance() {
|
||||||
|
return targetDateofacceptance;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setTargetDateofacceptance(final long targetDateofacceptance) {
|
||||||
|
this.targetDateofacceptance = targetDateofacceptance;
|
||||||
|
}
|
||||||
|
|
||||||
|
public List<String> getTargetSubjects() {
|
||||||
|
return targetSubjects;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setTargetSubjects(final List<String> targetSubjects) {
|
||||||
|
this.targetSubjects = targetSubjects;
|
||||||
|
}
|
||||||
|
|
||||||
|
public List<String> getTargetAuthors() {
|
||||||
|
return targetAuthors;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setTargetAuthors(final List<String> targetAuthors) {
|
||||||
|
this.targetAuthors = targetAuthors;
|
||||||
|
}
|
||||||
|
|
||||||
|
public float getTrust() {
|
||||||
|
return trust;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setTrust(final float trust) {
|
||||||
|
this.trust = trust;
|
||||||
|
}
|
||||||
|
|
||||||
|
public String getProvenanceDatasourceId() {
|
||||||
|
return provenanceDatasourceId;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setProvenanceDatasourceId(final String provenanceDatasourceId) {
|
||||||
|
this.provenanceDatasourceId = provenanceDatasourceId;
|
||||||
|
}
|
||||||
|
|
||||||
|
public String getProvenanceDatasourceName() {
|
||||||
|
return provenanceDatasourceName;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setProvenanceDatasourceName(final String provenanceDatasourceName) {
|
||||||
|
this.provenanceDatasourceName = provenanceDatasourceName;
|
||||||
|
}
|
||||||
|
|
||||||
|
public String getProvenanceDatasourceType() {
|
||||||
|
return provenanceDatasourceType;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setProvenanceDatasourceType(final String provenanceDatasourceType) {
|
||||||
|
this.provenanceDatasourceType = provenanceDatasourceType;
|
||||||
|
}
|
||||||
|
|
||||||
|
public String getProvenanceResultId() {
|
||||||
|
return provenanceResultId;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setProvenanceResultId(final String provenanceResultId) {
|
||||||
|
this.provenanceResultId = provenanceResultId;
|
||||||
|
}
|
||||||
|
|
||||||
|
public static long getSerialversionuid() {
|
||||||
|
return serialVersionUID;
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -3,14 +3,20 @@ package eu.dnetlib.dhp.broker.oa;
|
||||||
|
|
||||||
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
|
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
|
||||||
|
|
||||||
|
import java.util.Arrays;
|
||||||
|
import java.util.HashSet;
|
||||||
|
import java.util.Map;
|
||||||
import java.util.Optional;
|
import java.util.Optional;
|
||||||
|
import java.util.Set;
|
||||||
|
import java.util.stream.Collectors;
|
||||||
|
|
||||||
import org.apache.commons.io.IOUtils;
|
import org.apache.commons.io.IOUtils;
|
||||||
|
import org.apache.commons.lang3.StringUtils;
|
||||||
import org.apache.spark.SparkConf;
|
import org.apache.spark.SparkConf;
|
||||||
import org.apache.spark.api.java.function.MapFunction;
|
import org.apache.spark.SparkContext;
|
||||||
import org.apache.spark.sql.Dataset;
|
import org.apache.spark.sql.Dataset;
|
||||||
import org.apache.spark.sql.Encoders;
|
import org.apache.spark.sql.Encoders;
|
||||||
import org.apache.spark.sql.SaveMode;
|
import org.apache.spark.util.LongAccumulator;
|
||||||
import org.slf4j.Logger;
|
import org.slf4j.Logger;
|
||||||
import org.slf4j.LoggerFactory;
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
|
@ -18,6 +24,7 @@ import com.fasterxml.jackson.databind.ObjectMapper;
|
||||||
|
|
||||||
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
||||||
import eu.dnetlib.dhp.broker.model.Event;
|
import eu.dnetlib.dhp.broker.model.Event;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
import eu.dnetlib.dhp.broker.oa.util.ClusterUtils;
|
import eu.dnetlib.dhp.broker.oa.util.ClusterUtils;
|
||||||
import eu.dnetlib.dhp.broker.oa.util.EventFinder;
|
import eu.dnetlib.dhp.broker.oa.util.EventFinder;
|
||||||
import eu.dnetlib.dhp.broker.oa.util.EventGroup;
|
import eu.dnetlib.dhp.broker.oa.util.EventGroup;
|
||||||
|
@ -44,9 +51,6 @@ public class GenerateEventsJob {
|
||||||
.orElse(Boolean.TRUE);
|
.orElse(Boolean.TRUE);
|
||||||
log.info("isSparkSessionManaged: {}", isSparkSessionManaged);
|
log.info("isSparkSessionManaged: {}", isSparkSessionManaged);
|
||||||
|
|
||||||
final String graphPath = parser.get("graphPath");
|
|
||||||
log.info("graphPath: {}", graphPath);
|
|
||||||
|
|
||||||
final String workingPath = parser.get("workingPath");
|
final String workingPath = parser.get("workingPath");
|
||||||
log.info("workingPath: {}", workingPath);
|
log.info("workingPath: {}", workingPath);
|
||||||
|
|
||||||
|
@ -56,9 +60,18 @@ public class GenerateEventsJob {
|
||||||
final String dedupConfigProfileId = parser.get("dedupConfProfile");
|
final String dedupConfigProfileId = parser.get("dedupConfProfile");
|
||||||
log.info("dedupConfigProfileId: {}", dedupConfigProfileId);
|
log.info("dedupConfigProfileId: {}", dedupConfigProfileId);
|
||||||
|
|
||||||
final String eventsPath = workingPath + "/eventsPath";
|
final String eventsPath = workingPath + "/events";
|
||||||
log.info("eventsPath: {}", eventsPath);
|
log.info("eventsPath: {}", eventsPath);
|
||||||
|
|
||||||
|
final Set<String> dsIdWhitelist = parseParamAsList(parser, "datasourceIdWhitelist");
|
||||||
|
log.info("datasourceIdWhitelist: {}", StringUtils.join(dsIdWhitelist, ","));
|
||||||
|
|
||||||
|
final Set<String> dsTypeWhitelist = parseParamAsList(parser, "datasourceTypeWhitelist");
|
||||||
|
log.info("datasourceTypeWhitelist: {}", StringUtils.join(dsTypeWhitelist, ","));
|
||||||
|
|
||||||
|
final Set<String> dsIdBlacklist = parseParamAsList(parser, "datasourceIdBlacklist");
|
||||||
|
log.info("datasourceIdBlacklist: {}", StringUtils.join(dsIdBlacklist, ","));
|
||||||
|
|
||||||
final SparkConf conf = new SparkConf();
|
final SparkConf conf = new SparkConf();
|
||||||
|
|
||||||
// TODO UNCOMMENT
|
// TODO UNCOMMENT
|
||||||
|
@ -69,21 +82,54 @@ public class GenerateEventsJob {
|
||||||
|
|
||||||
ClusterUtils.removeDir(spark, eventsPath);
|
ClusterUtils.removeDir(spark, eventsPath);
|
||||||
|
|
||||||
|
final Map<String, LongAccumulator> accumulators = prepareAccumulators(spark.sparkContext());
|
||||||
|
|
||||||
|
final LongAccumulator total = spark.sparkContext().longAccumulator("total_events");
|
||||||
|
|
||||||
final Dataset<ResultGroup> groups = ClusterUtils
|
final Dataset<ResultGroup> groups = ClusterUtils
|
||||||
.readPath(spark, graphPath + "/relation", ResultGroup.class);
|
.readPath(spark, workingPath + "/duplicates", ResultGroup.class);
|
||||||
|
|
||||||
final Dataset<Event> events = groups
|
final Dataset<Event> dataset = groups
|
||||||
.map(
|
.map(
|
||||||
(MapFunction<ResultGroup, EventGroup>) g -> EventFinder.generateEvents(g, dedupConfig),
|
g -> EventFinder
|
||||||
Encoders.bean(EventGroup.class))
|
.generateEvents(g, dsIdWhitelist, dsIdBlacklist, dsTypeWhitelist, dedupConfig, accumulators),
|
||||||
.flatMap(group -> group.getData().iterator(), Encoders.bean(Event.class));
|
Encoders
|
||||||
|
.bean(EventGroup.class))
|
||||||
|
.flatMap(g -> g.getData().iterator(), Encoders.bean(Event.class));
|
||||||
|
|
||||||
events.write().mode(SaveMode.Overwrite).json(eventsPath);
|
ClusterUtils.save(dataset, eventsPath, Event.class, total);
|
||||||
|
|
||||||
});
|
});
|
||||||
|
|
||||||
}
|
}
|
||||||
|
|
||||||
|
private static Set<String> parseParamAsList(final ArgumentApplicationParser parser, final String key) {
|
||||||
|
final String s = parser.get(key).trim();
|
||||||
|
|
||||||
|
final Set<String> res = new HashSet<>();
|
||||||
|
|
||||||
|
if (s.length() > 1) { // A value of a single char (for example: '-') indicates an empty list
|
||||||
|
Arrays
|
||||||
|
.stream(s.split(","))
|
||||||
|
.map(String::trim)
|
||||||
|
.filter(StringUtils::isNotBlank)
|
||||||
|
.forEach(res::add);
|
||||||
|
}
|
||||||
|
|
||||||
|
return res;
|
||||||
|
}
|
||||||
|
|
||||||
|
public static Map<String, LongAccumulator> prepareAccumulators(final SparkContext sc) {
|
||||||
|
|
||||||
|
return EventFinder
|
||||||
|
.getMatchers()
|
||||||
|
.stream()
|
||||||
|
.map(UpdateMatcher::accumulatorName)
|
||||||
|
.distinct()
|
||||||
|
.collect(Collectors.toMap(s -> s, s -> sc.longAccumulator(s)));
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
private static DedupConfig loadDedupConfig(final String isLookupUrl, final String profId) throws Exception {
|
private static DedupConfig loadDedupConfig(final String isLookupUrl, final String profId) throws Exception {
|
||||||
|
|
||||||
final ISLookUpService isLookUpService = ISLookupClientFactory.getLookUpService(isLookupUrl);
|
final ISLookUpService isLookUpService = ISLookupClientFactory.getLookUpService(isLookupUrl);
|
||||||
|
|
|
@ -0,0 +1,71 @@
|
||||||
|
|
||||||
|
package eu.dnetlib.dhp.broker.oa;
|
||||||
|
|
||||||
|
import java.util.HashMap;
|
||||||
|
import java.util.Map;
|
||||||
|
|
||||||
|
import org.apache.commons.io.IOUtils;
|
||||||
|
import org.apache.spark.SparkConf;
|
||||||
|
import org.apache.spark.api.java.JavaRDD;
|
||||||
|
import org.apache.spark.sql.Encoders;
|
||||||
|
import org.apache.spark.sql.SparkSession;
|
||||||
|
import org.elasticsearch.spark.rdd.api.java.JavaEsSpark;
|
||||||
|
import org.slf4j.Logger;
|
||||||
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
|
import com.fasterxml.jackson.core.JsonProcessingException;
|
||||||
|
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;
|
||||||
|
|
||||||
|
public class IndexOnESJob {
|
||||||
|
|
||||||
|
private static final Logger log = LoggerFactory.getLogger(IndexOnESJob.class);
|
||||||
|
|
||||||
|
public static void main(final String[] args) throws Exception {
|
||||||
|
|
||||||
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
|
IOUtils
|
||||||
|
.toString(
|
||||||
|
IndexOnESJob.class
|
||||||
|
.getResourceAsStream("/eu/dnetlib/dhp/broker/oa/index_es.json")));
|
||||||
|
parser.parseArgument(args);
|
||||||
|
|
||||||
|
final SparkConf conf = new SparkConf();
|
||||||
|
|
||||||
|
final String eventsPath = parser.get("workingPath") + "/events";
|
||||||
|
log.info("eventsPath: {}", eventsPath);
|
||||||
|
|
||||||
|
final String index = parser.get("index");
|
||||||
|
log.info("index: {}", index);
|
||||||
|
|
||||||
|
final String indexHost = parser.get("esHost");
|
||||||
|
log.info("indexHost: {}", indexHost);
|
||||||
|
|
||||||
|
final SparkSession spark = SparkSession.builder().config(conf).getOrCreate();
|
||||||
|
|
||||||
|
final JavaRDD<String> inputRdd = ClusterUtils
|
||||||
|
.readPath(spark, eventsPath, Event.class)
|
||||||
|
.limit(10000) // TODO REMOVE
|
||||||
|
.map(IndexOnESJob::eventAsJsonString, Encoders.STRING())
|
||||||
|
.javaRDD();
|
||||||
|
|
||||||
|
final Map<String, String> esCfg = new HashMap<>();
|
||||||
|
// esCfg.put("es.nodes", "10.19.65.51, 10.19.65.52, 10.19.65.53, 10.19.65.54");
|
||||||
|
esCfg.put("es.nodes", indexHost);
|
||||||
|
esCfg.put("es.mapping.id", "eventId"); // THE PRIMARY KEY
|
||||||
|
esCfg.put("es.batch.write.retry.count", "8");
|
||||||
|
esCfg.put("es.batch.write.retry.wait", "60s");
|
||||||
|
esCfg.put("es.batch.size.entries", "200");
|
||||||
|
esCfg.put("es.nodes.wan.only", "true");
|
||||||
|
|
||||||
|
JavaEsSpark.saveJsonToEs(inputRdd, index, esCfg);
|
||||||
|
}
|
||||||
|
|
||||||
|
private static String eventAsJsonString(final Event f) throws JsonProcessingException {
|
||||||
|
return new ObjectMapper().writeValueAsString(f);
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -1,94 +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.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.ClusterUtils;
|
|
||||||
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.OaBrokerMainEntityAggregator;
|
|
||||||
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedDataset;
|
|
||||||
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedProject;
|
|
||||||
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedPublication;
|
|
||||||
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedSoftware;
|
|
||||||
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 graphPath = parser.get("graphPath");
|
|
||||||
log.info("graphPath: {}", graphPath);
|
|
||||||
|
|
||||||
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, graphPath + "/simpleEntities", OaBrokerMainEntity.class);
|
|
||||||
|
|
||||||
final Dataset<OaBrokerMainEntity> r1 = join(
|
|
||||||
r0, ClusterUtils.readPath(spark, graphPath + "/relatedProjects", RelatedProject.class));
|
|
||||||
final Dataset<OaBrokerMainEntity> r2 = join(
|
|
||||||
r1, ClusterUtils.readPath(spark, graphPath + "/relatedDatasets", RelatedDataset.class));
|
|
||||||
final Dataset<OaBrokerMainEntity> r3 = join(
|
|
||||||
r2, ClusterUtils.readPath(spark, graphPath + "/relatedPublications", RelatedPublication.class));
|
|
||||||
final Dataset<OaBrokerMainEntity> r4 = join(
|
|
||||||
r3, ClusterUtils.readPath(spark, graphPath + "/relatedSoftwares", RelatedSoftware.class));
|
|
||||||
|
|
||||||
r4.write().mode(SaveMode.Overwrite).json(joinedEntitiesPath);
|
|
||||||
|
|
||||||
});
|
|
||||||
|
|
||||||
}
|
|
||||||
|
|
||||||
private static <T> Dataset<OaBrokerMainEntity> join(final Dataset<OaBrokerMainEntity> sources,
|
|
||||||
final Dataset<T> typedRels) {
|
|
||||||
|
|
||||||
final TypedColumn<Tuple2<OaBrokerMainEntity, T>, OaBrokerMainEntity> aggr = new OaBrokerMainEntityAggregator<T>()
|
|
||||||
.toColumn();
|
|
||||||
|
|
||||||
return sources
|
|
||||||
.joinWith(typedRels, sources.col("openaireId").equalTo(typedRels.col("source")), "left_outer")
|
|
||||||
.groupByKey(
|
|
||||||
(MapFunction<Tuple2<OaBrokerMainEntity, T>, String>) t -> t._1.getOpenaireId(), Encoders.STRING())
|
|
||||||
.agg(aggr)
|
|
||||||
.map(t -> t._2, Encoders.bean(OaBrokerMainEntity.class));
|
|
||||||
|
|
||||||
}
|
|
||||||
|
|
||||||
}
|
|
|
@ -0,0 +1,80 @@
|
||||||
|
|
||||||
|
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.TypedColumn;
|
||||||
|
import org.apache.spark.util.LongAccumulator;
|
||||||
|
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.AddDatasourceTypeAggregator;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.SimpleDatasourceInfo;
|
||||||
|
import scala.Tuple2;
|
||||||
|
|
||||||
|
public class JoinStep0Job {
|
||||||
|
|
||||||
|
private static final Logger log = LoggerFactory.getLogger(JoinStep0Job.class);
|
||||||
|
|
||||||
|
public static void main(final String[] args) throws Exception {
|
||||||
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
|
IOUtils
|
||||||
|
.toString(
|
||||||
|
JoinStep0Job.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 outputPath = workingPath + "/joinedEntities_step0";
|
||||||
|
log.info("outputPath: {}", outputPath);
|
||||||
|
|
||||||
|
final SparkConf conf = new SparkConf();
|
||||||
|
|
||||||
|
runWithSparkSession(conf, isSparkSessionManaged, spark -> {
|
||||||
|
|
||||||
|
ClusterUtils.removeDir(spark, outputPath);
|
||||||
|
|
||||||
|
final LongAccumulator total = spark.sparkContext().longAccumulator("total_entities");
|
||||||
|
|
||||||
|
final Dataset<OaBrokerMainEntity> sources = ClusterUtils
|
||||||
|
.readPath(spark, workingPath + "/simpleEntities", OaBrokerMainEntity.class);
|
||||||
|
|
||||||
|
final Dataset<SimpleDatasourceInfo> datasources = ClusterUtils
|
||||||
|
.readPath(spark, workingPath + "/datasources", SimpleDatasourceInfo.class);
|
||||||
|
|
||||||
|
final TypedColumn<Tuple2<OaBrokerMainEntity, SimpleDatasourceInfo>, OaBrokerMainEntity> aggr = new AddDatasourceTypeAggregator()
|
||||||
|
.toColumn();
|
||||||
|
|
||||||
|
final Dataset<OaBrokerMainEntity> dataset = sources
|
||||||
|
.joinWith(datasources, sources.col("collectedFromId").equalTo(datasources.col("id")), "inner")
|
||||||
|
.groupByKey(t -> t._1.getOpenaireId(), Encoders.STRING())
|
||||||
|
.agg(aggr)
|
||||||
|
.map(t -> t._2, Encoders.bean(OaBrokerMainEntity.class));
|
||||||
|
|
||||||
|
ClusterUtils.save(dataset, outputPath, OaBrokerMainEntity.class, total);
|
||||||
|
|
||||||
|
});
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -0,0 +1,80 @@
|
||||||
|
|
||||||
|
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.TypedColumn;
|
||||||
|
import org.apache.spark.util.LongAccumulator;
|
||||||
|
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 JoinStep1Job {
|
||||||
|
|
||||||
|
private static final Logger log = LoggerFactory.getLogger(JoinStep1Job.class);
|
||||||
|
|
||||||
|
public static void main(final String[] args) throws Exception {
|
||||||
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
|
IOUtils
|
||||||
|
.toString(
|
||||||
|
JoinStep1Job.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_step1";
|
||||||
|
log.info("joinedEntitiesPath: {}", joinedEntitiesPath);
|
||||||
|
|
||||||
|
final SparkConf conf = new SparkConf();
|
||||||
|
|
||||||
|
runWithSparkSession(conf, isSparkSessionManaged, spark -> {
|
||||||
|
|
||||||
|
ClusterUtils.removeDir(spark, joinedEntitiesPath);
|
||||||
|
|
||||||
|
final LongAccumulator total = spark.sparkContext().longAccumulator("total_entities");
|
||||||
|
|
||||||
|
final Dataset<OaBrokerMainEntity> sources = ClusterUtils
|
||||||
|
.readPath(spark, workingPath + "/joinedEntities_step0", OaBrokerMainEntity.class);
|
||||||
|
|
||||||
|
final Dataset<RelatedProject> typedRels = ClusterUtils
|
||||||
|
.readPath(spark, workingPath + "/relatedProjects", RelatedProject.class);
|
||||||
|
|
||||||
|
final TypedColumn<Tuple2<OaBrokerMainEntity, RelatedProject>, OaBrokerMainEntity> aggr = new RelatedProjectAggregator()
|
||||||
|
.toColumn();
|
||||||
|
|
||||||
|
final Dataset<OaBrokerMainEntity> dataset = sources
|
||||||
|
.joinWith(typedRels, sources.col("openaireId").equalTo(typedRels.col("source")), "left_outer")
|
||||||
|
.groupByKey(
|
||||||
|
(MapFunction<Tuple2<OaBrokerMainEntity, RelatedProject>, String>) t -> t._1.getOpenaireId(),
|
||||||
|
Encoders.STRING())
|
||||||
|
.agg(aggr)
|
||||||
|
.map(t -> t._2, Encoders.bean(OaBrokerMainEntity.class));
|
||||||
|
|
||||||
|
ClusterUtils.save(dataset, joinedEntitiesPath, OaBrokerMainEntity.class, total);
|
||||||
|
|
||||||
|
});
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -0,0 +1,80 @@
|
||||||
|
|
||||||
|
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.TypedColumn;
|
||||||
|
import org.apache.spark.util.LongAccumulator;
|
||||||
|
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.RelatedSoftware;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedSoftwareAggregator;
|
||||||
|
import scala.Tuple2;
|
||||||
|
|
||||||
|
public class JoinStep2Job {
|
||||||
|
|
||||||
|
private static final Logger log = LoggerFactory.getLogger(JoinStep2Job.class);
|
||||||
|
|
||||||
|
public static void main(final String[] args) throws Exception {
|
||||||
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
|
IOUtils
|
||||||
|
.toString(
|
||||||
|
JoinStep2Job.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_step2";
|
||||||
|
log.info("joinedEntitiesPath: {}", joinedEntitiesPath);
|
||||||
|
|
||||||
|
final SparkConf conf = new SparkConf();
|
||||||
|
|
||||||
|
runWithSparkSession(conf, isSparkSessionManaged, spark -> {
|
||||||
|
|
||||||
|
ClusterUtils.removeDir(spark, joinedEntitiesPath);
|
||||||
|
|
||||||
|
final LongAccumulator total = spark.sparkContext().longAccumulator("total_entities");
|
||||||
|
|
||||||
|
final Dataset<OaBrokerMainEntity> sources = ClusterUtils
|
||||||
|
.readPath(spark, workingPath + "/joinedEntities_step1", OaBrokerMainEntity.class);
|
||||||
|
|
||||||
|
final Dataset<RelatedSoftware> typedRels = ClusterUtils
|
||||||
|
.readPath(spark, workingPath + "/relatedSoftwares", RelatedSoftware.class);
|
||||||
|
|
||||||
|
final TypedColumn<Tuple2<OaBrokerMainEntity, RelatedSoftware>, OaBrokerMainEntity> aggr = new RelatedSoftwareAggregator()
|
||||||
|
.toColumn();
|
||||||
|
|
||||||
|
final Dataset<OaBrokerMainEntity> dataset = sources
|
||||||
|
.joinWith(typedRels, sources.col("openaireId").equalTo(typedRels.col("source")), "left_outer")
|
||||||
|
.groupByKey(
|
||||||
|
(MapFunction<Tuple2<OaBrokerMainEntity, RelatedSoftware>, String>) t -> t._1.getOpenaireId(),
|
||||||
|
Encoders.STRING())
|
||||||
|
.agg(aggr)
|
||||||
|
.map(t -> t._2, Encoders.bean(OaBrokerMainEntity.class));
|
||||||
|
|
||||||
|
ClusterUtils.save(dataset, joinedEntitiesPath, OaBrokerMainEntity.class, total);
|
||||||
|
|
||||||
|
});
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -0,0 +1,80 @@
|
||||||
|
|
||||||
|
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.TypedColumn;
|
||||||
|
import org.apache.spark.util.LongAccumulator;
|
||||||
|
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.RelatedDataset;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedDatasetAggregator;
|
||||||
|
import scala.Tuple2;
|
||||||
|
|
||||||
|
public class JoinStep3Job {
|
||||||
|
|
||||||
|
private static final Logger log = LoggerFactory.getLogger(JoinStep3Job.class);
|
||||||
|
|
||||||
|
public static void main(final String[] args) throws Exception {
|
||||||
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
|
IOUtils
|
||||||
|
.toString(
|
||||||
|
JoinStep3Job.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_step3";
|
||||||
|
log.info("joinedEntitiesPath: {}", joinedEntitiesPath);
|
||||||
|
|
||||||
|
final SparkConf conf = new SparkConf();
|
||||||
|
|
||||||
|
runWithSparkSession(conf, isSparkSessionManaged, spark -> {
|
||||||
|
|
||||||
|
ClusterUtils.removeDir(spark, joinedEntitiesPath);
|
||||||
|
|
||||||
|
final LongAccumulator total = spark.sparkContext().longAccumulator("total_entities");
|
||||||
|
|
||||||
|
final Dataset<OaBrokerMainEntity> sources = ClusterUtils
|
||||||
|
.readPath(spark, workingPath + "/joinedEntities_step2", OaBrokerMainEntity.class);
|
||||||
|
|
||||||
|
final Dataset<RelatedDataset> typedRels = ClusterUtils
|
||||||
|
.readPath(spark, workingPath + "/relatedDatasets", RelatedDataset.class);
|
||||||
|
|
||||||
|
final TypedColumn<Tuple2<OaBrokerMainEntity, RelatedDataset>, OaBrokerMainEntity> aggr = new RelatedDatasetAggregator()
|
||||||
|
.toColumn();
|
||||||
|
|
||||||
|
final Dataset<OaBrokerMainEntity> dataset = sources
|
||||||
|
.joinWith(typedRels, sources.col("openaireId").equalTo(typedRels.col("source")), "left_outer")
|
||||||
|
.groupByKey(
|
||||||
|
(MapFunction<Tuple2<OaBrokerMainEntity, RelatedDataset>, String>) t -> t._1.getOpenaireId(),
|
||||||
|
Encoders.STRING())
|
||||||
|
.agg(aggr)
|
||||||
|
.map(t -> t._2, Encoders.bean(OaBrokerMainEntity.class));
|
||||||
|
|
||||||
|
ClusterUtils.save(dataset, joinedEntitiesPath, OaBrokerMainEntity.class, total);
|
||||||
|
|
||||||
|
});
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -0,0 +1,80 @@
|
||||||
|
|
||||||
|
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.TypedColumn;
|
||||||
|
import org.apache.spark.util.LongAccumulator;
|
||||||
|
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.RelatedPublication;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedPublicationAggregator;
|
||||||
|
import scala.Tuple2;
|
||||||
|
|
||||||
|
public class JoinStep4Job {
|
||||||
|
|
||||||
|
private static final Logger log = LoggerFactory.getLogger(JoinStep4Job.class);
|
||||||
|
|
||||||
|
public static void main(final String[] args) throws Exception {
|
||||||
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
|
IOUtils
|
||||||
|
.toString(
|
||||||
|
JoinStep4Job.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_step4";
|
||||||
|
log.info("joinedEntitiesPath: {}", joinedEntitiesPath);
|
||||||
|
|
||||||
|
final SparkConf conf = new SparkConf();
|
||||||
|
|
||||||
|
runWithSparkSession(conf, isSparkSessionManaged, spark -> {
|
||||||
|
|
||||||
|
ClusterUtils.removeDir(spark, joinedEntitiesPath);
|
||||||
|
|
||||||
|
final LongAccumulator total = spark.sparkContext().longAccumulator("total_entities");
|
||||||
|
|
||||||
|
final Dataset<OaBrokerMainEntity> sources = ClusterUtils
|
||||||
|
.readPath(spark, workingPath + "/joinedEntities_step3", OaBrokerMainEntity.class);
|
||||||
|
|
||||||
|
final Dataset<RelatedPublication> typedRels = ClusterUtils
|
||||||
|
.readPath(spark, workingPath + "/relatedPublications", RelatedPublication.class);
|
||||||
|
|
||||||
|
final TypedColumn<Tuple2<OaBrokerMainEntity, RelatedPublication>, OaBrokerMainEntity> aggr = new RelatedPublicationAggregator()
|
||||||
|
.toColumn();
|
||||||
|
|
||||||
|
final Dataset<OaBrokerMainEntity> dataset = sources
|
||||||
|
.joinWith(typedRels, sources.col("openaireId").equalTo(typedRels.col("source")), "left_outer")
|
||||||
|
.groupByKey(
|
||||||
|
(MapFunction<Tuple2<OaBrokerMainEntity, RelatedPublication>, String>) t -> t._1.getOpenaireId(),
|
||||||
|
Encoders.STRING())
|
||||||
|
.agg(aggr)
|
||||||
|
.map(t -> t._2, Encoders.bean(OaBrokerMainEntity.class));
|
||||||
|
|
||||||
|
ClusterUtils.save(dataset, joinedEntitiesPath, OaBrokerMainEntity.class, total);
|
||||||
|
|
||||||
|
});
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -10,8 +10,8 @@ import org.apache.spark.SparkConf;
|
||||||
import org.apache.spark.api.java.function.MapFunction;
|
import org.apache.spark.api.java.function.MapFunction;
|
||||||
import org.apache.spark.sql.Dataset;
|
import org.apache.spark.sql.Dataset;
|
||||||
import org.apache.spark.sql.Encoders;
|
import org.apache.spark.sql.Encoders;
|
||||||
import org.apache.spark.sql.SaveMode;
|
|
||||||
import org.apache.spark.sql.TypedColumn;
|
import org.apache.spark.sql.TypedColumn;
|
||||||
|
import org.apache.spark.util.LongAccumulator;
|
||||||
import org.slf4j.Logger;
|
import org.slf4j.Logger;
|
||||||
import org.slf4j.LoggerFactory;
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
|
@ -32,7 +32,7 @@ public class PrepareGroupsJob {
|
||||||
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
IOUtils
|
IOUtils
|
||||||
.toString(
|
.toString(
|
||||||
JoinEntitiesJob.class
|
PrepareGroupsJob.class
|
||||||
.getResourceAsStream("/eu/dnetlib/dhp/broker/oa/common_params.json")));
|
.getResourceAsStream("/eu/dnetlib/dhp/broker/oa/common_params.json")));
|
||||||
parser.parseArgument(args);
|
parser.parseArgument(args);
|
||||||
|
|
||||||
|
@ -48,7 +48,7 @@ public class PrepareGroupsJob {
|
||||||
final String workingPath = parser.get("workingPath");
|
final String workingPath = parser.get("workingPath");
|
||||||
log.info("workingPath: {}", workingPath);
|
log.info("workingPath: {}", workingPath);
|
||||||
|
|
||||||
final String groupsPath = workingPath + "/groups";
|
final String groupsPath = workingPath + "/duplicates";
|
||||||
log.info("groupsPath: {}", groupsPath);
|
log.info("groupsPath: {}", groupsPath);
|
||||||
|
|
||||||
final SparkConf conf = new SparkConf();
|
final SparkConf conf = new SparkConf();
|
||||||
|
@ -57,8 +57,10 @@ public class PrepareGroupsJob {
|
||||||
|
|
||||||
ClusterUtils.removeDir(spark, groupsPath);
|
ClusterUtils.removeDir(spark, groupsPath);
|
||||||
|
|
||||||
|
final LongAccumulator total = spark.sparkContext().longAccumulator("total_groups");
|
||||||
|
|
||||||
final Dataset<OaBrokerMainEntity> results = ClusterUtils
|
final Dataset<OaBrokerMainEntity> results = ClusterUtils
|
||||||
.readPath(spark, graphPath + "/joinedEntities", OaBrokerMainEntity.class);
|
.readPath(spark, workingPath + "/joinedEntities_step4", OaBrokerMainEntity.class);
|
||||||
|
|
||||||
final Dataset<Relation> mergedRels = ClusterUtils
|
final Dataset<Relation> mergedRels = ClusterUtils
|
||||||
.readPath(spark, graphPath + "/relation", Relation.class)
|
.readPath(spark, graphPath + "/relation", Relation.class)
|
||||||
|
@ -67,20 +69,16 @@ public class PrepareGroupsJob {
|
||||||
final TypedColumn<Tuple2<OaBrokerMainEntity, Relation>, ResultGroup> aggr = new ResultAggregator()
|
final TypedColumn<Tuple2<OaBrokerMainEntity, Relation>, ResultGroup> aggr = new ResultAggregator()
|
||||||
.toColumn();
|
.toColumn();
|
||||||
|
|
||||||
final Dataset<ResultGroup> groups = results
|
final Dataset<ResultGroup> dataset = results
|
||||||
.joinWith(mergedRels, results.col("openaireId").equalTo(mergedRels.col("source")), "inner")
|
.joinWith(mergedRels, results.col("openaireId").equalTo(mergedRels.col("source")), "inner")
|
||||||
.groupByKey(
|
.groupByKey(
|
||||||
(MapFunction<Tuple2<OaBrokerMainEntity, Relation>, String>) t -> t._2.getTarget(),
|
(MapFunction<Tuple2<OaBrokerMainEntity, Relation>, String>) t -> t._2.getTarget(),
|
||||||
Encoders.STRING())
|
Encoders.STRING())
|
||||||
.agg(aggr)
|
.agg(aggr)
|
||||||
.map(
|
.map(t -> t._2, Encoders.bean(ResultGroup.class))
|
||||||
(MapFunction<Tuple2<String, ResultGroup>, ResultGroup>) t -> t._2, Encoders.bean(ResultGroup.class))
|
|
||||||
.filter(rg -> rg.getData().size() > 1);
|
.filter(rg -> rg.getData().size() > 1);
|
||||||
|
|
||||||
groups
|
ClusterUtils.save(dataset, groupsPath, ResultGroup.class, total);
|
||||||
.write()
|
|
||||||
.mode(SaveMode.Overwrite)
|
|
||||||
.json(groupsPath);
|
|
||||||
|
|
||||||
});
|
});
|
||||||
}
|
}
|
||||||
|
|
|
@ -9,14 +9,16 @@ import org.apache.commons.io.IOUtils;
|
||||||
import org.apache.spark.SparkConf;
|
import org.apache.spark.SparkConf;
|
||||||
import org.apache.spark.sql.Dataset;
|
import org.apache.spark.sql.Dataset;
|
||||||
import org.apache.spark.sql.Encoders;
|
import org.apache.spark.sql.Encoders;
|
||||||
import org.apache.spark.sql.SaveMode;
|
import org.apache.spark.util.LongAccumulator;
|
||||||
import org.slf4j.Logger;
|
import org.slf4j.Logger;
|
||||||
import org.slf4j.LoggerFactory;
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerRelatedDataset;
|
||||||
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
||||||
import eu.dnetlib.dhp.broker.oa.util.ClusterUtils;
|
import eu.dnetlib.dhp.broker.oa.util.ClusterUtils;
|
||||||
import eu.dnetlib.dhp.broker.oa.util.ConversionUtils;
|
import eu.dnetlib.dhp.broker.oa.util.ConversionUtils;
|
||||||
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedDataset;
|
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedDataset;
|
||||||
|
import eu.dnetlib.dhp.schema.common.ModelConstants;
|
||||||
import eu.dnetlib.dhp.schema.oaf.Relation;
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
||||||
|
|
||||||
public class PrepareRelatedDatasetsJob {
|
public class PrepareRelatedDatasetsJob {
|
||||||
|
@ -52,22 +54,30 @@ public class PrepareRelatedDatasetsJob {
|
||||||
|
|
||||||
ClusterUtils.removeDir(spark, relsPath);
|
ClusterUtils.removeDir(spark, relsPath);
|
||||||
|
|
||||||
final Dataset<eu.dnetlib.dhp.schema.oaf.Dataset> datasets = ClusterUtils
|
final LongAccumulator total = spark.sparkContext().longAccumulator("total_rels");
|
||||||
.readPath(spark, graphPath + "/dataset", eu.dnetlib.dhp.schema.oaf.Dataset.class);
|
|
||||||
|
|
||||||
final Dataset<Relation> rels = ClusterUtils.readPath(spark, graphPath + "/relation", Relation.class);
|
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));
|
||||||
|
|
||||||
rels
|
final Dataset<Relation> rels = ClusterUtils
|
||||||
.joinWith(datasets, datasets.col("id").equalTo(rels.col("target")), "inner")
|
.readPath(spark, graphPath + "/relation", Relation.class)
|
||||||
.map(
|
.filter(r -> r.getDataInfo().getDeletedbyinference())
|
||||||
t -> new RelatedDataset(
|
.filter(r -> r.getRelType().equals(ModelConstants.RESULT_RESULT))
|
||||||
t._1.getSource(),
|
.filter(r -> ClusterUtils.isValidResultResultClass(r.getRelClass()))
|
||||||
t._1.getRelType(),
|
.filter(r -> !ClusterUtils.isDedupRoot(r.getSource()))
|
||||||
ConversionUtils.oafDatasetToBrokerDataset(t._2)),
|
.filter(r -> !ClusterUtils.isDedupRoot(r.getTarget()));
|
||||||
Encoders.bean(RelatedDataset.class))
|
|
||||||
.write()
|
final Dataset<RelatedDataset> dataset = rels
|
||||||
.mode(SaveMode.Overwrite)
|
.joinWith(datasets, datasets.col("openaireId").equalTo(rels.col("target")), "inner")
|
||||||
.json(relsPath);
|
.map(t -> {
|
||||||
|
final RelatedDataset rel = new RelatedDataset(t._1.getSource(), t._2);
|
||||||
|
rel.getRelDataset().setRelType(t._1.getRelClass());
|
||||||
|
return rel;
|
||||||
|
}, Encoders.bean(RelatedDataset.class));
|
||||||
|
|
||||||
|
ClusterUtils.save(dataset, relsPath, RelatedDataset.class, total);
|
||||||
|
|
||||||
});
|
});
|
||||||
|
|
||||||
|
|
|
@ -0,0 +1,68 @@
|
||||||
|
|
||||||
|
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.util.LongAccumulator;
|
||||||
|
import org.slf4j.Logger;
|
||||||
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.ClusterUtils;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.SimpleDatasourceInfo;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Datasource;
|
||||||
|
|
||||||
|
public class PrepareRelatedDatasourcesJob {
|
||||||
|
|
||||||
|
private static final Logger log = LoggerFactory.getLogger(PrepareRelatedDatasourcesJob.class);
|
||||||
|
|
||||||
|
public static void main(final String[] args) throws Exception {
|
||||||
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
|
IOUtils
|
||||||
|
.toString(
|
||||||
|
PrepareRelatedDatasourcesJob.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 + "/datasources";
|
||||||
|
log.info("relsPath: {}", relsPath);
|
||||||
|
|
||||||
|
final SparkConf conf = new SparkConf();
|
||||||
|
|
||||||
|
runWithSparkSession(conf, isSparkSessionManaged, spark -> {
|
||||||
|
|
||||||
|
ClusterUtils.removeDir(spark, relsPath);
|
||||||
|
|
||||||
|
final LongAccumulator total = spark.sparkContext().longAccumulator("total_datasources");
|
||||||
|
|
||||||
|
final Dataset<SimpleDatasourceInfo> dataset = ClusterUtils
|
||||||
|
.readPath(spark, graphPath + "/datasource", Datasource.class)
|
||||||
|
.map(
|
||||||
|
ds -> new SimpleDatasourceInfo(ds.getId(), ds.getDatasourcetype().getClassid()),
|
||||||
|
Encoders.bean(SimpleDatasourceInfo.class));
|
||||||
|
|
||||||
|
ClusterUtils.save(dataset, relsPath, SimpleDatasourceInfo.class, total);
|
||||||
|
|
||||||
|
});
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -9,13 +9,13 @@ import org.apache.commons.io.IOUtils;
|
||||||
import org.apache.spark.SparkConf;
|
import org.apache.spark.SparkConf;
|
||||||
import org.apache.spark.sql.Dataset;
|
import org.apache.spark.sql.Dataset;
|
||||||
import org.apache.spark.sql.Encoders;
|
import org.apache.spark.sql.Encoders;
|
||||||
import org.apache.spark.sql.SaveMode;
|
import org.apache.spark.util.LongAccumulator;
|
||||||
import org.slf4j.Logger;
|
import org.slf4j.Logger;
|
||||||
import org.slf4j.LoggerFactory;
|
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.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.ClusterUtils;
|
||||||
import eu.dnetlib.dhp.broker.oa.util.ConversionUtils;
|
import eu.dnetlib.dhp.broker.oa.util.ConversionUtils;
|
||||||
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedProject;
|
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedProject;
|
||||||
|
@ -27,8 +27,6 @@ public class PrepareRelatedProjectsJob {
|
||||||
|
|
||||||
private static final Logger log = LoggerFactory.getLogger(PrepareRelatedProjectsJob.class);
|
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 {
|
public static void main(final String[] args) throws Exception {
|
||||||
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
IOUtils
|
IOUtils
|
||||||
|
@ -58,23 +56,27 @@ public class PrepareRelatedProjectsJob {
|
||||||
|
|
||||||
ClusterUtils.removeDir(spark, relsPath);
|
ClusterUtils.removeDir(spark, relsPath);
|
||||||
|
|
||||||
final Dataset<Project> projects = ClusterUtils.readPath(spark, graphPath + "/project", Project.class);
|
final LongAccumulator total = spark.sparkContext().longAccumulator("total_rels");
|
||||||
|
|
||||||
|
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
|
final Dataset<Relation> rels = ClusterUtils
|
||||||
.readPath(spark, graphPath + "/relation", Relation.class)
|
.readPath(spark, graphPath + "/relation", Relation.class)
|
||||||
.filter(r -> r.getRelType().equals(ModelConstants.RESULT_PROJECT));
|
.filter(r -> r.getDataInfo().getDeletedbyinference())
|
||||||
|
.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()));
|
||||||
|
|
||||||
|
final Dataset<RelatedProject> dataset = rels
|
||||||
|
.joinWith(projects, projects.col("openaireId").equalTo(rels.col("target")), "inner")
|
||||||
|
.map(t -> new RelatedProject(t._1.getSource(), t._2), Encoders.bean(RelatedProject.class));
|
||||||
|
|
||||||
|
ClusterUtils.save(dataset, relsPath, RelatedProject.class, total);
|
||||||
|
|
||||||
rels
|
|
||||||
.joinWith(projects, projects.col("id").equalTo(rels.col("target")), "inner")
|
|
||||||
.map(
|
|
||||||
t -> new RelatedProject(
|
|
||||||
t._1.getSource(),
|
|
||||||
t._1.getRelType(),
|
|
||||||
ConversionUtils.oafProjectToBrokerProject(t._2)),
|
|
||||||
Encoders.bean(RelatedProject.class))
|
|
||||||
.write()
|
|
||||||
.mode(SaveMode.Overwrite)
|
|
||||||
.json(relsPath);
|
|
||||||
});
|
});
|
||||||
|
|
||||||
}
|
}
|
||||||
|
|
|
@ -9,16 +9,16 @@ import org.apache.commons.io.IOUtils;
|
||||||
import org.apache.spark.SparkConf;
|
import org.apache.spark.SparkConf;
|
||||||
import org.apache.spark.sql.Dataset;
|
import org.apache.spark.sql.Dataset;
|
||||||
import org.apache.spark.sql.Encoders;
|
import org.apache.spark.sql.Encoders;
|
||||||
import org.apache.spark.sql.SaveMode;
|
import org.apache.spark.util.LongAccumulator;
|
||||||
import org.slf4j.Logger;
|
import org.slf4j.Logger;
|
||||||
import org.slf4j.LoggerFactory;
|
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.application.ArgumentApplicationParser;
|
||||||
import eu.dnetlib.dhp.broker.oa.util.ClusterUtils;
|
import eu.dnetlib.dhp.broker.oa.util.ClusterUtils;
|
||||||
import eu.dnetlib.dhp.broker.oa.util.ConversionUtils;
|
import eu.dnetlib.dhp.broker.oa.util.ConversionUtils;
|
||||||
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedPublication;
|
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.Publication;
|
||||||
import eu.dnetlib.dhp.schema.oaf.Relation;
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
||||||
|
|
||||||
|
@ -26,8 +26,6 @@ public class PrepareRelatedPublicationsJob {
|
||||||
|
|
||||||
private static final Logger log = LoggerFactory.getLogger(PrepareRelatedPublicationsJob.class);
|
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 {
|
public static void main(final String[] args) throws Exception {
|
||||||
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
IOUtils
|
IOUtils
|
||||||
|
@ -57,22 +55,32 @@ public class PrepareRelatedPublicationsJob {
|
||||||
|
|
||||||
ClusterUtils.removeDir(spark, relsPath);
|
ClusterUtils.removeDir(spark, relsPath);
|
||||||
|
|
||||||
final Dataset<Publication> pubs = ClusterUtils
|
final LongAccumulator total = spark.sparkContext().longAccumulator("total_rels");
|
||||||
.readPath(spark, graphPath + "/publication", Publication.class);
|
|
||||||
|
|
||||||
final Dataset<Relation> rels = ClusterUtils.readPath(spark, graphPath + "/relation", Relation.class);
|
final Dataset<OaBrokerRelatedPublication> pubs = ClusterUtils
|
||||||
|
.readPath(spark, graphPath + "/publication", Publication.class)
|
||||||
rels
|
.filter(p -> !ClusterUtils.isDedupRoot(p.getId()))
|
||||||
.joinWith(pubs, pubs.col("id").equalTo(rels.col("target")), "inner")
|
|
||||||
.map(
|
.map(
|
||||||
t -> new RelatedPublication(
|
ConversionUtils::oafPublicationToBrokerPublication,
|
||||||
t._1.getSource(),
|
Encoders.bean(OaBrokerRelatedPublication.class));
|
||||||
t._1.getRelType(),
|
|
||||||
ConversionUtils.oafPublicationToBrokerPublication(t._2)),
|
final Dataset<Relation> rels = ClusterUtils
|
||||||
Encoders.bean(RelatedPublication.class))
|
.readPath(spark, graphPath + "/relation", Relation.class)
|
||||||
.write()
|
.filter(r -> r.getDataInfo().getDeletedbyinference())
|
||||||
.mode(SaveMode.Overwrite)
|
.filter(r -> r.getRelType().equals(ModelConstants.RESULT_RESULT))
|
||||||
.json(relsPath);
|
.filter(r -> ClusterUtils.isValidResultResultClass(r.getRelClass()))
|
||||||
|
.filter(r -> !ClusterUtils.isDedupRoot(r.getSource()))
|
||||||
|
.filter(r -> !ClusterUtils.isDedupRoot(r.getTarget()));
|
||||||
|
|
||||||
|
final Dataset<RelatedPublication> dataset = 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));
|
||||||
|
|
||||||
|
ClusterUtils.save(dataset, relsPath, RelatedPublication.class, total);
|
||||||
|
|
||||||
});
|
});
|
||||||
|
|
||||||
|
|
|
@ -9,16 +9,17 @@ import org.apache.commons.io.IOUtils;
|
||||||
import org.apache.spark.SparkConf;
|
import org.apache.spark.SparkConf;
|
||||||
import org.apache.spark.sql.Dataset;
|
import org.apache.spark.sql.Dataset;
|
||||||
import org.apache.spark.sql.Encoders;
|
import org.apache.spark.sql.Encoders;
|
||||||
import org.apache.spark.sql.SaveMode;
|
import org.apache.spark.util.LongAccumulator;
|
||||||
import org.slf4j.Logger;
|
import org.slf4j.Logger;
|
||||||
import org.slf4j.LoggerFactory;
|
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.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.ClusterUtils;
|
||||||
import eu.dnetlib.dhp.broker.oa.util.ConversionUtils;
|
import eu.dnetlib.dhp.broker.oa.util.ConversionUtils;
|
||||||
import eu.dnetlib.dhp.broker.oa.util.aggregators.withRels.RelatedSoftware;
|
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.Relation;
|
||||||
import eu.dnetlib.dhp.schema.oaf.Software;
|
import eu.dnetlib.dhp.schema.oaf.Software;
|
||||||
|
|
||||||
|
@ -26,8 +27,6 @@ public class PrepareRelatedSoftwaresJob {
|
||||||
|
|
||||||
private static final Logger log = LoggerFactory.getLogger(PrepareRelatedSoftwaresJob.class);
|
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 {
|
public static void main(final String[] args) throws Exception {
|
||||||
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(
|
||||||
IOUtils
|
IOUtils
|
||||||
|
@ -57,21 +56,26 @@ public class PrepareRelatedSoftwaresJob {
|
||||||
|
|
||||||
ClusterUtils.removeDir(spark, relsPath);
|
ClusterUtils.removeDir(spark, relsPath);
|
||||||
|
|
||||||
final Dataset<Software> softwares = ClusterUtils.readPath(spark, graphPath + "/software", Software.class);
|
final LongAccumulator total = spark.sparkContext().longAccumulator("total_rels");
|
||||||
|
|
||||||
final Dataset<Relation> rels = ClusterUtils.readPath(spark, graphPath + "/relation", Relation.class);
|
final Dataset<OaBrokerRelatedSoftware> softwares = ClusterUtils
|
||||||
|
.readPath(spark, graphPath + "/software", Software.class)
|
||||||
|
.filter(sw -> !ClusterUtils.isDedupRoot(sw.getId()))
|
||||||
|
.map(ConversionUtils::oafSoftwareToBrokerSoftware, Encoders.bean(OaBrokerRelatedSoftware.class));
|
||||||
|
|
||||||
rels
|
final Dataset<Relation> rels = ClusterUtils
|
||||||
.joinWith(softwares, softwares.col("id").equalTo(rels.col("target")), "inner")
|
.readPath(spark, graphPath + "/relation", Relation.class)
|
||||||
.map(
|
.filter(r -> r.getDataInfo().getDeletedbyinference())
|
||||||
t -> new RelatedSoftware(
|
.filter(r -> r.getRelType().equals(ModelConstants.RESULT_RESULT))
|
||||||
t._1.getSource(),
|
.filter(r -> !r.getRelClass().equals(BrokerConstants.IS_MERGED_IN_CLASS))
|
||||||
t._1.getRelType(),
|
.filter(r -> !ClusterUtils.isDedupRoot(r.getSource()))
|
||||||
ConversionUtils.oafSoftwareToBrokerSoftware(t._2)),
|
.filter(r -> !ClusterUtils.isDedupRoot(r.getTarget()));
|
||||||
Encoders.bean(RelatedSoftware.class))
|
|
||||||
.write()
|
final Dataset<RelatedSoftware> dataset = rels
|
||||||
.mode(SaveMode.Overwrite)
|
.joinWith(softwares, softwares.col("openaireId").equalTo(rels.col("target")), "inner")
|
||||||
.json(relsPath);
|
.map(t -> new RelatedSoftware(t._1.getSource(), t._2), Encoders.bean(RelatedSoftware.class));
|
||||||
|
|
||||||
|
ClusterUtils.save(dataset, relsPath, RelatedSoftware.class, total);
|
||||||
|
|
||||||
});
|
});
|
||||||
|
|
||||||
|
|
|
@ -9,8 +9,8 @@ import org.apache.commons.io.IOUtils;
|
||||||
import org.apache.spark.SparkConf;
|
import org.apache.spark.SparkConf;
|
||||||
import org.apache.spark.sql.Dataset;
|
import org.apache.spark.sql.Dataset;
|
||||||
import org.apache.spark.sql.Encoders;
|
import org.apache.spark.sql.Encoders;
|
||||||
import org.apache.spark.sql.SaveMode;
|
|
||||||
import org.apache.spark.sql.SparkSession;
|
import org.apache.spark.sql.SparkSession;
|
||||||
|
import org.apache.spark.util.LongAccumulator;
|
||||||
import org.slf4j.Logger;
|
import org.slf4j.Logger;
|
||||||
import org.slf4j.LoggerFactory;
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
|
@ -56,13 +56,14 @@ public class PrepareSimpleEntititiesJob {
|
||||||
|
|
||||||
ClusterUtils.removeDir(spark, simpleEntitiesPath);
|
ClusterUtils.removeDir(spark, simpleEntitiesPath);
|
||||||
|
|
||||||
prepareSimpleEntities(spark, graphPath, Publication.class)
|
final LongAccumulator total = spark.sparkContext().longAccumulator("total_entities");
|
||||||
|
|
||||||
|
final Dataset<OaBrokerMainEntity> dataset = prepareSimpleEntities(spark, graphPath, Publication.class)
|
||||||
.union(prepareSimpleEntities(spark, graphPath, eu.dnetlib.dhp.schema.oaf.Dataset.class))
|
.union(prepareSimpleEntities(spark, graphPath, eu.dnetlib.dhp.schema.oaf.Dataset.class))
|
||||||
.union(prepareSimpleEntities(spark, graphPath, Software.class))
|
.union(prepareSimpleEntities(spark, graphPath, Software.class))
|
||||||
.union(prepareSimpleEntities(spark, graphPath, OtherResearchProduct.class))
|
.union(prepareSimpleEntities(spark, graphPath, OtherResearchProduct.class));
|
||||||
.write()
|
|
||||||
.mode(SaveMode.Overwrite)
|
ClusterUtils.save(dataset, simpleEntitiesPath, OaBrokerMainEntity.class, total);
|
||||||
.json(simpleEntitiesPath);
|
|
||||||
});
|
});
|
||||||
|
|
||||||
}
|
}
|
||||||
|
@ -74,6 +75,7 @@ public class PrepareSimpleEntititiesJob {
|
||||||
|
|
||||||
return ClusterUtils
|
return ClusterUtils
|
||||||
.readPath(spark, graphPath + "/" + sourceClass.getSimpleName().toLowerCase(), sourceClass)
|
.readPath(spark, graphPath + "/" + sourceClass.getSimpleName().toLowerCase(), sourceClass)
|
||||||
|
.filter(r -> !ClusterUtils.isDedupRoot(r.getId()))
|
||||||
.filter(r -> r.getDataInfo().getDeletedbyinference())
|
.filter(r -> r.getDataInfo().getDeletedbyinference())
|
||||||
.map(ConversionUtils::oafResultToBrokerResult, Encoders.bean(OaBrokerMainEntity.class));
|
.map(ConversionUtils::oafResultToBrokerResult, Encoders.bean(OaBrokerMainEntity.class));
|
||||||
}
|
}
|
||||||
|
|
|
@ -1,16 +1,18 @@
|
||||||
|
|
||||||
package eu.dnetlib.dhp.broker.oa.matchers;
|
package eu.dnetlib.dhp.broker.oa.matchers;
|
||||||
|
|
||||||
import java.util.Arrays;
|
import java.util.ArrayList;
|
||||||
import java.util.Collection;
|
import java.util.Collection;
|
||||||
import java.util.HashMap;
|
import java.util.HashMap;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
import java.util.Map;
|
import java.util.Map;
|
||||||
import java.util.function.BiConsumer;
|
import java.util.function.BiConsumer;
|
||||||
import java.util.function.Function;
|
import java.util.function.Function;
|
||||||
|
import java.util.stream.Collectors;
|
||||||
|
|
||||||
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 org.apache.spark.util.LongAccumulator;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.dhp.broker.model.Topic;
|
import eu.dnetlib.dhp.broker.model.Topic;
|
||||||
|
@ -19,15 +21,15 @@ import eu.dnetlib.pace.config.DedupConfig;
|
||||||
|
|
||||||
public abstract class UpdateMatcher<T> {
|
public abstract class UpdateMatcher<T> {
|
||||||
|
|
||||||
private final boolean multipleUpdate;
|
private final int maxNumber;
|
||||||
private final Function<T, Topic> topicFunction;
|
private final Function<T, Topic> topicFunction;
|
||||||
private final BiConsumer<OaBrokerMainEntity, 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 int maxNumber, final Function<T, Topic> topicFunction,
|
||||||
final BiConsumer<OaBrokerMainEntity, T> compileHighlightFunction,
|
final BiConsumer<OaBrokerMainEntity, T> compileHighlightFunction,
|
||||||
final Function<T, String> highlightToStringFunction) {
|
final Function<T, String> highlightToStringFunction) {
|
||||||
this.multipleUpdate = multipleUpdate;
|
this.maxNumber = maxNumber;
|
||||||
this.topicFunction = topicFunction;
|
this.topicFunction = topicFunction;
|
||||||
this.compileHighlightFunction = compileHighlightFunction;
|
this.compileHighlightFunction = compileHighlightFunction;
|
||||||
this.highlightToStringFunction = highlightToStringFunction;
|
this.highlightToStringFunction = highlightToStringFunction;
|
||||||
|
@ -35,7 +37,8 @@ public abstract class UpdateMatcher<T> {
|
||||||
|
|
||||||
public Collection<UpdateInfo<T>> searchUpdatesForRecord(final OaBrokerMainEntity res,
|
public Collection<UpdateInfo<T>> searchUpdatesForRecord(final OaBrokerMainEntity res,
|
||||||
final Collection<OaBrokerMainEntity> others,
|
final Collection<OaBrokerMainEntity> others,
|
||||||
final DedupConfig dedupConfig) {
|
final DedupConfig dedupConfig,
|
||||||
|
final Map<String, LongAccumulator> accumulators) {
|
||||||
|
|
||||||
final Map<String, UpdateInfo<T>> infoMap = new HashMap<>();
|
final Map<String, UpdateInfo<T>> infoMap = new HashMap<>();
|
||||||
|
|
||||||
|
@ -43,28 +46,34 @@ public abstract class UpdateMatcher<T> {
|
||||||
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);
|
||||||
final UpdateInfo<T> info = new UpdateInfo<>(topic, hl, source, res, getCompileHighlightFunction(),
|
if (topic != null) {
|
||||||
|
final UpdateInfo<T> info = new UpdateInfo<>(topic, hl, source, res,
|
||||||
|
getCompileHighlightFunction(),
|
||||||
getHighlightToStringFunction(), dedupConfig);
|
getHighlightToStringFunction(), dedupConfig);
|
||||||
|
|
||||||
final String s = DigestUtils.md5Hex(info.getHighlightValueAsString());
|
final String s = DigestUtils.md5Hex(info.getHighlightValueAsString());
|
||||||
if (!infoMap.containsKey(s) || infoMap.get(s).getTrust() < info.getTrust()) {
|
if (!infoMap.containsKey(s) || infoMap.get(s).getTrust() < info.getTrust()) {
|
||||||
} else {
|
|
||||||
infoMap.put(s, info);
|
infoMap.put(s, info);
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
|
}
|
||||||
|
|
||||||
final Collection<UpdateInfo<T>> values = infoMap.values();
|
final List<UpdateInfo<T>> values = infoMap
|
||||||
|
.values()
|
||||||
if (values.isEmpty() || multipleUpdate) {
|
|
||||||
return values;
|
|
||||||
} else {
|
|
||||||
final UpdateInfo<T> v = values
|
|
||||||
.stream()
|
.stream()
|
||||||
.sorted((o1, o2) -> Float.compare(o1.getTrust(), o2.getTrust()))
|
.sorted((o1, o2) -> Float.compare(o2.getTrust(), o1.getTrust())) // DESCENDING
|
||||||
.findFirst()
|
.collect(Collectors.toList());
|
||||||
.get();
|
|
||||||
return Arrays.asList(v);
|
if (values.isEmpty()) {
|
||||||
|
return new ArrayList<>();
|
||||||
|
} else if (values.size() > maxNumber) {
|
||||||
|
incrementAccumulator(accumulators, maxNumber);
|
||||||
|
return values.subList(0, maxNumber);
|
||||||
|
} else {
|
||||||
|
incrementAccumulator(accumulators, values.size());
|
||||||
|
return values;
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@ -74,12 +83,12 @@ public abstract class UpdateMatcher<T> {
|
||||||
return list == null || list.isEmpty() || StringUtils.isBlank(list.get(0));
|
return list == null || list.isEmpty() || StringUtils.isBlank(list.get(0));
|
||||||
}
|
}
|
||||||
|
|
||||||
protected boolean isMissing(final String field) {
|
protected boolean isMissing(final String s) {
|
||||||
return StringUtils.isBlank(field);
|
return StringUtils.isBlank(s);
|
||||||
}
|
}
|
||||||
|
|
||||||
public boolean isMultipleUpdate() {
|
public int getMaxNumber() {
|
||||||
return multipleUpdate;
|
return maxNumber;
|
||||||
}
|
}
|
||||||
|
|
||||||
public Function<T, Topic> getTopicFunction() {
|
public Function<T, Topic> getTopicFunction() {
|
||||||
|
@ -94,4 +103,14 @@ public abstract class UpdateMatcher<T> {
|
||||||
return highlightToStringFunction;
|
return highlightToStringFunction;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
public String accumulatorName() {
|
||||||
|
return "event_matcher_" + getClass().getSimpleName().toLowerCase();
|
||||||
|
}
|
||||||
|
|
||||||
|
public void incrementAccumulator(final Map<String, LongAccumulator> accumulators, final long n) {
|
||||||
|
if (accumulators != null && accumulators.containsKey(accumulatorName())) {
|
||||||
|
accumulators.get(accumulatorName()).add(n);
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
}
|
}
|
||||||
|
|
|
@ -1,6 +1,7 @@
|
||||||
|
|
||||||
package eu.dnetlib.dhp.broker.oa.matchers.relatedDatasets;
|
package eu.dnetlib.dhp.broker.oa.matchers.relatedDatasets;
|
||||||
|
|
||||||
|
import java.util.ArrayList;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
import java.util.Set;
|
import java.util.Set;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
@ -9,14 +10,15 @@ import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.broker.objects.OaBrokerRelatedDataset;
|
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;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
||||||
|
|
||||||
public abstract class AbstractEnrichMissingDataset extends UpdateMatcher<OaBrokerRelatedDataset> {
|
public abstract class AbstractEnrichMissingDataset extends UpdateMatcher<OaBrokerRelatedDataset> {
|
||||||
|
|
||||||
public AbstractEnrichMissingDataset(final Topic topic) {
|
public AbstractEnrichMissingDataset(final Topic topic) {
|
||||||
super(true,
|
super(10,
|
||||||
rel -> topic,
|
rel -> topic,
|
||||||
(p, rel) -> p.getDatasets().add(rel),
|
(p, rel) -> p.getDatasets().add(rel),
|
||||||
rel -> rel.getOriginalId());
|
rel -> rel.getOpenaireId());
|
||||||
}
|
}
|
||||||
|
|
||||||
protected abstract boolean filterByType(String relType);
|
protected abstract boolean filterByType(String relType);
|
||||||
|
@ -25,18 +27,22 @@ public abstract class AbstractEnrichMissingDataset extends UpdateMatcher<OaBroke
|
||||||
protected final List<OaBrokerRelatedDataset> findDifferences(final OaBrokerMainEntity source,
|
protected final List<OaBrokerRelatedDataset> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OaBrokerMainEntity target) {
|
final OaBrokerMainEntity target) {
|
||||||
|
|
||||||
|
if (target.getDatasets().size() >= BrokerConstants.MAX_LIST_SIZE) {
|
||||||
|
return new ArrayList<>();
|
||||||
|
}
|
||||||
|
|
||||||
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(OaBrokerRelatedDataset::getOriginalId)
|
.map(OaBrokerRelatedDataset::getOpenaireId)
|
||||||
.collect(Collectors.toSet());
|
.collect(Collectors.toSet());
|
||||||
|
|
||||||
return source
|
return source
|
||||||
.getDatasets()
|
.getDatasets()
|
||||||
.stream()
|
.stream()
|
||||||
.filter(rel -> filterByType(rel.getRelType()))
|
.filter(rel -> filterByType(rel.getRelType()))
|
||||||
.filter(d -> !existingDatasets.contains(d.getOriginalId()))
|
.filter(d -> !existingDatasets.contains(d.getOpenaireId()))
|
||||||
.collect(Collectors.toList());
|
.collect(Collectors.toList());
|
||||||
|
|
||||||
}
|
}
|
||||||
|
|
|
@ -12,7 +12,7 @@ import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
public class EnrichMissingProject extends UpdateMatcher<OaBrokerProject> {
|
public class EnrichMissingProject extends UpdateMatcher<OaBrokerProject> {
|
||||||
|
|
||||||
public EnrichMissingProject() {
|
public EnrichMissingProject() {
|
||||||
super(true,
|
super(20,
|
||||||
prj -> Topic.ENRICH_MISSING_PROJECT,
|
prj -> Topic.ENRICH_MISSING_PROJECT,
|
||||||
(p, prj) -> p.getProjects().add(prj),
|
(p, prj) -> p.getProjects().add(prj),
|
||||||
prj -> prj.getFunder() + "::" + prj.getFundingProgram() + prj.getCode());
|
prj -> prj.getFunder() + "::" + prj.getFundingProgram() + prj.getCode());
|
||||||
|
|
|
@ -1,6 +1,7 @@
|
||||||
|
|
||||||
package eu.dnetlib.dhp.broker.oa.matchers.relatedProjects;
|
package eu.dnetlib.dhp.broker.oa.matchers.relatedProjects;
|
||||||
|
|
||||||
|
import java.util.ArrayList;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
import java.util.Set;
|
import java.util.Set;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
@ -9,11 +10,12 @@ import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.broker.objects.OaBrokerProject;
|
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;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
||||||
|
|
||||||
public class EnrichMoreProject extends UpdateMatcher<OaBrokerProject> {
|
public class EnrichMoreProject extends UpdateMatcher<OaBrokerProject> {
|
||||||
|
|
||||||
public EnrichMoreProject() {
|
public EnrichMoreProject() {
|
||||||
super(true,
|
super(20,
|
||||||
prj -> Topic.ENRICH_MORE_PROJECT,
|
prj -> Topic.ENRICH_MORE_PROJECT,
|
||||||
(p, prj) -> p.getProjects().add(prj),
|
(p, prj) -> p.getProjects().add(prj),
|
||||||
prj -> projectAsString(prj));
|
prj -> projectAsString(prj));
|
||||||
|
@ -27,6 +29,10 @@ public class EnrichMoreProject extends UpdateMatcher<OaBrokerProject> {
|
||||||
protected List<OaBrokerProject> findDifferences(final OaBrokerMainEntity source,
|
protected List<OaBrokerProject> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OaBrokerMainEntity target) {
|
final OaBrokerMainEntity target) {
|
||||||
|
|
||||||
|
if (target.getProjects().size() >= BrokerConstants.MAX_LIST_SIZE) {
|
||||||
|
return new ArrayList<>();
|
||||||
|
}
|
||||||
|
|
||||||
final Set<String> existingProjects = target
|
final Set<String> existingProjects = target
|
||||||
.getProjects()
|
.getProjects()
|
||||||
.stream()
|
.stream()
|
||||||
|
|
|
@ -1,6 +1,7 @@
|
||||||
|
|
||||||
package eu.dnetlib.dhp.broker.oa.matchers.relatedPublications;
|
package eu.dnetlib.dhp.broker.oa.matchers.relatedPublications;
|
||||||
|
|
||||||
|
import java.util.ArrayList;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
import java.util.Set;
|
import java.util.Set;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
@ -9,14 +10,15 @@ import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.broker.objects.OaBrokerRelatedPublication;
|
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;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
||||||
|
|
||||||
public abstract class AbstractEnrichMissingPublication extends UpdateMatcher<OaBrokerRelatedPublication> {
|
public abstract class AbstractEnrichMissingPublication extends UpdateMatcher<OaBrokerRelatedPublication> {
|
||||||
|
|
||||||
public AbstractEnrichMissingPublication(final Topic topic) {
|
public AbstractEnrichMissingPublication(final Topic topic) {
|
||||||
super(true,
|
super(10,
|
||||||
rel -> topic,
|
rel -> topic,
|
||||||
(p, rel) -> p.getPublications().add(rel),
|
(p, rel) -> p.getPublications().add(rel),
|
||||||
rel -> rel.getOriginalId());
|
rel -> rel.getOpenaireId());
|
||||||
|
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@ -27,18 +29,22 @@ public abstract class AbstractEnrichMissingPublication extends UpdateMatcher<OaB
|
||||||
final OaBrokerMainEntity source,
|
final OaBrokerMainEntity source,
|
||||||
final OaBrokerMainEntity target) {
|
final OaBrokerMainEntity target) {
|
||||||
|
|
||||||
|
if (target.getPublications().size() >= BrokerConstants.MAX_LIST_SIZE) {
|
||||||
|
return new ArrayList<>();
|
||||||
|
}
|
||||||
|
|
||||||
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(OaBrokerRelatedPublication::getOriginalId)
|
.map(OaBrokerRelatedPublication::getOpenaireId)
|
||||||
.collect(Collectors.toSet());
|
.collect(Collectors.toSet());
|
||||||
|
|
||||||
return source
|
return source
|
||||||
.getPublications()
|
.getPublications()
|
||||||
.stream()
|
.stream()
|
||||||
.filter(rel -> filterByType(rel.getRelType()))
|
.filter(rel -> filterByType(rel.getRelType()))
|
||||||
.filter(p -> !existingPublications.contains(p.getOriginalId()))
|
.filter(p -> !existingPublications.contains(p.getOpenaireId()))
|
||||||
.collect(Collectors.toList());
|
.collect(Collectors.toList());
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
|
@ -13,10 +13,10 @@ public class EnrichMissingSoftware
|
||||||
extends UpdateMatcher<OaBrokerRelatedSoftware> {
|
extends UpdateMatcher<OaBrokerRelatedSoftware> {
|
||||||
|
|
||||||
public EnrichMissingSoftware() {
|
public EnrichMissingSoftware() {
|
||||||
super(true,
|
super(10,
|
||||||
s -> Topic.ENRICH_MISSING_SOFTWARE,
|
s -> Topic.ENRICH_MISSING_SOFTWARE,
|
||||||
(p, s) -> p.getSoftwares().add(s),
|
(p, s) -> p.getSoftwares().add(s),
|
||||||
s -> s.getName());
|
s -> s.getOpenaireId());
|
||||||
}
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
|
|
|
@ -1,6 +1,7 @@
|
||||||
|
|
||||||
package eu.dnetlib.dhp.broker.oa.matchers.relatedSoftware;
|
package eu.dnetlib.dhp.broker.oa.matchers.relatedSoftware;
|
||||||
|
|
||||||
|
import java.util.ArrayList;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
import java.util.Set;
|
import java.util.Set;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
@ -9,14 +10,15 @@ import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.broker.objects.OaBrokerRelatedSoftware;
|
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;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
||||||
|
|
||||||
public class EnrichMoreSoftware extends UpdateMatcher<OaBrokerRelatedSoftware> {
|
public class EnrichMoreSoftware extends UpdateMatcher<OaBrokerRelatedSoftware> {
|
||||||
|
|
||||||
public EnrichMoreSoftware() {
|
public EnrichMoreSoftware() {
|
||||||
super(true,
|
super(10,
|
||||||
s -> Topic.ENRICH_MORE_SOFTWARE,
|
s -> Topic.ENRICH_MORE_SOFTWARE,
|
||||||
(p, s) -> p.getSoftwares().add(s),
|
(p, s) -> p.getSoftwares().add(s),
|
||||||
s -> s.getName());
|
s -> s.getOpenaireId());
|
||||||
}
|
}
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
|
@ -24,6 +26,10 @@ public class EnrichMoreSoftware extends UpdateMatcher<OaBrokerRelatedSoftware> {
|
||||||
final OaBrokerMainEntity source,
|
final OaBrokerMainEntity source,
|
||||||
final OaBrokerMainEntity target) {
|
final OaBrokerMainEntity target) {
|
||||||
|
|
||||||
|
if (target.getSoftwares().size() >= BrokerConstants.MAX_LIST_SIZE) {
|
||||||
|
return new ArrayList<>();
|
||||||
|
}
|
||||||
|
|
||||||
final Set<String> existingSoftwares = source
|
final Set<String> existingSoftwares = source
|
||||||
.getSoftwares()
|
.getSoftwares()
|
||||||
.stream()
|
.stream()
|
||||||
|
|
|
@ -12,7 +12,7 @@ import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
public class EnrichMissingAbstract extends UpdateMatcher<String> {
|
public class EnrichMissingAbstract extends UpdateMatcher<String> {
|
||||||
|
|
||||||
public EnrichMissingAbstract() {
|
public EnrichMissingAbstract() {
|
||||||
super(false,
|
super(1,
|
||||||
s -> Topic.ENRICH_MISSING_ABSTRACT,
|
s -> Topic.ENRICH_MISSING_ABSTRACT,
|
||||||
(p, s) -> p.getAbstracts().add(s),
|
(p, s) -> p.getAbstracts().add(s),
|
||||||
s -> s);
|
s -> s);
|
||||||
|
|
|
@ -1,6 +1,7 @@
|
||||||
|
|
||||||
package eu.dnetlib.dhp.broker.oa.matchers.simple;
|
package eu.dnetlib.dhp.broker.oa.matchers.simple;
|
||||||
|
|
||||||
|
import java.util.ArrayList;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
import java.util.Set;
|
import java.util.Set;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
@ -11,11 +12,12 @@ import eu.dnetlib.broker.objects.OaBrokerAuthor;
|
||||||
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
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;
|
||||||
|
|
||||||
public class EnrichMissingAuthorOrcid extends UpdateMatcher<OaBrokerAuthor> {
|
public class EnrichMissingAuthorOrcid extends UpdateMatcher<OaBrokerAuthor> {
|
||||||
|
|
||||||
public EnrichMissingAuthorOrcid() {
|
public EnrichMissingAuthorOrcid() {
|
||||||
super(true,
|
super(40,
|
||||||
aut -> Topic.ENRICH_MISSING_AUTHOR_ORCID,
|
aut -> Topic.ENRICH_MISSING_AUTHOR_ORCID,
|
||||||
(p, aut) -> p.getCreators().add(aut),
|
(p, aut) -> p.getCreators().add(aut),
|
||||||
aut -> aut.getOrcid());
|
aut -> aut.getOrcid());
|
||||||
|
@ -25,6 +27,10 @@ public class EnrichMissingAuthorOrcid extends UpdateMatcher<OaBrokerAuthor> {
|
||||||
protected List<OaBrokerAuthor> findDifferences(final OaBrokerMainEntity source,
|
protected List<OaBrokerAuthor> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OaBrokerMainEntity target) {
|
final OaBrokerMainEntity target) {
|
||||||
|
|
||||||
|
if (target.getCreators().size() >= BrokerConstants.MAX_LIST_SIZE) {
|
||||||
|
return new ArrayList<>();
|
||||||
|
}
|
||||||
|
|
||||||
final Set<String> existingOrcids = target
|
final Set<String> existingOrcids = target
|
||||||
.getCreators()
|
.getCreators()
|
||||||
.stream()
|
.stream()
|
||||||
|
|
|
@ -1,6 +1,7 @@
|
||||||
|
|
||||||
package eu.dnetlib.dhp.broker.oa.matchers.simple;
|
package eu.dnetlib.dhp.broker.oa.matchers.simple;
|
||||||
|
|
||||||
|
import java.util.ArrayList;
|
||||||
import java.util.Arrays;
|
import java.util.Arrays;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
@ -14,7 +15,7 @@ import eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
||||||
public class EnrichMissingOpenAccess extends UpdateMatcher<OaBrokerInstance> {
|
public class EnrichMissingOpenAccess extends UpdateMatcher<OaBrokerInstance> {
|
||||||
|
|
||||||
public EnrichMissingOpenAccess() {
|
public EnrichMissingOpenAccess() {
|
||||||
super(true,
|
super(20,
|
||||||
i -> Topic.ENRICH_MISSING_OA_VERSION,
|
i -> Topic.ENRICH_MISSING_OA_VERSION,
|
||||||
(p, i) -> p.getInstances().add(i),
|
(p, i) -> p.getInstances().add(i),
|
||||||
OaBrokerInstance::getUrl);
|
OaBrokerInstance::getUrl);
|
||||||
|
@ -23,6 +24,11 @@ public class EnrichMissingOpenAccess extends UpdateMatcher<OaBrokerInstance> {
|
||||||
@Override
|
@Override
|
||||||
protected List<OaBrokerInstance> findDifferences(final OaBrokerMainEntity source,
|
protected List<OaBrokerInstance> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OaBrokerMainEntity target) {
|
final OaBrokerMainEntity target) {
|
||||||
|
|
||||||
|
if (target.getInstances().size() >= BrokerConstants.MAX_LIST_SIZE) {
|
||||||
|
return new ArrayList<>();
|
||||||
|
}
|
||||||
|
|
||||||
final long count = target
|
final long count = target
|
||||||
.getInstances()
|
.getInstances()
|
||||||
.stream()
|
.stream()
|
||||||
|
|
|
@ -13,7 +13,7 @@ import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
public class EnrichMissingPid extends UpdateMatcher<OaBrokerTypedValue> {
|
public class EnrichMissingPid extends UpdateMatcher<OaBrokerTypedValue> {
|
||||||
|
|
||||||
public EnrichMissingPid() {
|
public EnrichMissingPid() {
|
||||||
super(true,
|
super(10,
|
||||||
pid -> Topic.ENRICH_MISSING_PID,
|
pid -> Topic.ENRICH_MISSING_PID,
|
||||||
(p, pid) -> p.getPids().add(pid),
|
(p, pid) -> p.getPids().add(pid),
|
||||||
pid -> pid.getType() + "::" + pid.getValue());
|
pid -> pid.getType() + "::" + pid.getValue());
|
||||||
|
@ -22,9 +22,8 @@ public class EnrichMissingPid extends UpdateMatcher<OaBrokerTypedValue> {
|
||||||
@Override
|
@Override
|
||||||
protected List<OaBrokerTypedValue> findDifferences(final OaBrokerMainEntity source,
|
protected List<OaBrokerTypedValue> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OaBrokerMainEntity target) {
|
final OaBrokerMainEntity target) {
|
||||||
final long count = target.getPids().size();
|
|
||||||
|
|
||||||
if (count > 0) {
|
if (target.getPids().size() > 0) {
|
||||||
return Arrays.asList();
|
return Arrays.asList();
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
|
@ -12,7 +12,7 @@ import eu.dnetlib.dhp.broker.oa.matchers.UpdateMatcher;
|
||||||
public class EnrichMissingPublicationDate extends UpdateMatcher<String> {
|
public class EnrichMissingPublicationDate extends UpdateMatcher<String> {
|
||||||
|
|
||||||
public EnrichMissingPublicationDate() {
|
public EnrichMissingPublicationDate() {
|
||||||
super(false,
|
super(1,
|
||||||
date -> Topic.ENRICH_MISSING_PUBLICATION_DATE,
|
date -> Topic.ENRICH_MISSING_PUBLICATION_DATE,
|
||||||
(p, date) -> p.setPublicationdate(date),
|
(p, date) -> p.setPublicationdate(date),
|
||||||
s -> s);
|
s -> s);
|
||||||
|
|
|
@ -1,6 +1,7 @@
|
||||||
|
|
||||||
package eu.dnetlib.dhp.broker.oa.matchers.simple;
|
package eu.dnetlib.dhp.broker.oa.matchers.simple;
|
||||||
|
|
||||||
|
import java.util.ArrayList;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
import java.util.Set;
|
import java.util.Set;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
@ -9,11 +10,12 @@ import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.broker.objects.OaBrokerTypedValue;
|
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;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
||||||
|
|
||||||
public class EnrichMissingSubject extends UpdateMatcher<OaBrokerTypedValue> {
|
public class EnrichMissingSubject extends UpdateMatcher<OaBrokerTypedValue> {
|
||||||
|
|
||||||
public EnrichMissingSubject() {
|
public EnrichMissingSubject() {
|
||||||
super(true,
|
super(20,
|
||||||
s -> Topic.fromPath("ENRICH/MISSING/SUBJECT/" + s.getType()),
|
s -> Topic.fromPath("ENRICH/MISSING/SUBJECT/" + s.getType()),
|
||||||
(p, s) -> p.getSubjects().add(s),
|
(p, s) -> p.getSubjects().add(s),
|
||||||
s -> subjectAsString(s));
|
s -> subjectAsString(s));
|
||||||
|
@ -22,6 +24,11 @@ public class EnrichMissingSubject extends UpdateMatcher<OaBrokerTypedValue> {
|
||||||
@Override
|
@Override
|
||||||
protected List<OaBrokerTypedValue> findDifferences(final OaBrokerMainEntity source,
|
protected List<OaBrokerTypedValue> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OaBrokerMainEntity target) {
|
final OaBrokerMainEntity target) {
|
||||||
|
|
||||||
|
if (target.getSubjects().size() >= BrokerConstants.MAX_LIST_SIZE) {
|
||||||
|
return new ArrayList<>();
|
||||||
|
}
|
||||||
|
|
||||||
final Set<String> existingSubject = target
|
final Set<String> existingSubject = target
|
||||||
.getSubjects()
|
.getSubjects()
|
||||||
.stream()
|
.stream()
|
||||||
|
|
|
@ -1,6 +1,7 @@
|
||||||
|
|
||||||
package eu.dnetlib.dhp.broker.oa.matchers.simple;
|
package eu.dnetlib.dhp.broker.oa.matchers.simple;
|
||||||
|
|
||||||
|
import java.util.ArrayList;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
import java.util.Set;
|
import java.util.Set;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
@ -14,7 +15,7 @@ import eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
||||||
public class EnrichMoreOpenAccess extends UpdateMatcher<OaBrokerInstance> {
|
public class EnrichMoreOpenAccess extends UpdateMatcher<OaBrokerInstance> {
|
||||||
|
|
||||||
public EnrichMoreOpenAccess() {
|
public EnrichMoreOpenAccess() {
|
||||||
super(true,
|
super(20,
|
||||||
i -> Topic.ENRICH_MORE_OA_VERSION,
|
i -> Topic.ENRICH_MORE_OA_VERSION,
|
||||||
(p, i) -> p.getInstances().add(i),
|
(p, i) -> p.getInstances().add(i),
|
||||||
OaBrokerInstance::getUrl);
|
OaBrokerInstance::getUrl);
|
||||||
|
@ -23,6 +24,11 @@ public class EnrichMoreOpenAccess extends UpdateMatcher<OaBrokerInstance> {
|
||||||
@Override
|
@Override
|
||||||
protected List<OaBrokerInstance> findDifferences(final OaBrokerMainEntity source,
|
protected List<OaBrokerInstance> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OaBrokerMainEntity target) {
|
final OaBrokerMainEntity target) {
|
||||||
|
|
||||||
|
if (target.getInstances().size() >= BrokerConstants.MAX_LIST_SIZE) {
|
||||||
|
return new ArrayList<>();
|
||||||
|
}
|
||||||
|
|
||||||
final Set<String> urls = target
|
final Set<String> urls = target
|
||||||
.getInstances()
|
.getInstances()
|
||||||
.stream()
|
.stream()
|
||||||
|
|
|
@ -1,6 +1,7 @@
|
||||||
|
|
||||||
package eu.dnetlib.dhp.broker.oa.matchers.simple;
|
package eu.dnetlib.dhp.broker.oa.matchers.simple;
|
||||||
|
|
||||||
|
import java.util.ArrayList;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
import java.util.Set;
|
import java.util.Set;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
@ -9,11 +10,12 @@ import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.broker.objects.OaBrokerTypedValue;
|
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;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
||||||
|
|
||||||
public class EnrichMorePid extends UpdateMatcher<OaBrokerTypedValue> {
|
public class EnrichMorePid extends UpdateMatcher<OaBrokerTypedValue> {
|
||||||
|
|
||||||
public EnrichMorePid() {
|
public EnrichMorePid() {
|
||||||
super(true,
|
super(20,
|
||||||
pid -> Topic.ENRICH_MORE_PID,
|
pid -> Topic.ENRICH_MORE_PID,
|
||||||
(p, pid) -> p.getPids().add(pid),
|
(p, pid) -> p.getPids().add(pid),
|
||||||
pid -> pidAsString(pid));
|
pid -> pidAsString(pid));
|
||||||
|
@ -22,6 +24,11 @@ public class EnrichMorePid extends UpdateMatcher<OaBrokerTypedValue> {
|
||||||
@Override
|
@Override
|
||||||
protected List<OaBrokerTypedValue> findDifferences(final OaBrokerMainEntity source,
|
protected List<OaBrokerTypedValue> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OaBrokerMainEntity target) {
|
final OaBrokerMainEntity target) {
|
||||||
|
|
||||||
|
if (target.getPids().size() >= BrokerConstants.MAX_LIST_SIZE) {
|
||||||
|
return new ArrayList<>();
|
||||||
|
}
|
||||||
|
|
||||||
final Set<String> existingPids = target
|
final Set<String> existingPids = target
|
||||||
.getPids()
|
.getPids()
|
||||||
.stream()
|
.stream()
|
||||||
|
|
|
@ -1,6 +1,7 @@
|
||||||
|
|
||||||
package eu.dnetlib.dhp.broker.oa.matchers.simple;
|
package eu.dnetlib.dhp.broker.oa.matchers.simple;
|
||||||
|
|
||||||
|
import java.util.ArrayList;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
import java.util.Set;
|
import java.util.Set;
|
||||||
import java.util.stream.Collectors;
|
import java.util.stream.Collectors;
|
||||||
|
@ -9,11 +10,12 @@ import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.broker.objects.OaBrokerTypedValue;
|
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;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
||||||
|
|
||||||
public class EnrichMoreSubject extends UpdateMatcher<OaBrokerTypedValue> {
|
public class EnrichMoreSubject extends UpdateMatcher<OaBrokerTypedValue> {
|
||||||
|
|
||||||
public EnrichMoreSubject() {
|
public EnrichMoreSubject() {
|
||||||
super(true,
|
super(20,
|
||||||
s -> Topic.fromPath("ENRICH/MORE/SUBJECT/" + s.getType()),
|
s -> Topic.fromPath("ENRICH/MORE/SUBJECT/" + s.getType()),
|
||||||
(p, s) -> p.getSubjects().add(s),
|
(p, s) -> p.getSubjects().add(s),
|
||||||
s -> subjectAsString(s));
|
s -> subjectAsString(s));
|
||||||
|
@ -22,6 +24,11 @@ public class EnrichMoreSubject extends UpdateMatcher<OaBrokerTypedValue> {
|
||||||
@Override
|
@Override
|
||||||
protected List<OaBrokerTypedValue> findDifferences(final OaBrokerMainEntity source,
|
protected List<OaBrokerTypedValue> findDifferences(final OaBrokerMainEntity source,
|
||||||
final OaBrokerMainEntity target) {
|
final OaBrokerMainEntity target) {
|
||||||
|
|
||||||
|
if (target.getSubjects().size() >= BrokerConstants.MAX_LIST_SIZE) {
|
||||||
|
return new ArrayList<>();
|
||||||
|
}
|
||||||
|
|
||||||
final Set<String> existingSubjects = target
|
final Set<String> existingSubjects = target
|
||||||
.getSubjects()
|
.getSubjects()
|
||||||
.stream()
|
.stream()
|
||||||
|
|
|
@ -17,6 +17,12 @@ public class BrokerConstants {
|
||||||
public static final float MIN_TRUST = 0.25f;
|
public static final float MIN_TRUST = 0.25f;
|
||||||
public static final float MAX_TRUST = 1.00f;
|
public static final float MAX_TRUST = 1.00f;
|
||||||
|
|
||||||
|
public static final int MAX_NUMBER_OF_RELS = 20;
|
||||||
|
|
||||||
|
public static final int MAX_STRING_SIZE = 3000;
|
||||||
|
|
||||||
|
public static final int MAX_LIST_SIZE = 50;
|
||||||
|
|
||||||
public static Class<?>[] getModelClasses() {
|
public static Class<?>[] getModelClasses() {
|
||||||
final Set<Class<?>> list = new HashSet<>();
|
final Set<Class<?>> list = new HashSet<>();
|
||||||
list.addAll(Arrays.asList(ModelSupport.getOafModelClasses()));
|
list.addAll(Arrays.asList(ModelSupport.getOafModelClasses()));
|
||||||
|
|
|
@ -4,7 +4,9 @@ package eu.dnetlib.dhp.broker.oa.util;
|
||||||
import org.apache.spark.api.java.function.MapFunction;
|
import org.apache.spark.api.java.function.MapFunction;
|
||||||
import org.apache.spark.sql.Dataset;
|
import org.apache.spark.sql.Dataset;
|
||||||
import org.apache.spark.sql.Encoders;
|
import org.apache.spark.sql.Encoders;
|
||||||
|
import org.apache.spark.sql.SaveMode;
|
||||||
import org.apache.spark.sql.SparkSession;
|
import org.apache.spark.sql.SparkSession;
|
||||||
|
import org.apache.spark.util.LongAccumulator;
|
||||||
|
|
||||||
import com.fasterxml.jackson.databind.ObjectMapper;
|
import com.fasterxml.jackson.databind.ObjectMapper;
|
||||||
|
|
||||||
|
@ -32,4 +34,32 @@ public class ClusterUtils {
|
||||||
.map((MapFunction<String, R>) value -> OBJECT_MAPPER.readValue(value, clazz), Encoders.bean(clazz));
|
.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");
|
||||||
|
}
|
||||||
|
|
||||||
|
public static <T> T incrementAccumulator(final T o, final LongAccumulator acc) {
|
||||||
|
if (acc != null) {
|
||||||
|
acc.add(1);
|
||||||
|
}
|
||||||
|
return o;
|
||||||
|
}
|
||||||
|
|
||||||
|
public static <T> void save(final Dataset<T> dataset, final String path, final Class<T> clazz,
|
||||||
|
final LongAccumulator acc) {
|
||||||
|
dataset
|
||||||
|
.map(o -> ClusterUtils.incrementAccumulator(o, acc), Encoders.bean(clazz))
|
||||||
|
.write()
|
||||||
|
.mode(SaveMode.Overwrite)
|
||||||
|
.json(path);
|
||||||
|
}
|
||||||
|
|
||||||
}
|
}
|
||||||
|
|
|
@ -123,7 +123,8 @@ public class ConversionUtils {
|
||||||
res.setCollectedFromName(mappedFirst(result.getCollectedfrom(), KeyValue::getValue));
|
res.setCollectedFromName(mappedFirst(result.getCollectedfrom(), KeyValue::getValue));
|
||||||
res.setPids(mappedList(result.getPid(), ConversionUtils::oafPidToBrokerPid));
|
res.setPids(mappedList(result.getPid(), ConversionUtils::oafPidToBrokerPid));
|
||||||
res.setInstances(flatMappedList(result.getInstance(), ConversionUtils::oafInstanceToBrokerInstances));
|
res.setInstances(flatMappedList(result.getInstance(), ConversionUtils::oafInstanceToBrokerInstances));
|
||||||
res.setExternalReferences(mappedList(result.getExternalReference(), ConversionUtils::oafExtRefToBrokerExtRef));
|
res
|
||||||
|
.setExternalReferences(mappedList(result.getExternalReference(), ConversionUtils::oafExtRefToBrokerExtRef));
|
||||||
|
|
||||||
return res;
|
return res;
|
||||||
}
|
}
|
||||||
|
@ -245,7 +246,13 @@ public class ConversionUtils {
|
||||||
|
|
||||||
private static List<String> fieldList(final List<Field<String>> fl) {
|
private static List<String> fieldList(final List<Field<String>> fl) {
|
||||||
return fl != null
|
return fl != null
|
||||||
? fl.stream().map(Field::getValue).filter(StringUtils::isNotBlank).collect(Collectors.toList())
|
? fl
|
||||||
|
.stream()
|
||||||
|
.map(Field::getValue)
|
||||||
|
.map(s -> StringUtils.abbreviate(s, BrokerConstants.MAX_STRING_SIZE))
|
||||||
|
.filter(StringUtils::isNotBlank)
|
||||||
|
.limit(BrokerConstants.MAX_LIST_SIZE)
|
||||||
|
.collect(Collectors.toList())
|
||||||
: new ArrayList<>();
|
: new ArrayList<>();
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@ -255,6 +262,7 @@ public class ConversionUtils {
|
||||||
.stream()
|
.stream()
|
||||||
.map(StructuredProperty::getValue)
|
.map(StructuredProperty::getValue)
|
||||||
.filter(StringUtils::isNotBlank)
|
.filter(StringUtils::isNotBlank)
|
||||||
|
.limit(BrokerConstants.MAX_LIST_SIZE)
|
||||||
.collect(Collectors.toList())
|
.collect(Collectors.toList())
|
||||||
: new ArrayList<>();
|
: new ArrayList<>();
|
||||||
}
|
}
|
||||||
|
@ -280,6 +288,7 @@ public class ConversionUtils {
|
||||||
.stream()
|
.stream()
|
||||||
.map(func::apply)
|
.map(func::apply)
|
||||||
.filter(Objects::nonNull)
|
.filter(Objects::nonNull)
|
||||||
|
.limit(BrokerConstants.MAX_LIST_SIZE)
|
||||||
.collect(Collectors.toList());
|
.collect(Collectors.toList());
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@ -293,6 +302,7 @@ public class ConversionUtils {
|
||||||
.map(func::apply)
|
.map(func::apply)
|
||||||
.flatMap(List::stream)
|
.flatMap(List::stream)
|
||||||
.filter(Objects::nonNull)
|
.filter(Objects::nonNull)
|
||||||
|
.limit(BrokerConstants.MAX_LIST_SIZE)
|
||||||
.collect(Collectors.toList());
|
.collect(Collectors.toList());
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
|
@ -3,6 +3,12 @@ package eu.dnetlib.dhp.broker.oa.util;
|
||||||
|
|
||||||
import java.util.ArrayList;
|
import java.util.ArrayList;
|
||||||
import java.util.List;
|
import java.util.List;
|
||||||
|
import java.util.Map;
|
||||||
|
import java.util.Set;
|
||||||
|
|
||||||
|
import org.apache.spark.util.LongAccumulator;
|
||||||
|
import org.slf4j.Logger;
|
||||||
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
import eu.dnetlib.dhp.broker.model.EventFactory;
|
import eu.dnetlib.dhp.broker.model.EventFactory;
|
||||||
|
@ -35,7 +41,9 @@ import eu.dnetlib.pace.config.DedupConfig;
|
||||||
|
|
||||||
public class EventFinder {
|
public class EventFinder {
|
||||||
|
|
||||||
private static List<UpdateMatcher<?>> matchers = new ArrayList<>();
|
private static final Logger log = LoggerFactory.getLogger(EventFinder.class);
|
||||||
|
|
||||||
|
private static final List<UpdateMatcher<?>> matchers = new ArrayList<>();
|
||||||
static {
|
static {
|
||||||
matchers.add(new EnrichMissingAbstract());
|
matchers.add(new EnrichMissingAbstract());
|
||||||
matchers.add(new EnrichMissingAuthorOrcid());
|
matchers.add(new EnrichMissingAuthorOrcid());
|
||||||
|
@ -65,22 +73,48 @@ public class EventFinder {
|
||||||
matchers.add(new EnrichMissingAbstract());
|
matchers.add(new EnrichMissingAbstract());
|
||||||
}
|
}
|
||||||
|
|
||||||
public static EventGroup generateEvents(final ResultGroup results, final DedupConfig dedupConfig) {
|
public static EventGroup generateEvents(final ResultGroup results,
|
||||||
|
final Set<String> dsIdWhitelist,
|
||||||
|
final Set<String> dsIdBlacklist,
|
||||||
|
final Set<String> dsTypeWhitelist,
|
||||||
|
final DedupConfig dedupConfig,
|
||||||
|
final Map<String, LongAccumulator> accumulators) {
|
||||||
|
|
||||||
final List<UpdateInfo<?>> list = new ArrayList<>();
|
final List<UpdateInfo<?>> list = new ArrayList<>();
|
||||||
|
|
||||||
for (final OaBrokerMainEntity target : results.getData()) {
|
for (final OaBrokerMainEntity target : results.getData()) {
|
||||||
|
if (verifyTarget(target, dsIdWhitelist, dsIdBlacklist, dsTypeWhitelist)) {
|
||||||
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, accumulators));
|
||||||
|
}
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
return asEventGroup(list);
|
return asEventGroup(list);
|
||||||
}
|
}
|
||||||
|
|
||||||
|
private static boolean verifyTarget(final OaBrokerMainEntity target,
|
||||||
|
final Set<String> dsIdWhitelist,
|
||||||
|
final Set<String> dsIdBlacklist,
|
||||||
|
final Set<String> dsTypeWhitelist) {
|
||||||
|
|
||||||
|
if (dsIdWhitelist.contains(target.getCollectedFromId())) {
|
||||||
|
return true;
|
||||||
|
} else if (dsIdBlacklist.contains(target.getCollectedFromId())) {
|
||||||
|
return false;
|
||||||
|
} else {
|
||||||
|
return dsTypeWhitelist.contains(target.getCollectedFromType());
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
private static EventGroup asEventGroup(final List<UpdateInfo<?>> list) {
|
private static EventGroup asEventGroup(final List<UpdateInfo<?>> list) {
|
||||||
final EventGroup events = new EventGroup();
|
final EventGroup events = new EventGroup();
|
||||||
list.stream().map(EventFactory::newBrokerEvent).forEach(events::addElement);
|
list.stream().map(EventFactory::newBrokerEvent).forEach(events::addElement);
|
||||||
return events;
|
return events;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
public static List<UpdateMatcher<?>> getMatchers() {
|
||||||
|
return matchers;
|
||||||
|
}
|
||||||
|
|
||||||
}
|
}
|
||||||
|
|
|
@ -14,12 +14,16 @@ public class EventGroup implements Serializable {
|
||||||
*/
|
*/
|
||||||
private static final long serialVersionUID = 765977943803533130L;
|
private static final long serialVersionUID = 765977943803533130L;
|
||||||
|
|
||||||
private final List<Event> data = new ArrayList<>();
|
private List<Event> data = new ArrayList<>();
|
||||||
|
|
||||||
public List<Event> getData() {
|
public List<Event> getData() {
|
||||||
return data;
|
return data;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
public void setData(final List<Event> data) {
|
||||||
|
this.data = data;
|
||||||
|
}
|
||||||
|
|
||||||
public EventGroup addElement(final Event elem) {
|
public EventGroup addElement(final Event elem) {
|
||||||
data.add(elem);
|
data.add(elem);
|
||||||
return this;
|
return this;
|
||||||
|
|
|
@ -111,8 +111,9 @@ public final class UpdateInfo<T> {
|
||||||
final OaBrokerMainEntity hl = new OaBrokerMainEntity();
|
final OaBrokerMainEntity hl = new OaBrokerMainEntity();
|
||||||
compileHighlight.accept(hl, getHighlightValue());
|
compileHighlight.accept(hl, getHighlightValue());
|
||||||
|
|
||||||
final String provId = getSource().getOriginalId();
|
final String provId = getSource().getOpenaireId();
|
||||||
final String provRepo = getSource().getCollectedFromName();
|
final String provRepo = getSource().getCollectedFromName();
|
||||||
|
final String provType = getSource().getCollectedFromType();
|
||||||
|
|
||||||
final String provUrl = getSource()
|
final String provUrl = getSource()
|
||||||
.getInstances()
|
.getInstances()
|
||||||
|
@ -122,7 +123,7 @@ public final class UpdateInfo<T> {
|
||||||
.orElse(null);
|
.orElse(null);
|
||||||
;
|
;
|
||||||
|
|
||||||
final OaBrokerProvenance provenance = new OaBrokerProvenance(provId, provRepo, provUrl);
|
final OaBrokerProvenance provenance = new OaBrokerProvenance(provId, provRepo, provType, provUrl);
|
||||||
|
|
||||||
final OaBrokerEventPayload res = new OaBrokerEventPayload();
|
final OaBrokerEventPayload res = new OaBrokerEventPayload();
|
||||||
res.setResult(target);
|
res.setResult(target);
|
||||||
|
|
|
@ -0,0 +1,59 @@
|
||||||
|
|
||||||
|
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 AddDatasourceTypeAggregator
|
||||||
|
extends Aggregator<Tuple2<OaBrokerMainEntity, SimpleDatasourceInfo>, OaBrokerMainEntity, OaBrokerMainEntity> {
|
||||||
|
|
||||||
|
/**
|
||||||
|
*
|
||||||
|
*/
|
||||||
|
private static final long serialVersionUID = 8788588975496014728L;
|
||||||
|
|
||||||
|
@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, SimpleDatasourceInfo> t) {
|
||||||
|
final OaBrokerMainEntity res = StringUtils.isNotBlank(g.getOpenaireId()) ? g : t._1;
|
||||||
|
if (t._2 != null && StringUtils.isNotBlank(t._2.getType())) {
|
||||||
|
res.setCollectedFromType(t._2.getType());
|
||||||
|
}
|
||||||
|
return res;
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity merge(final OaBrokerMainEntity g1, final OaBrokerMainEntity g2) {
|
||||||
|
if (StringUtils.isNotBlank(g1.getOpenaireId()) && StringUtils.isNotBlank(g1.getCollectedFromType())) {
|
||||||
|
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);
|
||||||
|
}
|
||||||
|
}
|
|
@ -1,71 +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.OaBrokerMainEntity;
|
|
||||||
import scala.Tuple2;
|
|
||||||
|
|
||||||
public class OaBrokerMainEntityAggregator<T>
|
|
||||||
extends Aggregator<Tuple2<OaBrokerMainEntity, T>, OaBrokerMainEntity, OaBrokerMainEntity> {
|
|
||||||
|
|
||||||
/**
|
|
||||||
*
|
|
||||||
*/
|
|
||||||
private static final long serialVersionUID = -3687878788861013488L;
|
|
||||||
|
|
||||||
@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, 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());
|
|
||||||
} else {
|
|
||||||
throw new RuntimeException("Invalid Object: " + t._2.getClass());
|
|
||||||
}
|
|
||||||
return g;
|
|
||||||
|
|
||||||
}
|
|
||||||
|
|
||||||
@Override
|
|
||||||
public OaBrokerMainEntity merge(final OaBrokerMainEntity g1, final OaBrokerMainEntity 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<OaBrokerMainEntity> bufferEncoder() {
|
|
||||||
return Encoders.bean(OaBrokerMainEntity.class);
|
|
||||||
}
|
|
||||||
|
|
||||||
@Override
|
|
||||||
public Encoder<OaBrokerMainEntity> outputEncoder() {
|
|
||||||
return Encoders.bean(OaBrokerMainEntity.class);
|
|
||||||
}
|
|
||||||
|
|
||||||
}
|
|
|
@ -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 OaBrokerRelatedDataset relDataset;
|
||||||
|
|
||||||
public RelatedDataset() {
|
public RelatedDataset() {
|
||||||
}
|
}
|
||||||
|
|
||||||
public RelatedDataset(final String source, final String relType, final OaBrokerRelatedDataset relDataset) {
|
public RelatedDataset(final String source, final OaBrokerRelatedDataset relDataset) {
|
||||||
this.source = source;
|
this.source = source;
|
||||||
this.relType = relType;
|
|
||||||
this.relDataset = relDataset;
|
this.relDataset = relDataset;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@ -32,14 +31,6 @@ public class RelatedDataset implements Serializable {
|
||||||
this.source = source;
|
this.source = source;
|
||||||
}
|
}
|
||||||
|
|
||||||
public String getRelType() {
|
|
||||||
return relType;
|
|
||||||
}
|
|
||||||
|
|
||||||
public void setRelType(final String relType) {
|
|
||||||
this.relType = relType;
|
|
||||||
}
|
|
||||||
|
|
||||||
public OaBrokerRelatedDataset getRelDataset() {
|
public OaBrokerRelatedDataset getRelDataset() {
|
||||||
return relDataset;
|
return relDataset;
|
||||||
}
|
}
|
||||||
|
|
|
@ -0,0 +1,68 @@
|
||||||
|
|
||||||
|
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 eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
||||||
|
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().size() < BrokerConstants.MAX_NUMBER_OF_RELS) {
|
||||||
|
res.getDatasets().add(t._2.getRelDataset());
|
||||||
|
}
|
||||||
|
return res;
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity merge(final OaBrokerMainEntity g1, final OaBrokerMainEntity g2) {
|
||||||
|
if (StringUtils.isNotBlank(g1.getOpenaireId())) {
|
||||||
|
final int availables = BrokerConstants.MAX_NUMBER_OF_RELS - g1.getDatasets().size();
|
||||||
|
if (availables > 0) {
|
||||||
|
if (g2.getDatasets().size() <= availables) {
|
||||||
|
g1.getDatasets().addAll(g2.getDatasets());
|
||||||
|
} else {
|
||||||
|
g1.getDatasets().addAll(g2.getDatasets().subList(0, availables));
|
||||||
|
}
|
||||||
|
}
|
||||||
|
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);
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -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 OaBrokerProject relProject;
|
||||||
|
|
||||||
public RelatedProject() {
|
public RelatedProject() {
|
||||||
}
|
}
|
||||||
|
|
||||||
public RelatedProject(final String source, final String relType, final OaBrokerProject relProject) {
|
public RelatedProject(final String source, final OaBrokerProject relProject) {
|
||||||
this.source = source;
|
this.source = source;
|
||||||
this.relType = relType;
|
|
||||||
this.relProject = relProject;
|
this.relProject = relProject;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@ -33,14 +31,6 @@ public class RelatedProject implements Serializable {
|
||||||
this.source = source;
|
this.source = source;
|
||||||
}
|
}
|
||||||
|
|
||||||
public String getRelType() {
|
|
||||||
return relType;
|
|
||||||
}
|
|
||||||
|
|
||||||
public void setRelType(final String relType) {
|
|
||||||
this.relType = relType;
|
|
||||||
}
|
|
||||||
|
|
||||||
public OaBrokerProject getRelProject() {
|
public OaBrokerProject getRelProject() {
|
||||||
return relProject;
|
return relProject;
|
||||||
}
|
}
|
||||||
|
|
|
@ -0,0 +1,68 @@
|
||||||
|
|
||||||
|
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 eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
||||||
|
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().size() < BrokerConstants.MAX_NUMBER_OF_RELS) {
|
||||||
|
res.getProjects().add(t._2.getRelProject());
|
||||||
|
}
|
||||||
|
return res;
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity merge(final OaBrokerMainEntity g1, final OaBrokerMainEntity g2) {
|
||||||
|
if (StringUtils.isNotBlank(g1.getOpenaireId())) {
|
||||||
|
final int availables = BrokerConstants.MAX_NUMBER_OF_RELS - g1.getProjects().size();
|
||||||
|
if (availables > 0) {
|
||||||
|
if (g2.getProjects().size() <= availables) {
|
||||||
|
g1.getProjects().addAll(g2.getProjects());
|
||||||
|
} else {
|
||||||
|
g1.getProjects().addAll(g2.getProjects().subList(0, availables));
|
||||||
|
}
|
||||||
|
}
|
||||||
|
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);
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -13,16 +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 OaBrokerRelatedPublication relPublication;
|
||||||
|
|
||||||
public RelatedPublication() {
|
public RelatedPublication() {
|
||||||
}
|
}
|
||||||
|
|
||||||
public RelatedPublication(final String source, final String relType,
|
public RelatedPublication(final String source, final OaBrokerRelatedPublication relPublication) {
|
||||||
final OaBrokerRelatedPublication relPublication) {
|
|
||||||
this.source = source;
|
this.source = source;
|
||||||
this.relType = relType;
|
|
||||||
this.relPublication = relPublication;
|
this.relPublication = relPublication;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@ -34,14 +31,6 @@ public class RelatedPublication implements Serializable {
|
||||||
this.source = source;
|
this.source = source;
|
||||||
}
|
}
|
||||||
|
|
||||||
public String getRelType() {
|
|
||||||
return relType;
|
|
||||||
}
|
|
||||||
|
|
||||||
public void setRelType(final String relType) {
|
|
||||||
this.relType = relType;
|
|
||||||
}
|
|
||||||
|
|
||||||
public OaBrokerRelatedPublication getRelPublication() {
|
public OaBrokerRelatedPublication getRelPublication() {
|
||||||
return relPublication;
|
return relPublication;
|
||||||
}
|
}
|
||||||
|
|
|
@ -0,0 +1,70 @@
|
||||||
|
|
||||||
|
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 eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
||||||
|
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().size() < BrokerConstants.MAX_NUMBER_OF_RELS) {
|
||||||
|
res.getPublications().add(t._2.getRelPublication());
|
||||||
|
}
|
||||||
|
return res;
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity merge(final OaBrokerMainEntity g1, final OaBrokerMainEntity g2) {
|
||||||
|
if (StringUtils.isNotBlank(g1.getOpenaireId())) {
|
||||||
|
final int availables = BrokerConstants.MAX_NUMBER_OF_RELS - g1.getPublications().size();
|
||||||
|
if (availables > 0) {
|
||||||
|
if (g2.getPublications().size() <= availables) {
|
||||||
|
g1.getPublications().addAll(g2.getPublications());
|
||||||
|
} else {
|
||||||
|
g1.getPublications().addAll(g2.getPublications().subList(0, availables));
|
||||||
|
}
|
||||||
|
}
|
||||||
|
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);
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -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 OaBrokerRelatedSoftware relSoftware;
|
||||||
|
|
||||||
public RelatedSoftware() {
|
public RelatedSoftware() {
|
||||||
}
|
}
|
||||||
|
|
||||||
public RelatedSoftware(final String source, final String relType, final OaBrokerRelatedSoftware relSoftware) {
|
public RelatedSoftware(final String source, final OaBrokerRelatedSoftware relSoftware) {
|
||||||
this.source = source;
|
this.source = source;
|
||||||
this.relType = relType;
|
|
||||||
this.relSoftware = relSoftware;
|
this.relSoftware = relSoftware;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
@ -32,14 +31,6 @@ public class RelatedSoftware implements Serializable {
|
||||||
this.source = source;
|
this.source = source;
|
||||||
}
|
}
|
||||||
|
|
||||||
public String getRelType() {
|
|
||||||
return relType;
|
|
||||||
}
|
|
||||||
|
|
||||||
public void setRelType(final String relType) {
|
|
||||||
this.relType = relType;
|
|
||||||
}
|
|
||||||
|
|
||||||
public OaBrokerRelatedSoftware getRelSoftware() {
|
public OaBrokerRelatedSoftware getRelSoftware() {
|
||||||
return relSoftware;
|
return relSoftware;
|
||||||
}
|
}
|
||||||
|
|
|
@ -0,0 +1,68 @@
|
||||||
|
|
||||||
|
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 eu.dnetlib.dhp.broker.oa.util.BrokerConstants;
|
||||||
|
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().size() < BrokerConstants.MAX_NUMBER_OF_RELS) {
|
||||||
|
res.getSoftwares().add(t._2.getRelSoftware());
|
||||||
|
}
|
||||||
|
return res;
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public OaBrokerMainEntity merge(final OaBrokerMainEntity g1, final OaBrokerMainEntity g2) {
|
||||||
|
if (StringUtils.isNotBlank(g1.getOpenaireId())) {
|
||||||
|
final int availables = BrokerConstants.MAX_NUMBER_OF_RELS - g1.getSoftwares().size();
|
||||||
|
if (availables > 0) {
|
||||||
|
if (g2.getSoftwares().size() <= availables) {
|
||||||
|
g1.getSoftwares().addAll(g2.getSoftwares());
|
||||||
|
} else {
|
||||||
|
g1.getSoftwares().addAll(g2.getSoftwares().subList(0, availables));
|
||||||
|
}
|
||||||
|
}
|
||||||
|
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 +1,40 @@
|
||||||
|
|
||||||
|
package eu.dnetlib.dhp.broker.oa.util.aggregators.withRels;
|
||||||
|
|
||||||
|
import java.io.Serializable;
|
||||||
|
|
||||||
|
public class SimpleDatasourceInfo implements Serializable {
|
||||||
|
|
||||||
|
/**
|
||||||
|
*
|
||||||
|
*/
|
||||||
|
private static final long serialVersionUID = 2996609859416024734L;
|
||||||
|
|
||||||
|
private String id;
|
||||||
|
private String type;
|
||||||
|
|
||||||
|
public SimpleDatasourceInfo() {
|
||||||
|
}
|
||||||
|
|
||||||
|
public SimpleDatasourceInfo(final String id, final String type) {
|
||||||
|
this.id = id;
|
||||||
|
this.type = type;
|
||||||
|
}
|
||||||
|
|
||||||
|
public String getId() {
|
||||||
|
return id;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setId(final String id) {
|
||||||
|
this.id = id;
|
||||||
|
}
|
||||||
|
|
||||||
|
public String getType() {
|
||||||
|
return type;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setType(final String type) {
|
||||||
|
this.type = type;
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -17,7 +17,29 @@
|
||||||
<name>dedupConfProfId</name>
|
<name>dedupConfProfId</name>
|
||||||
<description>the id of a valid Dedup Configuration Profile</description>
|
<description>the id of a valid Dedup Configuration Profile</description>
|
||||||
</property>
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>datasourceIdWhitelist</name>
|
||||||
|
<value>-</value>
|
||||||
|
<description>a white list (comma separeted, - for empty list) of datasource ids</description>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>datasourceTypeWhitelist</name>
|
||||||
|
<value>-</value>
|
||||||
|
<description>a white list (comma separeted, - for empty list) of datasource types</description>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>datasourceIdBlacklist</name>
|
||||||
|
<value>-</value>
|
||||||
|
<description>a black list (comma separeted, - for empty list) of datasource ids</description>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>esIndexName</name>
|
||||||
|
<description>the elasticsearch index name</description>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>esIndexHost</name>
|
||||||
|
<description>the elasticsearch host</description>
|
||||||
|
</property>
|
||||||
<property>
|
<property>
|
||||||
<name>sparkDriverMemory</name>
|
<name>sparkDriverMemory</name>
|
||||||
<description>memory for driver process</description>
|
<description>memory for driver process</description>
|
||||||
|
@ -89,10 +111,11 @@
|
||||||
|
|
||||||
<fork name="start_entities_and_rels">
|
<fork name="start_entities_and_rels">
|
||||||
<path start="prepare_simple_entities"/>
|
<path start="prepare_simple_entities"/>
|
||||||
|
<path start="prepare_related_datasources"/>
|
||||||
|
<path start="prepare_related_softwares"/>
|
||||||
<path start="prepare_related_datasets"/>
|
<path start="prepare_related_datasets"/>
|
||||||
<path start="prepare_related_projects"/>
|
<path start="prepare_related_projects"/>
|
||||||
<path start="prepare_related_publications"/>
|
<path start="prepare_related_publications"/>
|
||||||
<path start="prepare_related_softwares"/>
|
|
||||||
</fork>
|
</fork>
|
||||||
|
|
||||||
<action name="prepare_simple_entities">
|
<action name="prepare_simple_entities">
|
||||||
|
@ -119,6 +142,31 @@
|
||||||
<error to="Kill"/>
|
<error to="Kill"/>
|
||||||
</action>
|
</action>
|
||||||
|
|
||||||
|
<action name="prepare_related_datasources">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>PrepareRelatedDatasourcesJob</name>
|
||||||
|
<class>eu.dnetlib.dhp.broker.oa.PrepareRelatedDatasourcesJob</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>${workingPath}</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="wait_entities_and_rels"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
|
||||||
<action name="prepare_related_datasets">
|
<action name="prepare_related_datasets">
|
||||||
<spark xmlns="uri:oozie:spark-action:0.2">
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
<master>yarn</master>
|
<master>yarn</master>
|
||||||
|
@ -215,14 +263,110 @@
|
||||||
<error to="Kill"/>
|
<error to="Kill"/>
|
||||||
</action>
|
</action>
|
||||||
|
|
||||||
<join name="wait_entities_and_rels" to="join_entities"/>
|
<join name="wait_entities_and_rels" to="join_entities_step0"/>
|
||||||
|
|
||||||
<action name="join_entities">
|
<action name="join_entities_step0">
|
||||||
<spark xmlns="uri:oozie:spark-action:0.2">
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
<master>yarn</master>
|
<master>yarn</master>
|
||||||
<mode>cluster</mode>
|
<mode>cluster</mode>
|
||||||
<name>JoinEntitiesJob</name>
|
<name>JoinStep0</name>
|
||||||
<class>eu.dnetlib.dhp.broker.oa.JoinEntitiesJob</class>
|
<class>eu.dnetlib.dhp.broker.oa.JoinStep0Job</class>
|
||||||
|
<jar>dhp-broker-events-${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="join_entities_step1"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="join_entities_step1">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>JoinStep1</name>
|
||||||
|
<class>eu.dnetlib.dhp.broker.oa.JoinStep1Job</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>${workingPath}</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="join_entities_step2"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="join_entities_step2">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>JoinStep2</name>
|
||||||
|
<class>eu.dnetlib.dhp.broker.oa.JoinStep2Job</class>
|
||||||
|
<jar>dhp-broker-events-${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="join_entities_step3"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="join_entities_step3">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>JoinStep3</name>
|
||||||
|
<class>eu.dnetlib.dhp.broker.oa.JoinStep3Job</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>${workingPath}</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="join_entities_step4"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="join_entities_step4">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>JoinStep4</name>
|
||||||
|
<class>eu.dnetlib.dhp.broker.oa.JoinStep4Job</class>
|
||||||
<jar>dhp-broker-events-${projectVersion}.jar</jar>
|
<jar>dhp-broker-events-${projectVersion}.jar</jar>
|
||||||
<spark-opts>
|
<spark-opts>
|
||||||
--executor-cores=${sparkExecutorCores}
|
--executor-cores=${sparkExecutorCores}
|
||||||
|
@ -282,10 +426,37 @@
|
||||||
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
|
--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
|
||||||
--conf spark.sql.shuffle.partitions=3840
|
--conf spark.sql.shuffle.partitions=3840
|
||||||
</spark-opts>
|
</spark-opts>
|
||||||
<arg>--graphPath</arg><arg>${graphInputPath}</arg>
|
|
||||||
<arg>--workingPath</arg><arg>${workingPath}</arg>
|
<arg>--workingPath</arg><arg>${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>
|
||||||
|
<arg>--datasourceIdWhitelist</arg><arg>${datasourceIdWhitelist}</arg>
|
||||||
|
<arg>--datasourceTypeWhitelist</arg><arg>${datasourceTypeWhitelist}</arg>
|
||||||
|
<arg>--datasourceIdBlacklist</arg><arg>${datasourceIdBlacklist}</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="index_es"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="index_es">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>IndexOnESJob</name>
|
||||||
|
<class>eu.dnetlib.dhp.broker.oa.IndexOnESJob</class>
|
||||||
|
<jar>dhp-broker-events-${projectVersion}.jar</jar>
|
||||||
|
<spark-opts>
|
||||||
|
--executor-memory=${sparkExecutorMemory}
|
||||||
|
--driver-memory=${sparkDriverMemory}
|
||||||
|
--conf spark.dynamicAllocation.maxExecutors="2"
|
||||||
|
--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>--index</arg><arg>${esIndexName}</arg>
|
||||||
|
<arg>--esHost</arg><arg>${esIndexHost}</arg>
|
||||||
</spark>
|
</spark>
|
||||||
<ok to="End"/>
|
<ok to="End"/>
|
||||||
<error to="Kill"/>
|
<error to="Kill"/>
|
||||||
|
|
|
@ -1,10 +1,4 @@
|
||||||
[
|
[
|
||||||
{
|
|
||||||
"paramName": "g",
|
|
||||||
"paramLongName": "graphPath",
|
|
||||||
"paramDescription": "the path where there the graph is stored",
|
|
||||||
"paramRequired": true
|
|
||||||
},
|
|
||||||
{
|
{
|
||||||
"paramName": "o",
|
"paramName": "o",
|
||||||
"paramLongName": "workingPath",
|
"paramLongName": "workingPath",
|
||||||
|
@ -22,5 +16,23 @@
|
||||||
"paramLongName": "dedupConfProfile",
|
"paramLongName": "dedupConfProfile",
|
||||||
"paramDescription": "the id of a valid Dedup Configuration Profile",
|
"paramDescription": "the id of a valid Dedup Configuration Profile",
|
||||||
"paramRequired": true
|
"paramRequired": true
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"paramName": "datasourceIdWhitelist",
|
||||||
|
"paramLongName": "datasourceIdWhitelist",
|
||||||
|
"paramDescription": "a white list (comma separeted, - for empty list) of datasource ids",
|
||||||
|
"paramRequired": true
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"paramName": "datasourceTypeWhitelist",
|
||||||
|
"paramLongName": "datasourceTypeWhitelist",
|
||||||
|
"paramDescription": "a white list (comma separeted, - for empty list) of datasource types",
|
||||||
|
"paramRequired": true
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"paramName": "datasourceIdBlacklist",
|
||||||
|
"paramLongName": "datasourceIdBlacklist",
|
||||||
|
"paramDescription": "a black list (comma separeted, - for empty list) of datasource ids",
|
||||||
|
"paramRequired": true
|
||||||
}
|
}
|
||||||
]
|
]
|
||||||
|
|
|
@ -0,0 +1,20 @@
|
||||||
|
[
|
||||||
|
{
|
||||||
|
"paramName": "o",
|
||||||
|
"paramLongName": "workingPath",
|
||||||
|
"paramDescription": "the workinh path",
|
||||||
|
"paramRequired": true
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"paramName": "idx",
|
||||||
|
"paramLongName": "index",
|
||||||
|
"paramDescription": "the ES index",
|
||||||
|
"paramRequired": true
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"paramName": "es",
|
||||||
|
"paramLongName": "esHost",
|
||||||
|
"paramDescription": "the ES host",
|
||||||
|
"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 +1,110 @@
|
||||||
|
<workflow-app name="create broker events - partial" 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>${oozieActionShareLibForSpark2}</value>
|
||||||
|
</property>
|
||||||
|
</configuration>
|
||||||
|
</global>
|
||||||
|
|
||||||
|
<start to="index_es"/>
|
||||||
|
|
||||||
|
<kill name="Kill">
|
||||||
|
<message>Action failed, error message[${wf:errorMessage(wf:lastErrorNode())}]</message>
|
||||||
|
</kill>
|
||||||
|
|
||||||
|
|
||||||
|
<action name="index_es">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>IndexOnESJob</name>
|
||||||
|
<class>eu.dnetlib.dhp.broker.oa.IndexOnESJob</class>
|
||||||
|
<jar>dhp-broker-events-${projectVersion}.jar</jar>
|
||||||
|
<spark-opts>
|
||||||
|
--executor-memory=${sparkExecutorMemory}
|
||||||
|
--driver-memory=${sparkDriverMemory}
|
||||||
|
--conf spark.dynamicAllocation.maxExecutors="2"
|
||||||
|
--conf spark.extraListeners=${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>${workingPath}</arg>
|
||||||
|
<arg>--index</arg><arg>${esIndexName}</arg>
|
||||||
|
<arg>--esHost</arg><arg>${esIndexHost}</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="End"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<end name="End"/>
|
||||||
|
|
||||||
|
</workflow-app>
|
|
@ -0,0 +1,125 @@
|
||||||
|
|
||||||
|
package eu.dnetlib.dhp.broker.oa.matchers;
|
||||||
|
|
||||||
|
import static org.junit.jupiter.api.Assertions.assertTrue;
|
||||||
|
|
||||||
|
import java.util.Arrays;
|
||||||
|
import java.util.Collection;
|
||||||
|
|
||||||
|
import org.junit.jupiter.api.BeforeEach;
|
||||||
|
import org.junit.jupiter.api.Test;
|
||||||
|
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.matchers.simple.EnrichMissingPublicationDate;
|
||||||
|
import eu.dnetlib.dhp.broker.oa.util.UpdateInfo;
|
||||||
|
|
||||||
|
class UpdateMatcherTest {
|
||||||
|
|
||||||
|
UpdateMatcher<String> matcher = new EnrichMissingPublicationDate();
|
||||||
|
|
||||||
|
@BeforeEach
|
||||||
|
void setUp() throws Exception {
|
||||||
|
}
|
||||||
|
|
||||||
|
@Test
|
||||||
|
void testSearchUpdatesForRecord_1() {
|
||||||
|
final OaBrokerMainEntity res = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p1 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p2 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p3 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p4 = new OaBrokerMainEntity();
|
||||||
|
|
||||||
|
final Collection<UpdateInfo<String>> list = matcher
|
||||||
|
.searchUpdatesForRecord(res, Arrays.asList(p1, p2, p3, p4), null, null);
|
||||||
|
|
||||||
|
assertTrue(list.isEmpty());
|
||||||
|
}
|
||||||
|
|
||||||
|
@Test
|
||||||
|
void testSearchUpdatesForRecord_2() {
|
||||||
|
final OaBrokerMainEntity res = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p1 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p2 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p3 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p4 = new OaBrokerMainEntity();
|
||||||
|
|
||||||
|
res.setPublicationdate("2018");
|
||||||
|
|
||||||
|
final Collection<UpdateInfo<String>> list = matcher
|
||||||
|
.searchUpdatesForRecord(res, Arrays.asList(p1, p2, p3, p4), null, null);
|
||||||
|
|
||||||
|
assertTrue(list.isEmpty());
|
||||||
|
}
|
||||||
|
|
||||||
|
@Test
|
||||||
|
void testSearchUpdatesForRecord_3() {
|
||||||
|
final OaBrokerMainEntity res = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p1 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p2 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p3 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p4 = new OaBrokerMainEntity();
|
||||||
|
|
||||||
|
p2.setPublicationdate("2018");
|
||||||
|
|
||||||
|
final Collection<UpdateInfo<String>> list = matcher
|
||||||
|
.searchUpdatesForRecord(res, Arrays.asList(p1, p2, p3, p4), null, null);
|
||||||
|
|
||||||
|
assertTrue(list.size() == 1);
|
||||||
|
}
|
||||||
|
|
||||||
|
@Test
|
||||||
|
void testSearchUpdatesForRecord_4() {
|
||||||
|
final OaBrokerMainEntity res = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p1 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p2 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p3 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p4 = new OaBrokerMainEntity();
|
||||||
|
|
||||||
|
res.setPublicationdate("2018");
|
||||||
|
p2.setPublicationdate("2018");
|
||||||
|
|
||||||
|
final Collection<UpdateInfo<String>> list = matcher
|
||||||
|
.searchUpdatesForRecord(res, Arrays.asList(p1, p2, p3, p4), null, null);
|
||||||
|
|
||||||
|
assertTrue(list.isEmpty());
|
||||||
|
}
|
||||||
|
|
||||||
|
@Test
|
||||||
|
void testSearchUpdatesForRecord_5() {
|
||||||
|
final OaBrokerMainEntity res = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p1 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p2 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p3 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p4 = new OaBrokerMainEntity();
|
||||||
|
res.setPublicationdate("2018");
|
||||||
|
p1.setPublicationdate("2018");
|
||||||
|
p2.setPublicationdate("2018");
|
||||||
|
p3.setPublicationdate("2018");
|
||||||
|
p4.setPublicationdate("2018");
|
||||||
|
|
||||||
|
final Collection<UpdateInfo<String>> list = matcher
|
||||||
|
.searchUpdatesForRecord(res, Arrays.asList(p1, p2, p3, p4), null, null);
|
||||||
|
|
||||||
|
assertTrue(list.isEmpty());
|
||||||
|
}
|
||||||
|
|
||||||
|
@Test
|
||||||
|
void testSearchUpdatesForRecord_6() {
|
||||||
|
final OaBrokerMainEntity res = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p1 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p2 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p3 = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity p4 = new OaBrokerMainEntity();
|
||||||
|
|
||||||
|
p1.setPublicationdate("2018");
|
||||||
|
p2.setPublicationdate("2018");
|
||||||
|
p3.setPublicationdate("2018");
|
||||||
|
p4.setPublicationdate("2018");
|
||||||
|
|
||||||
|
final Collection<UpdateInfo<String>> list = matcher
|
||||||
|
.searchUpdatesForRecord(res, Arrays.asList(p1, p2, p3, p4), null, null);
|
||||||
|
|
||||||
|
assertTrue(list.size() == 1);
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -0,0 +1,57 @@
|
||||||
|
|
||||||
|
package eu.dnetlib.dhp.broker.oa.matchers.simple;
|
||||||
|
|
||||||
|
import static org.junit.jupiter.api.Assertions.assertTrue;
|
||||||
|
|
||||||
|
import java.util.List;
|
||||||
|
|
||||||
|
import org.junit.jupiter.api.BeforeEach;
|
||||||
|
import org.junit.jupiter.api.Test;
|
||||||
|
|
||||||
|
import eu.dnetlib.broker.objects.OaBrokerMainEntity;
|
||||||
|
|
||||||
|
class EnrichMissingPublicationDateTest {
|
||||||
|
|
||||||
|
final EnrichMissingPublicationDate matcher = new EnrichMissingPublicationDate();
|
||||||
|
|
||||||
|
@BeforeEach
|
||||||
|
void setUp() throws Exception {
|
||||||
|
}
|
||||||
|
|
||||||
|
@Test
|
||||||
|
void testFindDifferences_1() {
|
||||||
|
final OaBrokerMainEntity source = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity target = new OaBrokerMainEntity();
|
||||||
|
final List<String> list = matcher.findDifferences(source, target);
|
||||||
|
assertTrue(list.isEmpty());
|
||||||
|
}
|
||||||
|
|
||||||
|
@Test
|
||||||
|
void testFindDifferences_2() {
|
||||||
|
final OaBrokerMainEntity source = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity target = new OaBrokerMainEntity();
|
||||||
|
source.setPublicationdate("2018");
|
||||||
|
final List<String> list = matcher.findDifferences(source, target);
|
||||||
|
assertTrue(list.size() == 1);
|
||||||
|
}
|
||||||
|
|
||||||
|
@Test
|
||||||
|
void testFindDifferences_3() {
|
||||||
|
final OaBrokerMainEntity source = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity target = new OaBrokerMainEntity();
|
||||||
|
target.setPublicationdate("2018");
|
||||||
|
final List<String> list = matcher.findDifferences(source, target);
|
||||||
|
assertTrue(list.isEmpty());
|
||||||
|
}
|
||||||
|
|
||||||
|
@Test
|
||||||
|
void testFindDifferences_4() {
|
||||||
|
final OaBrokerMainEntity source = new OaBrokerMainEntity();
|
||||||
|
final OaBrokerMainEntity target = new OaBrokerMainEntity();
|
||||||
|
source.setPublicationdate("2018");
|
||||||
|
target.setPublicationdate("2018");
|
||||||
|
final List<String> list = matcher.findDifferences(source, target);
|
||||||
|
assertTrue(list.isEmpty());
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -271,6 +271,26 @@ object DoiBoostMappingUtil {
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
def createSP(value: String, classId: String,className:String, schemeId: String, schemeName:String): StructuredProperty = {
|
||||||
|
val sp = new StructuredProperty
|
||||||
|
sp.setQualifier(createQualifier(classId,className, schemeId, schemeName))
|
||||||
|
sp.setValue(value)
|
||||||
|
sp
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
def createSP(value: String, classId: String,className:String, schemeId: String, schemeName:String, dataInfo: DataInfo): StructuredProperty = {
|
||||||
|
val sp = new StructuredProperty
|
||||||
|
sp.setQualifier(createQualifier(classId,className, schemeId, schemeName))
|
||||||
|
sp.setValue(value)
|
||||||
|
sp.setDataInfo(dataInfo)
|
||||||
|
sp
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
def createSP(value: String, classId: String, schemeId: String): StructuredProperty = {
|
def createSP(value: String, classId: String, schemeId: String): StructuredProperty = {
|
||||||
val sp = new StructuredProperty
|
val sp = new StructuredProperty
|
||||||
sp.setQualifier(createQualifier(classId, schemeId))
|
sp.setQualifier(createQualifier(classId, schemeId))
|
||||||
|
@ -279,6 +299,8 @@ object DoiBoostMappingUtil {
|
||||||
|
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
def createSP(value: String, classId: String, schemeId: String, dataInfo: DataInfo): StructuredProperty = {
|
def createSP(value: String, classId: String, schemeId: String, dataInfo: DataInfo): StructuredProperty = {
|
||||||
val sp = new StructuredProperty
|
val sp = new StructuredProperty
|
||||||
sp.setQualifier(createQualifier(classId, schemeId))
|
sp.setQualifier(createQualifier(classId, schemeId))
|
||||||
|
|
|
@ -129,16 +129,16 @@ case object ConversionUtil {
|
||||||
val fieldOfStudy = item._2
|
val fieldOfStudy = item._2
|
||||||
if (fieldOfStudy != null && fieldOfStudy.subjects != null && fieldOfStudy.subjects.nonEmpty) {
|
if (fieldOfStudy != null && fieldOfStudy.subjects != null && fieldOfStudy.subjects.nonEmpty) {
|
||||||
val p: List[StructuredProperty] = fieldOfStudy.subjects.flatMap(s => {
|
val p: List[StructuredProperty] = fieldOfStudy.subjects.flatMap(s => {
|
||||||
val s1 = createSP(s.DisplayName, "keyword", "dnet:subject_classification_typologies")
|
val s1 = createSP(s.DisplayName, "MAG","Microsoft Academic Graph classification", "dnet:subject_classification_typologies", "dnet:subject_classification_typologies")
|
||||||
val di = DoiBoostMappingUtil.generateDataInfo(s.Score.toString)
|
val di = DoiBoostMappingUtil.generateDataInfo(s.Score.toString)
|
||||||
var resList: List[StructuredProperty] = List(s1)
|
var resList: List[StructuredProperty] = List(s1)
|
||||||
if (s.MainType.isDefined) {
|
if (s.MainType.isDefined) {
|
||||||
val maintp = s.MainType.get
|
val maintp = s.MainType.get
|
||||||
val s2 = createSP(s.MainType.get, "keyword", "dnet:subject_classification_typologies")
|
val s2 = createSP(s.MainType.get, "MAG","Microsoft Academic Graph classification", "dnet:subject_classification_typologies", "dnet:subject_classification_typologies")
|
||||||
s2.setDataInfo(di)
|
s2.setDataInfo(di)
|
||||||
resList = resList ::: List(s2)
|
resList = resList ::: List(s2)
|
||||||
if (maintp.contains(".")) {
|
if (maintp.contains(".")) {
|
||||||
val s3 = createSP(maintp.split("\\.").head, "keyword", "dnet:subject_classification_typologies")
|
val s3 = createSP(maintp.split("\\.").head, "MAG","Microsoft Academic Graph classification", "dnet:subject_classification_typologies", "dnet:subject_classification_typologies")
|
||||||
s3.setDataInfo(di)
|
s3.setDataInfo(di)
|
||||||
resList = resList ::: List(s3)
|
resList = resList ::: List(s3)
|
||||||
}
|
}
|
||||||
|
|
|
@ -43,7 +43,7 @@ object SparkPreProcessMAG {
|
||||||
val distinctPaper: Dataset[MagPapers] = spark.createDataset(result)
|
val distinctPaper: Dataset[MagPapers] = spark.createDataset(result)
|
||||||
distinctPaper.write.mode(SaveMode.Overwrite).save(s"${parser.get("targetPath")}/Papers_distinct")
|
distinctPaper.write.mode(SaveMode.Overwrite).save(s"${parser.get("targetPath")}/Papers_distinct")
|
||||||
|
|
||||||
logger.info("Phase 6) Enrich Publication with description")
|
logger.info("Phase 0) Enrich Publication with description")
|
||||||
val pa = spark.read.load(s"${parser.get("sourcePath")}/PaperAbstractsInvertedIndex").as[MagPaperAbstract]
|
val pa = spark.read.load(s"${parser.get("sourcePath")}/PaperAbstractsInvertedIndex").as[MagPaperAbstract]
|
||||||
pa.map(ConversionUtil.transformPaperAbstract).write.mode(SaveMode.Overwrite).save(s"${parser.get("targetPath")}/PaperAbstract")
|
pa.map(ConversionUtil.transformPaperAbstract).write.mode(SaveMode.Overwrite).save(s"${parser.get("targetPath")}/PaperAbstract")
|
||||||
|
|
||||||
|
|
|
@ -32,7 +32,7 @@
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
<start to="GenerateActionSet"/>
|
<start to="CreateDOIBoost"/>
|
||||||
|
|
||||||
|
|
||||||
<kill name="Kill">
|
<kill name="Kill">
|
||||||
|
|
|
@ -18,6 +18,9 @@ class CrossrefMappingTest {
|
||||||
val mapper = new ObjectMapper()
|
val mapper = new ObjectMapper()
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
|
|
||||||
@Test
|
@Test
|
||||||
def testFunderRelationshipsMapping(): Unit = {
|
def testFunderRelationshipsMapping(): Unit = {
|
||||||
val template = Source.fromInputStream(getClass.getResourceAsStream("article_funder_template.json")).mkString
|
val template = Source.fromInputStream(getClass.getResourceAsStream("article_funder_template.json")).mkString
|
||||||
|
@ -58,6 +61,27 @@ class CrossrefMappingTest {
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
||||||
|
@Test
|
||||||
|
def testOrcidID() :Unit = {
|
||||||
|
val json = Source.fromInputStream(getClass.getResourceAsStream("orcid_data.json")).mkString
|
||||||
|
|
||||||
|
|
||||||
|
assertNotNull(json)
|
||||||
|
assertFalse(json.isEmpty);
|
||||||
|
|
||||||
|
val resultList: List[Oaf] = Crossref2Oaf.convert(json)
|
||||||
|
|
||||||
|
assertTrue(resultList.nonEmpty)
|
||||||
|
|
||||||
|
val items = resultList.filter(p => p.isInstanceOf[Result])
|
||||||
|
|
||||||
|
|
||||||
|
mapper.getSerializationConfig.enable(SerializationConfig.Feature.INDENT_OUTPUT)
|
||||||
|
items.foreach(p => println(mapper.writeValueAsString(p)))
|
||||||
|
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
@Test
|
@Test
|
||||||
def testEmptyTitle() :Unit = {
|
def testEmptyTitle() :Unit = {
|
||||||
val json = Source.fromInputStream(getClass.getResourceAsStream("empty_title.json")).mkString
|
val json = Source.fromInputStream(getClass.getResourceAsStream("empty_title.json")).mkString
|
||||||
|
|
|
@ -0,0 +1,271 @@
|
||||||
|
{
|
||||||
|
"DOI":"10.1016/j.carbpol.2020.115930",
|
||||||
|
"issued":{
|
||||||
|
"date-parts":[
|
||||||
|
[
|
||||||
|
2020,
|
||||||
|
4
|
||||||
|
]
|
||||||
|
]
|
||||||
|
},
|
||||||
|
"published-print":{
|
||||||
|
"date-parts":[
|
||||||
|
[
|
||||||
|
2020,
|
||||||
|
4
|
||||||
|
]
|
||||||
|
]
|
||||||
|
},
|
||||||
|
"prefix":"10.1016",
|
||||||
|
"subject":[
|
||||||
|
"Organic Chemistry",
|
||||||
|
"Materials Chemistry",
|
||||||
|
"Polymers and Plastics"
|
||||||
|
],
|
||||||
|
"author":[
|
||||||
|
{
|
||||||
|
"affiliation":[
|
||||||
|
|
||||||
|
],
|
||||||
|
"given":"Lei",
|
||||||
|
"family":"Fang",
|
||||||
|
"sequence":"first"
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"affiliation":[
|
||||||
|
|
||||||
|
],
|
||||||
|
"given":"Hua",
|
||||||
|
"family":"Lin",
|
||||||
|
"sequence":"additional"
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"affiliation":[
|
||||||
|
|
||||||
|
],
|
||||||
|
"given":"Zhenfeng",
|
||||||
|
"family":"Wu",
|
||||||
|
"sequence":"additional"
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"affiliation":[
|
||||||
|
|
||||||
|
],
|
||||||
|
"given":"Zhen",
|
||||||
|
"family":"Wang",
|
||||||
|
"sequence":"additional"
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"affiliation":[
|
||||||
|
|
||||||
|
],
|
||||||
|
"given":"Xinxin",
|
||||||
|
"family":"Fan",
|
||||||
|
"sequence":"additional"
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"affiliation":[
|
||||||
|
|
||||||
|
],
|
||||||
|
"given":"Ziting",
|
||||||
|
"family":"Cheng",
|
||||||
|
"sequence":"additional"
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"affiliation":[
|
||||||
|
|
||||||
|
],
|
||||||
|
"given":"Xiaoya",
|
||||||
|
"family":"Hou",
|
||||||
|
"sequence":"additional"
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"authenticated-orcid":false,
|
||||||
|
"given":"Daquan",
|
||||||
|
"family":"Chen",
|
||||||
|
"sequence":"additional",
|
||||||
|
"affiliation":[
|
||||||
|
|
||||||
|
],
|
||||||
|
"ORCID":"http://orcid.org/0000-0002-6796-0204"
|
||||||
|
}
|
||||||
|
],
|
||||||
|
"reference-count":41,
|
||||||
|
"ISSN":[
|
||||||
|
"0144-8617"
|
||||||
|
],
|
||||||
|
"assertion":[
|
||||||
|
{
|
||||||
|
"name":"publisher",
|
||||||
|
"value":"Elsevier",
|
||||||
|
"label":"This article is maintained by"
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"name":"articletitle",
|
||||||
|
"value":"In vitro/vivo evaluation of novel mitochondrial targeting charge-reversal polysaccharide-based antitumor nanoparticle",
|
||||||
|
"label":"Article Title"
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"name":"journaltitle",
|
||||||
|
"value":"Carbohydrate Polymers",
|
||||||
|
"label":"Journal Title"
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"name":"articlelink",
|
||||||
|
"value":"https://doi.org/10.1016/j.carbpol.2020.115930",
|
||||||
|
"label":"CrossRef DOI link to publisher maintained version"
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"name":"content_type",
|
||||||
|
"value":"article",
|
||||||
|
"label":"Content Type"
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"name":"copyright",
|
||||||
|
"value":"\\u00a9 2020 Elsevier Ltd. All rights reserved.",
|
||||||
|
"label":"Copyright"
|
||||||
|
}
|
||||||
|
],
|
||||||
|
"member":"78",
|
||||||
|
"source":"Crossref",
|
||||||
|
"score":1.0,
|
||||||
|
"deposited":{
|
||||||
|
"timestamp":1584590965000,
|
||||||
|
"date-time":"2020-03-19T04:09:25Z",
|
||||||
|
"date-parts":[
|
||||||
|
[
|
||||||
|
2020,
|
||||||
|
3,
|
||||||
|
19
|
||||||
|
]
|
||||||
|
]
|
||||||
|
},
|
||||||
|
"indexed":{
|
||||||
|
"timestamp":1584592912467,
|
||||||
|
"date-time":"2020-03-19T04:41:52Z",
|
||||||
|
"date-parts":[
|
||||||
|
[
|
||||||
|
2020,
|
||||||
|
3,
|
||||||
|
19
|
||||||
|
]
|
||||||
|
]
|
||||||
|
},
|
||||||
|
"type":"journal-article",
|
||||||
|
"URL":"http://dx.doi.org/10.1016/j.carbpol.2020.115930",
|
||||||
|
"is-referenced-by-count":0,
|
||||||
|
"volume":"234",
|
||||||
|
"issn-type":[
|
||||||
|
{
|
||||||
|
"type":"print",
|
||||||
|
"value":"0144-8617"
|
||||||
|
}
|
||||||
|
],
|
||||||
|
"link":[
|
||||||
|
{
|
||||||
|
"URL":"https://api.elsevier.com/content/article/PII:S0144861720301041?httpAccept=text/xml",
|
||||||
|
"intended-application":"text-mining",
|
||||||
|
"content-version":"vor",
|
||||||
|
"content-type":"text/xml"
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"URL":"https://api.elsevier.com/content/article/PII:S0144861720301041?httpAccept=text/plain",
|
||||||
|
"intended-application":"text-mining",
|
||||||
|
"content-version":"vor",
|
||||||
|
"content-type":"text/plain"
|
||||||
|
}
|
||||||
|
],
|
||||||
|
"update-policy":"http://dx.doi.org/10.1016/elsevier_cm_policy",
|
||||||
|
"references-count":41,
|
||||||
|
"short-container-title":[
|
||||||
|
"Carbohydrate Polymers"
|
||||||
|
],
|
||||||
|
"publisher":"Elsevier BV",
|
||||||
|
"content-domain":{
|
||||||
|
"domain":[
|
||||||
|
"elsevier.com",
|
||||||
|
"sciencedirect.com"
|
||||||
|
],
|
||||||
|
"crossmark-restriction":true
|
||||||
|
},
|
||||||
|
"language":"en",
|
||||||
|
"license":[
|
||||||
|
{
|
||||||
|
"URL":"https://www.elsevier.com/tdm/userlicense/1.0/",
|
||||||
|
"start":{
|
||||||
|
"timestamp":1585699200000,
|
||||||
|
"date-time":"2020-04-01T00:00:00Z",
|
||||||
|
"date-parts":[
|
||||||
|
[
|
||||||
|
2020,
|
||||||
|
4,
|
||||||
|
1
|
||||||
|
]
|
||||||
|
]
|
||||||
|
},
|
||||||
|
"content-version":"tdm",
|
||||||
|
"delay-in-days":0
|
||||||
|
}
|
||||||
|
],
|
||||||
|
"created":{
|
||||||
|
"timestamp":1581759678000,
|
||||||
|
"date-time":"2020-02-15T09:41:18Z",
|
||||||
|
"date-parts":[
|
||||||
|
[
|
||||||
|
2020,
|
||||||
|
2,
|
||||||
|
15
|
||||||
|
]
|
||||||
|
]
|
||||||
|
},
|
||||||
|
"title":[
|
||||||
|
"In vitro/vivo evaluation of novel mitochondrial targeting charge-reversal polysaccharide-based antitumor nanoparticle"
|
||||||
|
],
|
||||||
|
"alternative-id":[
|
||||||
|
"S0144861720301041"
|
||||||
|
],
|
||||||
|
"container-title":[
|
||||||
|
"Carbohydrate Polymers"
|
||||||
|
],
|
||||||
|
"funder":[
|
||||||
|
{
|
||||||
|
"doi-asserted-by":"publisher",
|
||||||
|
"DOI":"10.13039/501100007129",
|
||||||
|
"name":"Natural Science Foundation of Shandong Province",
|
||||||
|
"award":[
|
||||||
|
"ZR2019ZD24",
|
||||||
|
"ZR2019YQ30"
|
||||||
|
]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"doi-asserted-by":"publisher",
|
||||||
|
"DOI":"10.13039/100010449",
|
||||||
|
"name":"Ministry of Education, Libya",
|
||||||
|
"award":[
|
||||||
|
|
||||||
|
]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"doi-asserted-by":"publisher",
|
||||||
|
"DOI":"10.13039/501100012249",
|
||||||
|
"name":"Jiangxi University of Traditional Chinese Medicine",
|
||||||
|
"award":[
|
||||||
|
"TCM-0906"
|
||||||
|
]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"name":"Taishan Scholar Program",
|
||||||
|
"award":[
|
||||||
|
"qnts20161035"
|
||||||
|
]
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"name":"Open fund project of Key Laboratory of Modern Preparation of TCM",
|
||||||
|
"award":[
|
||||||
|
|
||||||
|
]
|
||||||
|
}
|
||||||
|
],
|
||||||
|
"page":"115930",
|
||||||
|
"article-number":"115930"
|
||||||
|
}
|
|
@ -147,9 +147,23 @@ public class CleanGraphSparkJob {
|
||||||
if (Objects.isNull(i.getHostedby()) || StringUtils.isBlank(i.getHostedby().getKey())) {
|
if (Objects.isNull(i.getHostedby()) || StringUtils.isBlank(i.getHostedby().getKey())) {
|
||||||
i.setHostedby(ModelConstants.UNKNOWN_REPOSITORY);
|
i.setHostedby(ModelConstants.UNKNOWN_REPOSITORY);
|
||||||
}
|
}
|
||||||
|
if (Objects.isNull(i.getRefereed())) {
|
||||||
|
i.setRefereed(qualifier("0000", "Unknown", ModelConstants.DNET_REVIEW_LEVELS));
|
||||||
|
}
|
||||||
|
}
|
||||||
|
}
|
||||||
|
if (Objects.nonNull(r.getAuthor())) {
|
||||||
|
boolean nullRank = r
|
||||||
|
.getAuthor()
|
||||||
|
.stream()
|
||||||
|
.anyMatch(a -> Objects.isNull(a.getRank()));
|
||||||
|
if (nullRank) {
|
||||||
|
int i = 1;
|
||||||
|
for (Author author : r.getAuthor()) {
|
||||||
|
author.setRank(i++);
|
||||||
|
}
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
if (value instanceof Publication) {
|
if (value instanceof Publication) {
|
||||||
|
|
||||||
} else if (value instanceof eu.dnetlib.dhp.schema.oaf.Dataset) {
|
} else if (value instanceof eu.dnetlib.dhp.schema.oaf.Dataset) {
|
||||||
|
|
|
@ -50,8 +50,6 @@ import org.apache.commons.lang3.StringUtils;
|
||||||
import org.slf4j.Logger;
|
import org.slf4j.Logger;
|
||||||
import org.slf4j.LoggerFactory;
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
import com.google.common.collect.Lists;
|
|
||||||
|
|
||||||
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
||||||
import eu.dnetlib.dhp.common.DbClient;
|
import eu.dnetlib.dhp.common.DbClient;
|
||||||
import eu.dnetlib.dhp.oa.graph.raw.common.AbstractMigrationApplication;
|
import eu.dnetlib.dhp.oa.graph.raw.common.AbstractMigrationApplication;
|
||||||
|
@ -106,6 +104,9 @@ public class MigrateDbEntitiesApplication extends AbstractMigrationApplication i
|
||||||
final String dbPassword = parser.get("postgresPassword");
|
final String dbPassword = parser.get("postgresPassword");
|
||||||
log.info("postgresPassword: xxx");
|
log.info("postgresPassword: xxx");
|
||||||
|
|
||||||
|
final String dbSchema = parser.get("dbschema");
|
||||||
|
log.info("dbSchema {}: " + dbSchema);
|
||||||
|
|
||||||
final String isLookupUrl = parser.get("isLookupUrl");
|
final String isLookupUrl = parser.get("isLookupUrl");
|
||||||
log.info("isLookupUrl: {}", isLookupUrl);
|
log.info("isLookupUrl: {}", isLookupUrl);
|
||||||
|
|
||||||
|
@ -125,7 +126,11 @@ public class MigrateDbEntitiesApplication extends AbstractMigrationApplication i
|
||||||
smdbe.execute("queryDatasources.sql", smdbe::processDatasource);
|
smdbe.execute("queryDatasources.sql", smdbe::processDatasource);
|
||||||
|
|
||||||
log.info("Processing projects...");
|
log.info("Processing projects...");
|
||||||
|
if (dbSchema.equalsIgnoreCase("beta")) {
|
||||||
smdbe.execute("queryProjects.sql", smdbe::processProject);
|
smdbe.execute("queryProjects.sql", smdbe::processProject);
|
||||||
|
} else {
|
||||||
|
smdbe.execute("queryProjects_production.sql", smdbe::processProject);
|
||||||
|
}
|
||||||
|
|
||||||
log.info("Processing orgs...");
|
log.info("Processing orgs...");
|
||||||
smdbe.execute("queryOrganizations.sql", smdbe::processOrganization);
|
smdbe.execute("queryOrganizations.sql", smdbe::processOrganization);
|
||||||
|
|
|
@ -9,7 +9,15 @@ import java.util.stream.Collectors;
|
||||||
|
|
||||||
import org.apache.commons.lang3.StringUtils;
|
import org.apache.commons.lang3.StringUtils;
|
||||||
|
|
||||||
import eu.dnetlib.dhp.schema.oaf.*;
|
import eu.dnetlib.dhp.schema.oaf.DataInfo;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.ExtraInfo;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Field;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Journal;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.KeyValue;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.OAIProvenance;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.OriginDescription;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Qualifier;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.StructuredProperty;
|
||||||
import eu.dnetlib.dhp.utils.DHPUtils;
|
import eu.dnetlib.dhp.utils.DHPUtils;
|
||||||
|
|
||||||
public class OafMapperUtils {
|
public class OafMapperUtils {
|
||||||
|
@ -89,7 +97,9 @@ public class OafMapperUtils {
|
||||||
}
|
}
|
||||||
|
|
||||||
public static StructuredProperty structuredProperty(
|
public static StructuredProperty structuredProperty(
|
||||||
final String value, final Qualifier qualifier, final DataInfo dataInfo) {
|
final String value,
|
||||||
|
final Qualifier qualifier,
|
||||||
|
final DataInfo dataInfo) {
|
||||||
if (value == null) {
|
if (value == null) {
|
||||||
return null;
|
return null;
|
||||||
}
|
}
|
||||||
|
@ -192,8 +202,12 @@ public class OafMapperUtils {
|
||||||
}
|
}
|
||||||
|
|
||||||
public static String createOpenaireId(
|
public static String createOpenaireId(
|
||||||
final int prefix, final String originalId, final boolean to_md5) {
|
final int prefix,
|
||||||
if (to_md5) {
|
final String originalId,
|
||||||
|
final boolean to_md5) {
|
||||||
|
if (StringUtils.isBlank(originalId)) {
|
||||||
|
return null;
|
||||||
|
} else if (to_md5) {
|
||||||
final String nsPrefix = StringUtils.substringBefore(originalId, "::");
|
final String nsPrefix = StringUtils.substringBefore(originalId, "::");
|
||||||
final String rest = StringUtils.substringAfter(originalId, "::");
|
final String rest = StringUtils.substringAfter(originalId, "::");
|
||||||
return String.format("%s|%s::%s", prefix, nsPrefix, DHPUtils.md5(rest));
|
return String.format("%s|%s::%s", prefix, nsPrefix, DHPUtils.md5(rest));
|
||||||
|
@ -203,7 +217,9 @@ public class OafMapperUtils {
|
||||||
}
|
}
|
||||||
|
|
||||||
public static String createOpenaireId(
|
public static String createOpenaireId(
|
||||||
final String type, final String originalId, final boolean to_md5) {
|
final String type,
|
||||||
|
final String originalId,
|
||||||
|
final boolean to_md5) {
|
||||||
switch (type) {
|
switch (type) {
|
||||||
case "datasource":
|
case "datasource":
|
||||||
return createOpenaireId(10, originalId, to_md5);
|
return createOpenaireId(10, originalId, to_md5);
|
||||||
|
|
|
@ -34,5 +34,11 @@
|
||||||
"paramLongName": "isLookupUrl",
|
"paramLongName": "isLookupUrl",
|
||||||
"paramDescription": "the url of the ISLookupService",
|
"paramDescription": "the url of the ISLookupService",
|
||||||
"paramRequired": true
|
"paramRequired": true
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"paramName": "dbschema",
|
||||||
|
"paramLongName": "dbschema",
|
||||||
|
"paramDescription": "the database schema according to the D-Net infrastructure (beta or production)",
|
||||||
|
"paramRequired": true
|
||||||
}
|
}
|
||||||
]
|
]
|
|
@ -25,6 +25,11 @@
|
||||||
<property>
|
<property>
|
||||||
<name>postgresPassword</name>
|
<name>postgresPassword</name>
|
||||||
<description>the password postgres</description>
|
<description>the password postgres</description>
|
||||||
|
</property>
|
||||||
|
<property>
|
||||||
|
<name>dbSchema</name>
|
||||||
|
<value>beta</value>
|
||||||
|
<description>the database schema according to the D-Net infrastructure (beta or production)</description>
|
||||||
</property>
|
</property>
|
||||||
<property>
|
<property>
|
||||||
<name>mongoURL</name>
|
<name>mongoURL</name>
|
||||||
|
@ -125,6 +130,7 @@
|
||||||
<arg>--postgresPassword</arg><arg>${postgresPassword}</arg>
|
<arg>--postgresPassword</arg><arg>${postgresPassword}</arg>
|
||||||
<arg>--isLookupUrl</arg><arg>${isLookupUrl}</arg>
|
<arg>--isLookupUrl</arg><arg>${isLookupUrl}</arg>
|
||||||
<arg>--action</arg><arg>claims</arg>
|
<arg>--action</arg><arg>claims</arg>
|
||||||
|
<arg>--dbschema</arg><arg>${dbSchema}</arg>
|
||||||
</java>
|
</java>
|
||||||
<ok to="ImportODF_claims"/>
|
<ok to="ImportODF_claims"/>
|
||||||
<error to="Kill"/>
|
<error to="Kill"/>
|
||||||
|
@ -175,6 +181,7 @@
|
||||||
<arg>--postgresUser</arg><arg>${postgresUser}</arg>
|
<arg>--postgresUser</arg><arg>${postgresUser}</arg>
|
||||||
<arg>--postgresPassword</arg><arg>${postgresPassword}</arg>
|
<arg>--postgresPassword</arg><arg>${postgresPassword}</arg>
|
||||||
<arg>--isLookupUrl</arg><arg>${isLookupUrl}</arg>
|
<arg>--isLookupUrl</arg><arg>${isLookupUrl}</arg>
|
||||||
|
<arg>--dbschema</arg><arg>${dbSchema}</arg>
|
||||||
</java>
|
</java>
|
||||||
<ok to="ImportODF"/>
|
<ok to="ImportODF"/>
|
||||||
<error to="Kill"/>
|
<error to="Kill"/>
|
||||||
|
|
|
@ -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"
|
||||||
|
|
|
@ -25,9 +25,7 @@ import eu.dnetlib.dhp.common.HdfsSupport;
|
||||||
import eu.dnetlib.dhp.oa.provision.model.ProvisionModelSupport;
|
import eu.dnetlib.dhp.oa.provision.model.ProvisionModelSupport;
|
||||||
import eu.dnetlib.dhp.oa.provision.model.RelatedEntity;
|
import eu.dnetlib.dhp.oa.provision.model.RelatedEntity;
|
||||||
import eu.dnetlib.dhp.oa.provision.model.RelatedEntityWrapper;
|
import eu.dnetlib.dhp.oa.provision.model.RelatedEntityWrapper;
|
||||||
import eu.dnetlib.dhp.oa.provision.model.SortableRelation;
|
|
||||||
import eu.dnetlib.dhp.schema.common.EntityType;
|
import eu.dnetlib.dhp.schema.common.EntityType;
|
||||||
import eu.dnetlib.dhp.schema.common.ModelSupport;
|
|
||||||
import eu.dnetlib.dhp.schema.oaf.*;
|
import eu.dnetlib.dhp.schema.oaf.*;
|
||||||
import scala.Tuple2;
|
import scala.Tuple2;
|
||||||
|
|
||||||
|
@ -109,11 +107,12 @@ public class CreateRelatedEntitiesJob_phase1 {
|
||||||
Class<E> clazz,
|
Class<E> clazz,
|
||||||
String outputPath) {
|
String outputPath) {
|
||||||
|
|
||||||
Dataset<Tuple2<String, SortableRelation>> relsByTarget = readPathRelation(spark, inputRelationsPath)
|
Dataset<Tuple2<String, Relation>> relsByTarget = readPathRelation(spark, inputRelationsPath)
|
||||||
.filter("dataInfo.deletedbyinference == false")
|
.filter("dataInfo.deletedbyinference == false")
|
||||||
.map(
|
.map(
|
||||||
(MapFunction<SortableRelation, Tuple2<String, SortableRelation>>) r -> new Tuple2<>(r.getTarget(), r),
|
(MapFunction<Relation, Tuple2<String, Relation>>) r -> new Tuple2<>(r.getTarget(),
|
||||||
Encoders.tuple(Encoders.STRING(), Encoders.kryo(SortableRelation.class)))
|
r),
|
||||||
|
Encoders.tuple(Encoders.STRING(), Encoders.kryo(Relation.class)))
|
||||||
.cache();
|
.cache();
|
||||||
|
|
||||||
Dataset<Tuple2<String, RelatedEntity>> entities = readPathEntity(spark, inputEntityPath, clazz)
|
Dataset<Tuple2<String, RelatedEntity>> entities = readPathEntity(spark, inputEntityPath, clazz)
|
||||||
|
@ -129,7 +128,7 @@ public class CreateRelatedEntitiesJob_phase1 {
|
||||||
relsByTarget
|
relsByTarget
|
||||||
.joinWith(entities, entities.col("_1").equalTo(relsByTarget.col("_1")), "inner")
|
.joinWith(entities, entities.col("_1").equalTo(relsByTarget.col("_1")), "inner")
|
||||||
.map(
|
.map(
|
||||||
(MapFunction<Tuple2<Tuple2<String, SortableRelation>, Tuple2<String, RelatedEntity>>, RelatedEntityWrapper>) t -> new RelatedEntityWrapper(
|
(MapFunction<Tuple2<Tuple2<String, Relation>, Tuple2<String, RelatedEntity>>, RelatedEntityWrapper>) t -> new RelatedEntityWrapper(
|
||||||
t._1()._2(), t._2()._2()),
|
t._1()._2(), t._2()._2()),
|
||||||
Encoders.kryo(RelatedEntityWrapper.class))
|
Encoders.kryo(RelatedEntityWrapper.class))
|
||||||
.write()
|
.write()
|
||||||
|
@ -232,11 +231,11 @@ public class CreateRelatedEntitiesJob_phase1 {
|
||||||
* @param relationPath
|
* @param relationPath
|
||||||
* @return the Dataset<SortableRelation> containing all the relationships
|
* @return the Dataset<SortableRelation> containing all the relationships
|
||||||
*/
|
*/
|
||||||
private static Dataset<SortableRelation> readPathRelation(
|
private static Dataset<Relation> readPathRelation(
|
||||||
SparkSession spark, final String relationPath) {
|
SparkSession spark, final String relationPath) {
|
||||||
|
|
||||||
log.info("Reading relations from: {}", relationPath);
|
log.info("Reading relations from: {}", relationPath);
|
||||||
return spark.read().load(relationPath).as(Encoders.bean(SortableRelation.class));
|
return spark.read().load(relationPath).as(Encoders.bean(Relation.class));
|
||||||
}
|
}
|
||||||
|
|
||||||
private static void removeOutputDir(SparkSession spark, String path) {
|
private static void removeOutputDir(SparkSession spark, String path) {
|
||||||
|
|
|
@ -19,7 +19,6 @@ import org.apache.spark.sql.expressions.Aggregator;
|
||||||
import org.slf4j.Logger;
|
import org.slf4j.Logger;
|
||||||
import org.slf4j.LoggerFactory;
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
import com.fasterxml.jackson.core.JsonProcessingException;
|
|
||||||
import com.fasterxml.jackson.databind.ObjectMapper;
|
import com.fasterxml.jackson.databind.ObjectMapper;
|
||||||
import com.google.common.collect.Lists;
|
import com.google.common.collect.Lists;
|
||||||
|
|
||||||
|
@ -28,8 +27,6 @@ import eu.dnetlib.dhp.common.HdfsSupport;
|
||||||
import eu.dnetlib.dhp.oa.provision.model.JoinedEntity;
|
import eu.dnetlib.dhp.oa.provision.model.JoinedEntity;
|
||||||
import eu.dnetlib.dhp.oa.provision.model.ProvisionModelSupport;
|
import eu.dnetlib.dhp.oa.provision.model.ProvisionModelSupport;
|
||||||
import eu.dnetlib.dhp.oa.provision.model.RelatedEntityWrapper;
|
import eu.dnetlib.dhp.oa.provision.model.RelatedEntityWrapper;
|
||||||
import eu.dnetlib.dhp.oa.provision.model.TypedRow;
|
|
||||||
import eu.dnetlib.dhp.schema.common.EntityType;
|
|
||||||
import eu.dnetlib.dhp.schema.common.ModelSupport;
|
import eu.dnetlib.dhp.schema.common.ModelSupport;
|
||||||
import eu.dnetlib.dhp.schema.oaf.*;
|
import eu.dnetlib.dhp.schema.oaf.*;
|
||||||
import scala.Tuple2;
|
import scala.Tuple2;
|
||||||
|
@ -305,20 +302,6 @@ public class CreateRelatedEntitiesJob_phase2 {
|
||||||
|
|
||||||
private static FilterFunction<JoinedEntity> filterEmptyEntityFn() {
|
private static FilterFunction<JoinedEntity> filterEmptyEntityFn() {
|
||||||
return (FilterFunction<JoinedEntity>) v -> Objects.nonNull(v.getEntity());
|
return (FilterFunction<JoinedEntity>) v -> Objects.nonNull(v.getEntity());
|
||||||
/*
|
|
||||||
* return (FilterFunction<JoinedEntity>) v -> Optional .ofNullable(v.getEntity()) .map(e ->
|
|
||||||
* StringUtils.isNotBlank(e.getId())) .orElse(false);
|
|
||||||
*/
|
|
||||||
}
|
|
||||||
|
|
||||||
private static TypedRow getTypedRow(String type, OafEntity entity)
|
|
||||||
throws JsonProcessingException {
|
|
||||||
TypedRow t = new TypedRow();
|
|
||||||
t.setType(type);
|
|
||||||
t.setDeleted(entity.getDataInfo().getDeletedbyinference());
|
|
||||||
t.setId(entity.getId());
|
|
||||||
t.setOaf(OBJECT_MAPPER.writeValueAsString(entity));
|
|
||||||
return t;
|
|
||||||
}
|
}
|
||||||
|
|
||||||
private static void removeOutputDir(SparkSession spark, String path) {
|
private static void removeOutputDir(SparkSession spark, String path) {
|
||||||
|
|
|
@ -4,34 +4,35 @@ package eu.dnetlib.dhp.oa.provision;
|
||||||
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
|
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
|
||||||
|
|
||||||
import java.util.*;
|
import java.util.*;
|
||||||
import java.util.function.Function;
|
import java.util.function.Supplier;
|
||||||
|
import java.util.stream.Collectors;
|
||||||
|
|
||||||
import org.apache.commons.io.IOUtils;
|
import org.apache.commons.io.IOUtils;
|
||||||
import org.apache.spark.SparkConf;
|
import org.apache.spark.SparkConf;
|
||||||
import org.apache.spark.api.java.JavaRDD;
|
import org.apache.spark.api.java.JavaRDD;
|
||||||
import org.apache.spark.api.java.JavaSparkContext;
|
import org.apache.spark.api.java.JavaSparkContext;
|
||||||
import org.apache.spark.api.java.function.*;
|
import org.apache.spark.api.java.function.FilterFunction;
|
||||||
|
import org.apache.spark.api.java.function.FlatMapFunction;
|
||||||
|
import org.apache.spark.api.java.function.Function;
|
||||||
|
import org.apache.spark.api.java.function.MapFunction;
|
||||||
import org.apache.spark.rdd.RDD;
|
import org.apache.spark.rdd.RDD;
|
||||||
import org.apache.spark.sql.Dataset;
|
import org.apache.spark.sql.*;
|
||||||
import org.apache.spark.sql.Encoders;
|
import org.apache.spark.sql.expressions.Aggregator;
|
||||||
import org.apache.spark.sql.SaveMode;
|
|
||||||
import org.apache.spark.sql.SparkSession;
|
|
||||||
import org.slf4j.Logger;
|
import org.slf4j.Logger;
|
||||||
import org.slf4j.LoggerFactory;
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
import com.clearspring.analytics.util.Lists;
|
|
||||||
import com.fasterxml.jackson.databind.ObjectMapper;
|
import com.fasterxml.jackson.databind.ObjectMapper;
|
||||||
import com.google.common.base.Splitter;
|
import com.google.common.base.Splitter;
|
||||||
import com.google.common.collect.Iterables;
|
import com.google.common.collect.Iterables;
|
||||||
import com.google.common.collect.Iterators;
|
import com.google.common.collect.Maps;
|
||||||
import com.google.common.collect.Sets;
|
import com.google.common.collect.Sets;
|
||||||
|
|
||||||
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
||||||
import eu.dnetlib.dhp.common.FunctionalInterfaceSupport;
|
|
||||||
import eu.dnetlib.dhp.common.HdfsSupport;
|
import eu.dnetlib.dhp.common.HdfsSupport;
|
||||||
import eu.dnetlib.dhp.oa.provision.model.SortableRelation;
|
import eu.dnetlib.dhp.oa.provision.model.ProvisionModelSupport;
|
||||||
|
import eu.dnetlib.dhp.oa.provision.model.SortableRelationKey;
|
||||||
import eu.dnetlib.dhp.oa.provision.utils.RelationPartitioner;
|
import eu.dnetlib.dhp.oa.provision.utils.RelationPartitioner;
|
||||||
import scala.Function1;
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
||||||
import scala.Tuple2;
|
import scala.Tuple2;
|
||||||
|
|
||||||
/**
|
/**
|
||||||
|
@ -106,6 +107,8 @@ public class PrepareRelationsJob {
|
||||||
log.info("maxRelations: {}", maxRelations);
|
log.info("maxRelations: {}", maxRelations);
|
||||||
|
|
||||||
SparkConf conf = new SparkConf();
|
SparkConf conf = new SparkConf();
|
||||||
|
conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer");
|
||||||
|
conf.registerKryoClasses(ProvisionModelSupport.getModelClasses());
|
||||||
|
|
||||||
runWithSparkSession(
|
runWithSparkSession(
|
||||||
conf,
|
conf,
|
||||||
|
@ -129,31 +132,111 @@ public class PrepareRelationsJob {
|
||||||
* @param maxRelations maximum number of allowed outgoing edges
|
* @param maxRelations maximum number of allowed outgoing edges
|
||||||
* @param relPartitions number of partitions for the output RDD
|
* @param relPartitions number of partitions for the output RDD
|
||||||
*/
|
*/
|
||||||
private static void prepareRelationsRDD(
|
private static void prepareRelationsRDD(SparkSession spark, String inputRelationsPath, String outputPath,
|
||||||
SparkSession spark, String inputRelationsPath, String outputPath, Set<String> relationFilter, int maxRelations,
|
Set<String> relationFilter, int maxRelations, int relPartitions) {
|
||||||
int relPartitions) {
|
|
||||||
|
|
||||||
RDD<SortableRelation> cappedRels = readPathRelationRDD(spark, inputRelationsPath)
|
|
||||||
.repartition(relPartitions)
|
|
||||||
.filter(rel -> !rel.getDataInfo().getDeletedbyinference())
|
|
||||||
.filter(rel -> !relationFilter.contains(rel.getRelClass()))
|
|
||||||
// group by SOURCE and apply limit
|
// group by SOURCE and apply limit
|
||||||
.mapToPair(rel -> new Tuple2<>(rel.getSource(), rel))
|
RDD<Relation> bySource = readPathRelationRDD(spark, inputRelationsPath)
|
||||||
.groupByKey(new RelationPartitioner(relPartitions))
|
.filter(rel -> rel.getDataInfo().getDeletedbyinference() == false)
|
||||||
.flatMap(group -> Iterables.limit(group._2(), maxRelations).iterator())
|
.filter(rel -> relationFilter.contains(rel.getRelClass()) == false)
|
||||||
// group by TARGET and apply limit
|
.mapToPair(r -> new Tuple2<>(SortableRelationKey.create(r, r.getSource()), r))
|
||||||
.mapToPair(rel -> new Tuple2<>(rel.getTarget(), rel))
|
.repartitionAndSortWithinPartitions(new RelationPartitioner(relPartitions))
|
||||||
.groupByKey(new RelationPartitioner(relPartitions))
|
.groupBy(Tuple2::_1)
|
||||||
.flatMap(group -> Iterables.limit(group._2(), maxRelations).iterator())
|
.map(Tuple2::_2)
|
||||||
|
.map(t -> Iterables.limit(t, maxRelations))
|
||||||
|
.flatMap(Iterable::iterator)
|
||||||
|
.map(Tuple2::_2)
|
||||||
.rdd();
|
.rdd();
|
||||||
|
|
||||||
spark
|
spark
|
||||||
.createDataset(cappedRels, Encoders.bean(SortableRelation.class))
|
.createDataset(bySource, Encoders.bean(Relation.class))
|
||||||
|
.repartition(relPartitions)
|
||||||
.write()
|
.write()
|
||||||
.mode(SaveMode.Overwrite)
|
.mode(SaveMode.Overwrite)
|
||||||
.parquet(outputPath);
|
.parquet(outputPath);
|
||||||
}
|
}
|
||||||
|
|
||||||
|
private static void prepareRelationsDataset(
|
||||||
|
SparkSession spark, String inputRelationsPath, String outputPath, Set<String> relationFilter, int maxRelations,
|
||||||
|
int relPartitions) {
|
||||||
|
spark
|
||||||
|
.read()
|
||||||
|
.textFile(inputRelationsPath)
|
||||||
|
.repartition(relPartitions)
|
||||||
|
.map(
|
||||||
|
(MapFunction<String, Relation>) s -> OBJECT_MAPPER.readValue(s, Relation.class),
|
||||||
|
Encoders.kryo(Relation.class))
|
||||||
|
.filter((FilterFunction<Relation>) rel -> rel.getDataInfo().getDeletedbyinference() == false)
|
||||||
|
.filter((FilterFunction<Relation>) rel -> relationFilter.contains(rel.getRelClass()) == false)
|
||||||
|
.groupByKey(
|
||||||
|
(MapFunction<Relation, String>) Relation::getSource,
|
||||||
|
Encoders.STRING())
|
||||||
|
.agg(new RelationAggregator(maxRelations).toColumn())
|
||||||
|
.flatMap(
|
||||||
|
(FlatMapFunction<Tuple2<String, RelationList>, Relation>) t -> Iterables
|
||||||
|
.limit(t._2().getRelations(), maxRelations)
|
||||||
|
.iterator(),
|
||||||
|
Encoders.bean(Relation.class))
|
||||||
|
.repartition(relPartitions)
|
||||||
|
.write()
|
||||||
|
.mode(SaveMode.Overwrite)
|
||||||
|
.parquet(outputPath);
|
||||||
|
}
|
||||||
|
|
||||||
|
public static class RelationAggregator
|
||||||
|
extends Aggregator<Relation, RelationList, RelationList> {
|
||||||
|
|
||||||
|
private int maxRelations;
|
||||||
|
|
||||||
|
public RelationAggregator(int maxRelations) {
|
||||||
|
this.maxRelations = maxRelations;
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public RelationList zero() {
|
||||||
|
return new RelationList();
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public RelationList reduce(RelationList b, Relation a) {
|
||||||
|
b.getRelations().add(a);
|
||||||
|
return getSortableRelationList(b);
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public RelationList merge(RelationList b1, RelationList b2) {
|
||||||
|
b1.getRelations().addAll(b2.getRelations());
|
||||||
|
return getSortableRelationList(b1);
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public RelationList finish(RelationList r) {
|
||||||
|
return getSortableRelationList(r);
|
||||||
|
}
|
||||||
|
|
||||||
|
private RelationList getSortableRelationList(RelationList b1) {
|
||||||
|
RelationList sr = new RelationList();
|
||||||
|
sr
|
||||||
|
.setRelations(
|
||||||
|
b1
|
||||||
|
.getRelations()
|
||||||
|
.stream()
|
||||||
|
.limit(maxRelations)
|
||||||
|
.collect(Collectors.toCollection(() -> new PriorityQueue<>(new RelationComparator()))));
|
||||||
|
return sr;
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public Encoder<RelationList> bufferEncoder() {
|
||||||
|
return Encoders.kryo(RelationList.class);
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public Encoder<RelationList> outputEncoder() {
|
||||||
|
return Encoders.kryo(RelationList.class);
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
/**
|
/**
|
||||||
* Reads a JavaRDD of eu.dnetlib.dhp.oa.provision.model.SortableRelation objects from a newline delimited json text
|
* Reads a JavaRDD of eu.dnetlib.dhp.oa.provision.model.SortableRelation objects from a newline delimited json text
|
||||||
* file,
|
* file,
|
||||||
|
@ -162,10 +245,10 @@ public class PrepareRelationsJob {
|
||||||
* @param inputPath
|
* @param inputPath
|
||||||
* @return the JavaRDD<SortableRelation> containing all the relationships
|
* @return the JavaRDD<SortableRelation> containing all the relationships
|
||||||
*/
|
*/
|
||||||
private static JavaRDD<SortableRelation> readPathRelationRDD(
|
private static JavaRDD<Relation> readPathRelationRDD(
|
||||||
SparkSession spark, final String inputPath) {
|
SparkSession spark, final String inputPath) {
|
||||||
JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
|
JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
|
||||||
return sc.textFile(inputPath).map(s -> OBJECT_MAPPER.readValue(s, SortableRelation.class));
|
return sc.textFile(inputPath).map(s -> OBJECT_MAPPER.readValue(s, Relation.class));
|
||||||
}
|
}
|
||||||
|
|
||||||
private static void removeOutputDir(SparkSession spark, String path) {
|
private static void removeOutputDir(SparkSession spark, String path) {
|
||||||
|
|
|
@ -0,0 +1,43 @@
|
||||||
|
|
||||||
|
package eu.dnetlib.dhp.oa.provision;
|
||||||
|
|
||||||
|
import java.util.Comparator;
|
||||||
|
import java.util.Map;
|
||||||
|
import java.util.Optional;
|
||||||
|
|
||||||
|
import com.google.common.collect.ComparisonChain;
|
||||||
|
import com.google.common.collect.Maps;
|
||||||
|
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
||||||
|
|
||||||
|
public class RelationComparator implements Comparator<Relation> {
|
||||||
|
|
||||||
|
private static final Map<String, Integer> weights = Maps.newHashMap();
|
||||||
|
|
||||||
|
static {
|
||||||
|
weights.put("outcome", 0);
|
||||||
|
weights.put("supplement", 1);
|
||||||
|
weights.put("review", 2);
|
||||||
|
weights.put("citation", 3);
|
||||||
|
weights.put("affiliation", 4);
|
||||||
|
weights.put("relationship", 5);
|
||||||
|
weights.put("publicationDataset", 6);
|
||||||
|
weights.put("similarity", 7);
|
||||||
|
|
||||||
|
weights.put("provision", 8);
|
||||||
|
weights.put("participation", 9);
|
||||||
|
weights.put("dedup", 10);
|
||||||
|
}
|
||||||
|
|
||||||
|
private Integer getWeight(Relation o) {
|
||||||
|
return Optional.ofNullable(weights.get(o.getSubRelType())).orElse(Integer.MAX_VALUE);
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public int compare(Relation o1, Relation o2) {
|
||||||
|
return ComparisonChain
|
||||||
|
.start()
|
||||||
|
.compare(getWeight(o1), getWeight(o2))
|
||||||
|
.result();
|
||||||
|
}
|
||||||
|
}
|
|
@ -0,0 +1,25 @@
|
||||||
|
|
||||||
|
package eu.dnetlib.dhp.oa.provision;
|
||||||
|
|
||||||
|
import java.io.Serializable;
|
||||||
|
import java.util.PriorityQueue;
|
||||||
|
import java.util.Queue;
|
||||||
|
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
||||||
|
|
||||||
|
public class RelationList implements Serializable {
|
||||||
|
|
||||||
|
private Queue<Relation> relations;
|
||||||
|
|
||||||
|
public RelationList() {
|
||||||
|
this.relations = new PriorityQueue<>(new RelationComparator());
|
||||||
|
}
|
||||||
|
|
||||||
|
public Queue<Relation> getRelations() {
|
||||||
|
return relations;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setRelations(Queue<Relation> relations) {
|
||||||
|
this.relations = relations;
|
||||||
|
}
|
||||||
|
}
|
|
@ -0,0 +1,80 @@
|
||||||
|
|
||||||
|
package eu.dnetlib.dhp.oa.provision;
|
||||||
|
|
||||||
|
import java.io.Serializable;
|
||||||
|
import java.util.Map;
|
||||||
|
import java.util.Optional;
|
||||||
|
|
||||||
|
import com.fasterxml.jackson.annotation.JsonIgnore;
|
||||||
|
import com.google.common.collect.ComparisonChain;
|
||||||
|
import com.google.common.collect.Maps;
|
||||||
|
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
||||||
|
|
||||||
|
public class SortableRelation extends Relation implements Comparable<SortableRelation>, Serializable {
|
||||||
|
|
||||||
|
private static final Map<String, Integer> weights = Maps.newHashMap();
|
||||||
|
|
||||||
|
static {
|
||||||
|
weights.put("outcome", 0);
|
||||||
|
weights.put("supplement", 1);
|
||||||
|
weights.put("review", 2);
|
||||||
|
weights.put("citation", 3);
|
||||||
|
weights.put("affiliation", 4);
|
||||||
|
weights.put("relationship", 5);
|
||||||
|
weights.put("publicationDataset", 6);
|
||||||
|
weights.put("similarity", 7);
|
||||||
|
|
||||||
|
weights.put("provision", 8);
|
||||||
|
weights.put("participation", 9);
|
||||||
|
weights.put("dedup", 10);
|
||||||
|
}
|
||||||
|
|
||||||
|
private static final long serialVersionUID = 34753984579L;
|
||||||
|
|
||||||
|
private String groupingKey;
|
||||||
|
|
||||||
|
public static SortableRelation create(Relation r, String groupingKey) {
|
||||||
|
SortableRelation sr = new SortableRelation();
|
||||||
|
sr.setGroupingKey(groupingKey);
|
||||||
|
sr.setSource(r.getSource());
|
||||||
|
sr.setTarget(r.getTarget());
|
||||||
|
sr.setRelType(r.getRelType());
|
||||||
|
sr.setSubRelType(r.getSubRelType());
|
||||||
|
sr.setRelClass(r.getRelClass());
|
||||||
|
sr.setDataInfo(r.getDataInfo());
|
||||||
|
sr.setCollectedfrom(r.getCollectedfrom());
|
||||||
|
sr.setLastupdatetimestamp(r.getLastupdatetimestamp());
|
||||||
|
sr.setProperties(r.getProperties());
|
||||||
|
sr.setValidated(r.getValidated());
|
||||||
|
sr.setValidationDate(r.getValidationDate());
|
||||||
|
|
||||||
|
return sr;
|
||||||
|
}
|
||||||
|
|
||||||
|
@JsonIgnore
|
||||||
|
public Relation asRelation() {
|
||||||
|
return this;
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public int compareTo(SortableRelation o) {
|
||||||
|
return ComparisonChain
|
||||||
|
.start()
|
||||||
|
.compare(getGroupingKey(), o.getGroupingKey())
|
||||||
|
.compare(getWeight(this), getWeight(o))
|
||||||
|
.result();
|
||||||
|
}
|
||||||
|
|
||||||
|
private Integer getWeight(SortableRelation o) {
|
||||||
|
return Optional.ofNullable(weights.get(o.getSubRelType())).orElse(Integer.MAX_VALUE);
|
||||||
|
}
|
||||||
|
|
||||||
|
public String getGroupingKey() {
|
||||||
|
return groupingKey;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setGroupingKey(String groupingKey) {
|
||||||
|
this.groupingKey = groupingKey;
|
||||||
|
}
|
||||||
|
}
|
|
@ -5,6 +5,8 @@ import java.util.List;
|
||||||
|
|
||||||
import com.google.common.collect.Lists;
|
import com.google.common.collect.Lists;
|
||||||
|
|
||||||
|
import eu.dnetlib.dhp.oa.provision.RelationList;
|
||||||
|
import eu.dnetlib.dhp.oa.provision.SortableRelation;
|
||||||
import eu.dnetlib.dhp.schema.common.ModelSupport;
|
import eu.dnetlib.dhp.schema.common.ModelSupport;
|
||||||
|
|
||||||
public class ProvisionModelSupport {
|
public class ProvisionModelSupport {
|
||||||
|
@ -15,11 +17,12 @@ public class ProvisionModelSupport {
|
||||||
.addAll(
|
.addAll(
|
||||||
Lists
|
Lists
|
||||||
.newArrayList(
|
.newArrayList(
|
||||||
TypedRow.class,
|
|
||||||
RelatedEntityWrapper.class,
|
RelatedEntityWrapper.class,
|
||||||
JoinedEntity.class,
|
JoinedEntity.class,
|
||||||
RelatedEntity.class,
|
RelatedEntity.class,
|
||||||
SortableRelation.class));
|
SortableRelationKey.class,
|
||||||
|
SortableRelation.class,
|
||||||
|
RelationList.class));
|
||||||
return modelClasses.toArray(new Class[] {});
|
return modelClasses.toArray(new Class[] {});
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
|
|
|
@ -5,28 +5,26 @@ import java.io.Serializable;
|
||||||
|
|
||||||
import com.google.common.base.Objects;
|
import com.google.common.base.Objects;
|
||||||
|
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
||||||
|
|
||||||
public class RelatedEntityWrapper implements Serializable {
|
public class RelatedEntityWrapper implements Serializable {
|
||||||
|
|
||||||
private SortableRelation relation;
|
private Relation relation;
|
||||||
private RelatedEntity target;
|
private RelatedEntity target;
|
||||||
|
|
||||||
public RelatedEntityWrapper() {
|
public RelatedEntityWrapper() {
|
||||||
}
|
}
|
||||||
|
|
||||||
public RelatedEntityWrapper(SortableRelation relation, RelatedEntity target) {
|
public RelatedEntityWrapper(Relation relation, RelatedEntity target) {
|
||||||
this(null, relation, target);
|
|
||||||
}
|
|
||||||
|
|
||||||
public RelatedEntityWrapper(TypedRow entity, SortableRelation relation, RelatedEntity target) {
|
|
||||||
this.relation = relation;
|
this.relation = relation;
|
||||||
this.target = target;
|
this.target = target;
|
||||||
}
|
}
|
||||||
|
|
||||||
public SortableRelation getRelation() {
|
public Relation getRelation() {
|
||||||
return relation;
|
return relation;
|
||||||
}
|
}
|
||||||
|
|
||||||
public void setRelation(SortableRelation relation) {
|
public void setRelation(Relation relation) {
|
||||||
this.relation = relation;
|
this.relation = relation;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
|
@ -1,38 +0,0 @@
|
||||||
|
|
||||||
package eu.dnetlib.dhp.oa.provision.model;
|
|
||||||
|
|
||||||
import java.io.Serializable;
|
|
||||||
import java.util.Map;
|
|
||||||
|
|
||||||
import com.google.common.collect.ComparisonChain;
|
|
||||||
import com.google.common.collect.Maps;
|
|
||||||
|
|
||||||
import eu.dnetlib.dhp.schema.oaf.Relation;
|
|
||||||
|
|
||||||
public class SortableRelation extends Relation implements Comparable<Relation>, Serializable {
|
|
||||||
|
|
||||||
private static final Map<String, Integer> weights = Maps.newHashMap();
|
|
||||||
|
|
||||||
static {
|
|
||||||
weights.put("outcome", 0);
|
|
||||||
weights.put("supplement", 1);
|
|
||||||
weights.put("affiliation", 2);
|
|
||||||
weights.put("relationship", 3);
|
|
||||||
weights.put("publicationDataset", 4);
|
|
||||||
weights.put("similarity", 5);
|
|
||||||
|
|
||||||
weights.put("provision", 6);
|
|
||||||
weights.put("participation", 7);
|
|
||||||
weights.put("dedup", 8);
|
|
||||||
}
|
|
||||||
|
|
||||||
@Override
|
|
||||||
public int compareTo(Relation o) {
|
|
||||||
return ComparisonChain
|
|
||||||
.start()
|
|
||||||
.compare(weights.get(getSubRelType()), weights.get(o.getSubRelType()))
|
|
||||||
.compare(getSource(), o.getSource())
|
|
||||||
.compare(getTarget(), o.getTarget())
|
|
||||||
.result();
|
|
||||||
}
|
|
||||||
}
|
|
|
@ -0,0 +1,90 @@
|
||||||
|
|
||||||
|
package eu.dnetlib.dhp.oa.provision.model;
|
||||||
|
|
||||||
|
import java.io.Serializable;
|
||||||
|
import java.util.Map;
|
||||||
|
import java.util.Optional;
|
||||||
|
|
||||||
|
import com.google.common.base.Objects;
|
||||||
|
import com.google.common.collect.ComparisonChain;
|
||||||
|
import com.google.common.collect.Maps;
|
||||||
|
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
||||||
|
|
||||||
|
public class SortableRelationKey implements Comparable<SortableRelationKey>, Serializable {
|
||||||
|
|
||||||
|
private static final Map<String, Integer> weights = Maps.newHashMap();
|
||||||
|
|
||||||
|
static {
|
||||||
|
weights.put("outcome", 0);
|
||||||
|
weights.put("supplement", 1);
|
||||||
|
weights.put("review", 2);
|
||||||
|
weights.put("citation", 3);
|
||||||
|
weights.put("affiliation", 4);
|
||||||
|
weights.put("relationship", 5);
|
||||||
|
weights.put("publicationDataset", 6);
|
||||||
|
weights.put("similarity", 7);
|
||||||
|
|
||||||
|
weights.put("provision", 8);
|
||||||
|
weights.put("participation", 9);
|
||||||
|
weights.put("dedup", 10);
|
||||||
|
}
|
||||||
|
|
||||||
|
private static final long serialVersionUID = 3232323;
|
||||||
|
|
||||||
|
private String groupingKey;
|
||||||
|
|
||||||
|
private String subRelType;
|
||||||
|
|
||||||
|
public static SortableRelationKey create(Relation r, String groupingKey) {
|
||||||
|
SortableRelationKey sr = new SortableRelationKey();
|
||||||
|
sr.setGroupingKey(groupingKey);
|
||||||
|
sr.setSubRelType(r.getSubRelType());
|
||||||
|
return sr;
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public boolean equals(Object o) {
|
||||||
|
if (this == o)
|
||||||
|
return true;
|
||||||
|
if (o == null || getClass() != o.getClass())
|
||||||
|
return false;
|
||||||
|
SortableRelationKey that = (SortableRelationKey) o;
|
||||||
|
return getGroupingKey().equals(that.getGroupingKey());
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public int hashCode() {
|
||||||
|
return Objects.hashCode(getGroupingKey());
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public int compareTo(SortableRelationKey o) {
|
||||||
|
return ComparisonChain
|
||||||
|
.start()
|
||||||
|
.compare(getGroupingKey(), o.getGroupingKey())
|
||||||
|
.compare(getWeight(this), getWeight(o))
|
||||||
|
.result();
|
||||||
|
}
|
||||||
|
|
||||||
|
private Integer getWeight(SortableRelationKey o) {
|
||||||
|
return Optional.ofNullable(weights.get(o.getSubRelType())).orElse(Integer.MAX_VALUE);
|
||||||
|
}
|
||||||
|
|
||||||
|
public String getSubRelType() {
|
||||||
|
return subRelType;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setSubRelType(String subRelType) {
|
||||||
|
this.subRelType = subRelType;
|
||||||
|
}
|
||||||
|
|
||||||
|
public String getGroupingKey() {
|
||||||
|
return groupingKey;
|
||||||
|
}
|
||||||
|
|
||||||
|
public void setGroupingKey(String groupingKey) {
|
||||||
|
this.groupingKey = groupingKey;
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -1,64 +0,0 @@
|
||||||
|
|
||||||
package eu.dnetlib.dhp.oa.provision.model;
|
|
||||||
|
|
||||||
import java.io.Serializable;
|
|
||||||
|
|
||||||
import com.google.common.base.Objects;
|
|
||||||
|
|
||||||
public class TypedRow implements Serializable {
|
|
||||||
|
|
||||||
private String id;
|
|
||||||
|
|
||||||
private Boolean deleted;
|
|
||||||
|
|
||||||
private String type;
|
|
||||||
|
|
||||||
private String oaf;
|
|
||||||
|
|
||||||
public String getId() {
|
|
||||||
return id;
|
|
||||||
}
|
|
||||||
|
|
||||||
public void setId(String id) {
|
|
||||||
this.id = id;
|
|
||||||
}
|
|
||||||
|
|
||||||
public Boolean getDeleted() {
|
|
||||||
return deleted;
|
|
||||||
}
|
|
||||||
|
|
||||||
public void setDeleted(Boolean deleted) {
|
|
||||||
this.deleted = deleted;
|
|
||||||
}
|
|
||||||
|
|
||||||
public String getType() {
|
|
||||||
return type;
|
|
||||||
}
|
|
||||||
|
|
||||||
public void setType(String type) {
|
|
||||||
this.type = type;
|
|
||||||
}
|
|
||||||
|
|
||||||
public String getOaf() {
|
|
||||||
return oaf;
|
|
||||||
}
|
|
||||||
|
|
||||||
public void setOaf(String oaf) {
|
|
||||||
this.oaf = oaf;
|
|
||||||
}
|
|
||||||
|
|
||||||
@Override
|
|
||||||
public boolean equals(Object o) {
|
|
||||||
if (this == o)
|
|
||||||
return true;
|
|
||||||
if (o == null || getClass() != o.getClass())
|
|
||||||
return false;
|
|
||||||
TypedRow typedRow2 = (TypedRow) o;
|
|
||||||
return Objects.equal(id, typedRow2.id);
|
|
||||||
}
|
|
||||||
|
|
||||||
@Override
|
|
||||||
public int hashCode() {
|
|
||||||
return Objects.hashCode(id);
|
|
||||||
}
|
|
||||||
}
|
|
|
@ -4,12 +4,16 @@ package eu.dnetlib.dhp.oa.provision.utils;
|
||||||
import org.apache.spark.Partitioner;
|
import org.apache.spark.Partitioner;
|
||||||
import org.apache.spark.util.Utils;
|
import org.apache.spark.util.Utils;
|
||||||
|
|
||||||
|
import eu.dnetlib.dhp.oa.provision.model.SortableRelationKey;
|
||||||
|
|
||||||
/**
|
/**
|
||||||
* Used in combination with SortableRelationKey, allows to partition the records by source id, therefore allowing to
|
* Used in combination with SortableRelationKey, allows to partition the records by source id, therefore allowing to
|
||||||
* sort relations sharing the same source id by the ordering defined in SortableRelationKey.
|
* sort relations sharing the same source id by the ordering defined in SortableRelationKey.
|
||||||
*/
|
*/
|
||||||
public class RelationPartitioner extends Partitioner {
|
public class RelationPartitioner extends Partitioner {
|
||||||
|
|
||||||
|
private static final long serialVersionUID = 343434456L;
|
||||||
|
|
||||||
private final int numPartitions;
|
private final int numPartitions;
|
||||||
|
|
||||||
public RelationPartitioner(int numPartitions) {
|
public RelationPartitioner(int numPartitions) {
|
||||||
|
@ -23,8 +27,18 @@ public class RelationPartitioner extends Partitioner {
|
||||||
|
|
||||||
@Override
|
@Override
|
||||||
public int getPartition(Object key) {
|
public int getPartition(Object key) {
|
||||||
String partitionKey = (String) key;
|
SortableRelationKey partitionKey = (SortableRelationKey) key;
|
||||||
return Utils.nonNegativeMod(partitionKey.hashCode(), numPartitions());
|
return Utils.nonNegativeMod(partitionKey.getGroupingKey().hashCode(), numPartitions());
|
||||||
|
}
|
||||||
|
|
||||||
|
@Override
|
||||||
|
public boolean equals(Object obj) {
|
||||||
|
if (obj instanceof RelationPartitioner) {
|
||||||
|
RelationPartitioner p = (RelationPartitioner) obj;
|
||||||
|
if (p.numPartitions() == numPartitions())
|
||||||
|
return true;
|
||||||
|
}
|
||||||
|
return false;
|
||||||
}
|
}
|
||||||
|
|
||||||
}
|
}
|
||||||
|
|
|
@ -121,10 +121,6 @@ public class XmlRecordFactory implements Serializable {
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
private static OafEntity toOafEntity(TypedRow typedRow) {
|
|
||||||
return parseOaf(typedRow.getOaf(), typedRow.getType());
|
|
||||||
}
|
|
||||||
|
|
||||||
private static OafEntity parseOaf(final String json, final String type) {
|
private static OafEntity parseOaf(final String json, final String type) {
|
||||||
try {
|
try {
|
||||||
switch (EntityType.valueOf(type)) {
|
switch (EntityType.valueOf(type)) {
|
||||||
|
@ -276,7 +272,7 @@ public class XmlRecordFactory implements Serializable {
|
||||||
pidType,
|
pidType,
|
||||||
pidValue
|
pidValue
|
||||||
.toLowerCase()
|
.toLowerCase()
|
||||||
.replaceAll("orcid", "")));
|
.replaceAll("^.*orcid\\.org\\/", "")));
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
});
|
});
|
||||||
|
|
|
@ -133,6 +133,7 @@
|
||||||
</spark-opts>
|
</spark-opts>
|
||||||
<arg>--inputRelationsPath</arg><arg>${inputGraphRootPath}/relation</arg>
|
<arg>--inputRelationsPath</arg><arg>${inputGraphRootPath}/relation</arg>
|
||||||
<arg>--outputPath</arg><arg>${workingDir}/relation</arg>
|
<arg>--outputPath</arg><arg>${workingDir}/relation</arg>
|
||||||
|
<arg>--maxRelations</arg><arg>${maxRelations}</arg>
|
||||||
<arg>--relPartitions</arg><arg>5000</arg>
|
<arg>--relPartitions</arg><arg>5000</arg>
|
||||||
</spark>
|
</spark>
|
||||||
<ok to="fork_join_related_entities"/>
|
<ok to="fork_join_related_entities"/>
|
||||||
|
|
|
@ -0,0 +1,93 @@
|
||||||
|
|
||||||
|
package eu.dnetlib.dhp.oa.provision;
|
||||||
|
|
||||||
|
import com.fasterxml.jackson.databind.ObjectMapper;
|
||||||
|
import eu.dnetlib.dhp.oa.provision.model.ProvisionModelSupport;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
||||||
|
import org.apache.commons.io.FileUtils;
|
||||||
|
import org.apache.spark.SparkConf;
|
||||||
|
import org.apache.spark.api.java.function.FilterFunction;
|
||||||
|
import org.apache.spark.sql.Dataset;
|
||||||
|
import org.apache.spark.sql.Encoders;
|
||||||
|
import org.apache.spark.sql.Row;
|
||||||
|
import org.apache.spark.sql.SparkSession;
|
||||||
|
import org.junit.jupiter.api.AfterAll;
|
||||||
|
import org.junit.jupiter.api.Assertions;
|
||||||
|
import org.junit.jupiter.api.BeforeAll;
|
||||||
|
import org.junit.jupiter.api.Test;
|
||||||
|
import org.junit.jupiter.api.io.TempDir;
|
||||||
|
import org.slf4j.Logger;
|
||||||
|
import org.slf4j.LoggerFactory;
|
||||||
|
|
||||||
|
import java.io.IOException;
|
||||||
|
import java.nio.file.Files;
|
||||||
|
import java.nio.file.Path;
|
||||||
|
|
||||||
|
public class PrepareRelationsJobTest {
|
||||||
|
|
||||||
|
private static final Logger log = LoggerFactory.getLogger(PrepareRelationsJobTest.class);
|
||||||
|
|
||||||
|
public static final String SUBRELTYPE = "subRelType";
|
||||||
|
public static final String OUTCOME = "outcome";
|
||||||
|
public static final String SUPPLEMENT = "supplement";
|
||||||
|
|
||||||
|
private static SparkSession spark;
|
||||||
|
|
||||||
|
private static Path workingDir;
|
||||||
|
|
||||||
|
@BeforeAll
|
||||||
|
public static void setUp() throws IOException {
|
||||||
|
workingDir = Files.createTempDirectory(PrepareRelationsJobTest.class.getSimpleName());
|
||||||
|
log.info("using work dir {}", workingDir);
|
||||||
|
|
||||||
|
SparkConf conf = new SparkConf();
|
||||||
|
|
||||||
|
conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer");
|
||||||
|
conf.registerKryoClasses(ProvisionModelSupport.getModelClasses());
|
||||||
|
|
||||||
|
spark = SparkSession
|
||||||
|
.builder()
|
||||||
|
.appName(PrepareRelationsJobTest.class.getSimpleName())
|
||||||
|
.master("local[*]")
|
||||||
|
.config(conf)
|
||||||
|
.getOrCreate();
|
||||||
|
}
|
||||||
|
|
||||||
|
@AfterAll
|
||||||
|
public static void afterAll() throws IOException {
|
||||||
|
FileUtils.deleteDirectory(workingDir.toFile());
|
||||||
|
spark.stop();
|
||||||
|
}
|
||||||
|
|
||||||
|
@Test
|
||||||
|
public void testRunPrepareRelationsJob(@TempDir Path testPath) throws Exception {
|
||||||
|
|
||||||
|
final int maxRelations = 10;
|
||||||
|
PrepareRelationsJob
|
||||||
|
.main(
|
||||||
|
new String[] {
|
||||||
|
"-isSparkSessionManaged", Boolean.FALSE.toString(),
|
||||||
|
"-inputRelationsPath", getClass().getResource("relations.gz").getPath(),
|
||||||
|
"-outputPath", testPath.toString(),
|
||||||
|
"-relPartitions", "10",
|
||||||
|
"-relationFilter", "asd",
|
||||||
|
"-maxRelations", String.valueOf(maxRelations)
|
||||||
|
});
|
||||||
|
|
||||||
|
Dataset<Relation> out = spark.read()
|
||||||
|
.parquet(testPath.toString())
|
||||||
|
.as(Encoders.bean(Relation.class))
|
||||||
|
.cache();
|
||||||
|
|
||||||
|
Assertions.assertEquals(10, out.count());
|
||||||
|
|
||||||
|
Dataset<Row> freq = out.toDF().cube(SUBRELTYPE).count().filter((FilterFunction<Row>) value -> !value.isNullAt(0));
|
||||||
|
long outcome = freq.filter(freq.col(SUBRELTYPE).equalTo(OUTCOME)).collectAsList().get(0).getAs("count");
|
||||||
|
long supplement = freq.filter(freq.col(SUBRELTYPE).equalTo(SUPPLEMENT)).collectAsList().get(0).getAs("count");
|
||||||
|
|
||||||
|
Assertions.assertTrue(outcome > supplement);
|
||||||
|
Assertions.assertEquals(7, outcome);
|
||||||
|
Assertions.assertEquals(3, supplement);
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
|
@ -0,0 +1,42 @@
|
||||||
|
|
||||||
|
package eu.dnetlib.dhp.oa.provision;
|
||||||
|
|
||||||
|
import java.io.IOException;
|
||||||
|
import java.util.List;
|
||||||
|
|
||||||
|
import org.apache.commons.io.IOUtils;
|
||||||
|
import org.junit.jupiter.api.Test;
|
||||||
|
|
||||||
|
import com.fasterxml.jackson.core.JsonProcessingException;
|
||||||
|
import com.fasterxml.jackson.core.type.TypeReference;
|
||||||
|
import com.fasterxml.jackson.databind.ObjectMapper;
|
||||||
|
|
||||||
|
import eu.dnetlib.dhp.oa.provision.model.SortableRelationKey;
|
||||||
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
||||||
|
|
||||||
|
public class SortableRelationKeyTest {
|
||||||
|
|
||||||
|
@Test
|
||||||
|
public void doTesSorting() throws IOException {
|
||||||
|
final ObjectMapper mapper = new ObjectMapper();
|
||||||
|
final String json = IOUtils.toString(this.getClass().getResourceAsStream("relations.json"));
|
||||||
|
final List<Relation> relations = mapper.readValue(json, new TypeReference<List<Relation>>() {
|
||||||
|
});
|
||||||
|
|
||||||
|
relations
|
||||||
|
.stream()
|
||||||
|
.map(r -> SortableRelationKey.create(r, r.getSource()))
|
||||||
|
.sorted()
|
||||||
|
.forEach(
|
||||||
|
|
||||||
|
it -> {
|
||||||
|
try {
|
||||||
|
System.out.println(mapper.writeValueAsString(it));
|
||||||
|
} catch (JsonProcessingException e) {
|
||||||
|
e.printStackTrace();
|
||||||
|
}
|
||||||
|
});
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
Binary file not shown.
|
@ -0,0 +1,90 @@
|
||||||
|
[
|
||||||
|
{
|
||||||
|
"collectedfrom": [],
|
||||||
|
"dataInfo": {
|
||||||
|
"deletedbyinference": false,
|
||||||
|
"inferred": false,
|
||||||
|
"invisible": false,
|
||||||
|
"provenanceaction": {
|
||||||
|
"classid": "sysimport:crosswalk:entityregistry",
|
||||||
|
"classname": "Harvested",
|
||||||
|
"schemeid": "dnet:provenanceActions",
|
||||||
|
"schemename": "dnet:provenanceActions"
|
||||||
|
},
|
||||||
|
"trust": "0.9"
|
||||||
|
},
|
||||||
|
"lastupdatetimestamp": 1592688952862,
|
||||||
|
"properties": [],
|
||||||
|
"relClass": "hasAuthorInstitution",
|
||||||
|
"relType": "resultOrganization",
|
||||||
|
"source": "1",
|
||||||
|
"subRelType": "affiliation",
|
||||||
|
"target": "2"
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"collectedfrom": [],
|
||||||
|
"dataInfo": {
|
||||||
|
"deletedbyinference": false,
|
||||||
|
"inferred": false,
|
||||||
|
"invisible": false,
|
||||||
|
"provenanceaction": {
|
||||||
|
"classid": "sysimport:crosswalk:entityregistry",
|
||||||
|
"classname": "Harvested",
|
||||||
|
"schemeid": "dnet:provenanceActions",
|
||||||
|
"schemename": "dnet:provenanceActions"
|
||||||
|
},
|
||||||
|
"trust": "0.9"
|
||||||
|
},
|
||||||
|
"lastupdatetimestamp": 1592688952862,
|
||||||
|
"properties": [],
|
||||||
|
"relClass": "isAuthorInstitutionOf",
|
||||||
|
"relType": "resultOrganization",
|
||||||
|
"source": "2",
|
||||||
|
"subRelType": "affiliation",
|
||||||
|
"target": "1"
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"collectedfrom": [],
|
||||||
|
"dataInfo": {
|
||||||
|
"deletedbyinference": false,
|
||||||
|
"inferred": false,
|
||||||
|
"invisible": false,
|
||||||
|
"provenanceaction": {
|
||||||
|
"classid": "sysimport:crosswalk:entityregistry",
|
||||||
|
"classname": "Harvested",
|
||||||
|
"schemeid": "dnet:provenanceActions",
|
||||||
|
"schemename": "dnet:provenanceActions"
|
||||||
|
},
|
||||||
|
"trust": "0.9"
|
||||||
|
},
|
||||||
|
"lastupdatetimestamp": 1592688952862,
|
||||||
|
"properties": [],
|
||||||
|
"relClass": "isProducedBy",
|
||||||
|
"relType": "resultProject",
|
||||||
|
"source": "1",
|
||||||
|
"subRelType": "outcome",
|
||||||
|
"target": "2"
|
||||||
|
},
|
||||||
|
{
|
||||||
|
"collectedfrom": [],
|
||||||
|
"dataInfo": {
|
||||||
|
"deletedbyinference": false,
|
||||||
|
"inferred": false,
|
||||||
|
"invisible": false,
|
||||||
|
"provenanceaction": {
|
||||||
|
"classid": "sysimport:crosswalk:entityregistry",
|
||||||
|
"classname": "Harvested",
|
||||||
|
"schemeid": "dnet:provenanceActions",
|
||||||
|
"schemename": "dnet:provenanceActions"
|
||||||
|
},
|
||||||
|
"trust": "0.9"
|
||||||
|
},
|
||||||
|
"lastupdatetimestamp": 1592688952862,
|
||||||
|
"properties": [],
|
||||||
|
"relClass": "produces",
|
||||||
|
"relType": "resultProject",
|
||||||
|
"source": "2",
|
||||||
|
"subRelType": "outcome",
|
||||||
|
"target": "1"
|
||||||
|
}
|
||||||
|
]
|
|
@ -0,0 +1,11 @@
|
||||||
|
# Set root logger level to DEBUG and its only appender to A1.
|
||||||
|
log4j.rootLogger=INFO, A1
|
||||||
|
|
||||||
|
# A1 is set to be a ConsoleAppender.
|
||||||
|
log4j.appender.A1=org.apache.log4j.ConsoleAppender
|
||||||
|
|
||||||
|
# A1 uses PatternLayout.
|
||||||
|
log4j.logger.org = ERROR
|
||||||
|
log4j.logger.eu.dnetlib = DEBUG
|
||||||
|
log4j.appender.A1.layout=org.apache.log4j.PatternLayout
|
||||||
|
log4j.appender.A1.layout.ConversionPattern=%-4r [%t] %-5p %c %x - %m%n
|
Loading…
Reference in New Issue