forked from D-Net/dnet-hadoop
factored out entity grouping implementation, extended to consider results from delegated authorities rather than identical records from other sources
This commit is contained in:
parent
42e8f76778
commit
44a937f4ed
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@ -1,11 +1,11 @@
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package eu.dnetlib.dhp.oa.dedup;
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package eu.dnetlib.dhp.oa.merge;
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import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
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import java.util.Objects;
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import java.util.Optional;
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import com.fasterxml.jackson.databind.ObjectMapper;
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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import eu.dnetlib.dhp.common.HdfsSupport;
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import eu.dnetlib.dhp.schema.oaf.Oaf;
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import eu.dnetlib.dhp.schema.oaf.OafEntity;
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import org.apache.commons.io.IOUtils;
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import org.apache.commons.io.IOUtils;
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import org.apache.commons.lang3.StringUtils;
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import org.apache.commons.lang3.StringUtils;
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import org.apache.spark.SparkConf;
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import org.apache.spark.SparkConf;
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@ -17,12 +17,10 @@ import org.apache.spark.sql.SparkSession;
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import org.slf4j.Logger;
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import org.slf4j.Logger;
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import org.slf4j.LoggerFactory;
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import org.slf4j.LoggerFactory;
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import com.fasterxml.jackson.databind.ObjectMapper;
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import java.util.Objects;
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import java.util.Optional;
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
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import eu.dnetlib.dhp.common.HdfsSupport;
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import eu.dnetlib.dhp.schema.oaf.Oaf;
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import eu.dnetlib.dhp.schema.oaf.OafEntity;
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public class DispatchEntitiesSparkJob {
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public class DispatchEntitiesSparkJob {
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@ -38,7 +36,7 @@ public class DispatchEntitiesSparkJob {
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.requireNonNull(
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.requireNonNull(
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DispatchEntitiesSparkJob.class
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DispatchEntitiesSparkJob.class
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.getResourceAsStream(
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.getResourceAsStream(
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"/eu/dnetlib/dhp/oa/dedup/dispatch_entities_parameters.json")));
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"/eu/dnetlib/dhp/oa/graph/group/dispatch_entities_parameters.json")));
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final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
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final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
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parser.parseArgument(args);
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parser.parseArgument(args);
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@ -1,15 +1,17 @@
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package eu.dnetlib.dhp.oa.dedup;
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package eu.dnetlib.dhp.oa.merge;
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import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
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import static eu.dnetlib.dhp.utils.DHPUtils.toSeq;
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import java.io.IOException;
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import java.util.List;
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import java.util.Objects;
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import java.util.Optional;
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import java.util.stream.Collectors;
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import com.fasterxml.jackson.databind.DeserializationFeature;
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import com.fasterxml.jackson.databind.ObjectMapper;
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import com.jayway.jsonpath.Configuration;
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import com.jayway.jsonpath.DocumentContext;
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import com.jayway.jsonpath.JsonPath;
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import com.jayway.jsonpath.Option;
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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import eu.dnetlib.dhp.common.HdfsSupport;
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import eu.dnetlib.dhp.schema.common.ModelSupport;
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import eu.dnetlib.dhp.schema.oaf.*;
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import eu.dnetlib.dhp.schema.oaf.utils.OafMapperUtils;
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import org.apache.commons.io.IOUtils;
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import org.apache.commons.io.IOUtils;
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import org.apache.commons.lang3.StringUtils;
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import org.apache.commons.lang3.StringUtils;
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import org.apache.spark.SparkConf;
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import org.apache.spark.SparkConf;
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@ -20,21 +22,17 @@ import org.apache.spark.sql.*;
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import org.apache.spark.sql.expressions.Aggregator;
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import org.apache.spark.sql.expressions.Aggregator;
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import org.slf4j.Logger;
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import org.slf4j.Logger;
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import org.slf4j.LoggerFactory;
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import org.slf4j.LoggerFactory;
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import com.fasterxml.jackson.databind.DeserializationFeature;
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import com.fasterxml.jackson.databind.ObjectMapper;
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import com.jayway.jsonpath.Configuration;
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import com.jayway.jsonpath.DocumentContext;
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import com.jayway.jsonpath.JsonPath;
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import com.jayway.jsonpath.Option;
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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import eu.dnetlib.dhp.common.HdfsSupport;
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import eu.dnetlib.dhp.schema.common.ModelSupport;
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import eu.dnetlib.dhp.schema.oaf.*;
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import eu.dnetlib.dhp.schema.oaf.utils.OafMapperUtils;
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import scala.Tuple2;
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import scala.Tuple2;
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import java.io.IOException;
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import java.util.List;
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import java.util.Objects;
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import java.util.Optional;
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import java.util.stream.Collectors;
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import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
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import static eu.dnetlib.dhp.utils.DHPUtils.toSeq;
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/**
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/**
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* Groups the graph content by entity identifier to ensure ID uniqueness
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* Groups the graph content by entity identifier to ensure ID uniqueness
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*/
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*/
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@ -53,7 +51,7 @@ public class GroupEntitiesSparkJob {
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.toString(
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.toString(
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GroupEntitiesSparkJob.class
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GroupEntitiesSparkJob.class
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.getResourceAsStream(
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.getResourceAsStream(
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"/eu/dnetlib/dhp/oa/dedup/group_graph_entities_parameters.json"));
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"/eu/dnetlib/dhp/oa/graph/group/group_graph_entities_parameters.json"));
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final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
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final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
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parser.parseArgument(args);
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parser.parseArgument(args);
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@ -47,6 +47,17 @@ public class OafMapperUtils {
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}
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}
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public static Result mergeResults(Result left, Result right) {
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public static Result mergeResults(Result left, Result right) {
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final boolean leftFromDeletedAuthority = isFromDeletedAuthority(left);
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final boolean rightFromDeletedAuthority = isFromDeletedAuthority(right);
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if (leftFromDeletedAuthority && !rightFromDeletedAuthority) {
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return left;
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}
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if (!leftFromDeletedAuthority && rightFromDeletedAuthority) {
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return right;
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}
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if (new ResultTypeComparator().compare(left, right) < 0) {
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if (new ResultTypeComparator().compare(left, right) < 0) {
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left.mergeFrom(right);
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left.mergeFrom(right);
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return left;
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return left;
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}
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}
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}
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}
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private static boolean isFromDeletedAuthority(Result r) {
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return r.getInstance()
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.stream()
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.map(i -> i.getCollectedfrom().getKey())
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.anyMatch(cfId -> IdentifierFactory.delegatedAuthorityDatasourceIds().contains(cfId));
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}
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public static KeyValue keyValue(final String k, final String v) {
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public static KeyValue keyValue(final String k, final String v) {
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final KeyValue kv = new KeyValue();
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final KeyValue kv = new KeyValue();
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kv.setKey(k);
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kv.setKey(k);
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@ -104,7 +104,7 @@
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<master>yarn</master>
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<master>yarn</master>
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<mode>cluster</mode>
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<mode>cluster</mode>
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<name>group graph entities</name>
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<name>group graph entities</name>
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<class>eu.dnetlib.dhp.oa.dedup.GroupEntitiesSparkJob</class>
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<class>eu.dnetlib.dhp.oa.merge.GroupEntitiesSparkJob</class>
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<jar>dhp-dedup-openaire-${projectVersion}.jar</jar>
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<jar>dhp-dedup-openaire-${projectVersion}.jar</jar>
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<spark-opts>
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<spark-opts>
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--executor-cores=${sparkExecutorCores}
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--executor-cores=${sparkExecutorCores}
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@ -138,7 +138,7 @@
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<master>yarn</master>
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<master>yarn</master>
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<mode>cluster</mode>
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<mode>cluster</mode>
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<name>Dispatch publications</name>
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<name>Dispatch publications</name>
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<class>eu.dnetlib.dhp.oa.dedup.DispatchEntitiesSparkJob</class>
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<class>eu.dnetlib.dhp.oa.merge.DispatchEntitiesSparkJob</class>
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<jar>dhp-dedup-openaire-${projectVersion}.jar</jar>
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<jar>dhp-dedup-openaire-${projectVersion}.jar</jar>
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<spark-opts>
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<spark-opts>
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--executor-cores=${sparkExecutorCores}
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--executor-cores=${sparkExecutorCores}
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@ -163,7 +163,7 @@
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<master>yarn</master>
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<master>yarn</master>
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<mode>cluster</mode>
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<mode>cluster</mode>
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<name>Dispatch project</name>
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<name>Dispatch project</name>
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<class>eu.dnetlib.dhp.oa.dedup.DispatchEntitiesSparkJob</class>
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<class>eu.dnetlib.dhp.oa.merge.DispatchEntitiesSparkJob</class>
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<jar>dhp-dedup-openaire-${projectVersion}.jar</jar>
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<jar>dhp-dedup-openaire-${projectVersion}.jar</jar>
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<spark-opts>
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<spark-opts>
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--executor-cores=${sparkExecutorCores}
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--executor-cores=${sparkExecutorCores}
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<master>yarn</master>
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<master>yarn</master>
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<mode>cluster</mode>
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<mode>cluster</mode>
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<name>Dispatch organization</name>
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<name>Dispatch organization</name>
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<class>eu.dnetlib.dhp.oa.dedup.DispatchEntitiesSparkJob</class>
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<class>eu.dnetlib.dhp.oa.merge.DispatchEntitiesSparkJob</class>
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<jar>dhp-dedup-openaire-${projectVersion}.jar</jar>
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<jar>dhp-dedup-openaire-${projectVersion}.jar</jar>
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<spark-opts>
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<spark-opts>
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--executor-cores=${sparkExecutorCores}
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--executor-cores=${sparkExecutorCores}
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<master>yarn</master>
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<master>yarn</master>
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<mode>cluster</mode>
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<mode>cluster</mode>
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<name>Dispatch publication</name>
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<name>Dispatch publication</name>
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<class>eu.dnetlib.dhp.oa.dedup.DispatchEntitiesSparkJob</class>
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<class>eu.dnetlib.dhp.oa.merge.DispatchEntitiesSparkJob</class>
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<jar>dhp-dedup-openaire-${projectVersion}.jar</jar>
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<jar>dhp-dedup-openaire-${projectVersion}.jar</jar>
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<spark-opts>
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<spark-opts>
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--executor-cores=${sparkExecutorCores}
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--executor-cores=${sparkExecutorCores}
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<master>yarn</master>
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<master>yarn</master>
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<mode>cluster</mode>
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<mode>cluster</mode>
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<name>Dispatch dataset</name>
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<name>Dispatch dataset</name>
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<class>eu.dnetlib.dhp.oa.dedup.DispatchEntitiesSparkJob</class>
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<class>eu.dnetlib.dhp.oa.merge.DispatchEntitiesSparkJob</class>
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<jar>dhp-dedup-openaire-${projectVersion}.jar</jar>
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<jar>dhp-dedup-openaire-${projectVersion}.jar</jar>
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<spark-opts>
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<spark-opts>
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--executor-cores=${sparkExecutorCores}
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--executor-cores=${sparkExecutorCores}
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<master>yarn</master>
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<master>yarn</master>
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<mode>cluster</mode>
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<mode>cluster</mode>
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<name>Dispatch software</name>
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<name>Dispatch software</name>
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<class>eu.dnetlib.dhp.oa.dedup.DispatchEntitiesSparkJob</class>
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<class>eu.dnetlib.dhp.oa.merge.DispatchEntitiesSparkJob</class>
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<jar>dhp-dedup-openaire-${projectVersion}.jar</jar>
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<jar>dhp-dedup-openaire-${projectVersion}.jar</jar>
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<spark-opts>
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<spark-opts>
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--executor-cores=${sparkExecutorCores}
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--executor-cores=${sparkExecutorCores}
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<master>yarn</master>
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<master>yarn</master>
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<mode>cluster</mode>
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<mode>cluster</mode>
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<name>Dispatch otherresearchproduct</name>
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<name>Dispatch otherresearchproduct</name>
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<class>eu.dnetlib.dhp.oa.dedup.DispatchEntitiesSparkJob</class>
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<class>eu.dnetlib.dhp.oa.merge.DispatchEntitiesSparkJob</class>
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<jar>dhp-dedup-openaire-${projectVersion}.jar</jar>
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<jar>dhp-dedup-openaire-${projectVersion}.jar</jar>
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<spark-opts>
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<spark-opts>
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--executor-cores=${sparkExecutorCores}
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--executor-cores=${sparkExecutorCores}
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@ -0,0 +1,26 @@
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[
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{
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"paramName": "issm",
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"paramLongName": "isSparkSessionManaged",
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"paramDescription": "when true will stop SparkSession after job execution",
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"paramRequired": false
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},
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{
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"paramName": "i",
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"paramLongName": "inputPath",
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"paramDescription": "the source path",
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"paramRequired": true
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},
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{
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"paramName": "o",
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"paramLongName": "outputPath",
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"paramDescription": "path of the output graph",
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"paramRequired": true
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},
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{
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"paramName": "c",
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"paramLongName": "graphTableClassName",
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"paramDescription": "the graph entity class name",
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"paramRequired": true
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}
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]
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@ -0,0 +1,20 @@
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[
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{
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"paramName": "issm",
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"paramLongName": "isSparkSessionManaged",
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"paramDescription": "when true will stop SparkSession after job execution",
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"paramRequired": false
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},
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{
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"paramName": "gin",
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"paramLongName": "graphInputPath",
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"paramDescription": "the graph root path",
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"paramRequired": true
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},
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{
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"paramName": "out",
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"paramLongName": "outputPath",
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"paramDescription": "the output merged graph root path",
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"paramRequired": true
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}
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]
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@ -0,0 +1,18 @@
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<configuration>
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<property>
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<name>jobTracker</name>
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<value>yarnRM</value>
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</property>
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<property>
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<name>nameNode</name>
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<value>hdfs://nameservice1</value>
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</property>
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<property>
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<name>oozie.use.system.libpath</name>
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<value>true</value>
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</property>
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<property>
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<name>oozie.action.sharelib.for.spark</name>
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<value>spark2</value>
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</property>
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</configuration>
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@ -0,0 +1,289 @@
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<workflow-app name="Group Graph Entities" xmlns="uri:oozie:workflow:0.5">
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<parameters>
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<property>
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<name>graphBasePath</name>
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<description>the input graph base path</description>
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</property>
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<property>
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<name>workingPath</name>
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<description>path of the working directory</description>
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</property>
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<property>
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<name>graphOutputPath</name>
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<description>path of the output graph</description>
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</property>
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<property>
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<name>sparkDriverMemory</name>
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<description>memory for driver process</description>
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</property>
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<property>
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<name>sparkExecutorMemory</name>
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<description>memory for individual executor</description>
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</property>
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<property>
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<name>sparkExecutorCores</name>
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<description>number of cores used by single executor</description>
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</property>
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<property>
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<name>oozieActionShareLibForSpark2</name>
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<description>oozie action sharelib for spark 2.*</description>
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</property>
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<property>
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<name>spark2ExtraListeners</name>
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<value>com.cloudera.spark.lineage.NavigatorAppListener</value>
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<description>spark 2.* extra listeners classname</description>
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</property>
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<property>
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<name>spark2SqlQueryExecutionListeners</name>
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<value>com.cloudera.spark.lineage.NavigatorQueryListener</value>
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<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>${oozieActionShareLibForSpark2}</value>
|
||||||
|
</property>
|
||||||
|
</configuration>
|
||||||
|
</global>
|
||||||
|
|
||||||
|
<start to="group_entities"/>
|
||||||
|
|
||||||
|
<kill name="Kill">
|
||||||
|
<message>Action failed, error message[${wf:errorMessage(wf:lastErrorNode())}]</message>
|
||||||
|
</kill>
|
||||||
|
|
||||||
|
<action name="group_entities">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>group graph entities</name>
|
||||||
|
<class>eu.dnetlib.dhp.oa.merge.GroupEntitiesSparkJob</class>
|
||||||
|
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
|
||||||
|
<spark-opts>
|
||||||
|
--executor-cores=${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}${spark2EventLogDir}
|
||||||
|
--conf spark.sql.shuffle.partitions=15000
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--graphInputPath</arg><arg>${graphBasePath}</arg>
|
||||||
|
<arg>--outputPath</arg><arg>${workingPath}/grouped_entities</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="fork_dispatch_entities"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<fork name="fork_dispatch_entities">
|
||||||
|
<path start="dispatch_datasource"/>
|
||||||
|
<path start="dispatch_project"/>
|
||||||
|
<path start="dispatch_organization"/>
|
||||||
|
<path start="dispatch_publication"/>
|
||||||
|
<path start="dispatch_dataset"/>
|
||||||
|
<path start="dispatch_software"/>
|
||||||
|
<path start="dispatch_otherresearchproduct"/>
|
||||||
|
</fork>
|
||||||
|
|
||||||
|
<action name="dispatch_datasource">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>Dispatch publications</name>
|
||||||
|
<class>eu.dnetlib.dhp.oa.merge.DispatchEntitiesSparkJob</class>
|
||||||
|
<jar>dhp-graph-mapper-${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=7680
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--inputPath</arg><arg>${workingPath}/grouped_entities</arg>
|
||||||
|
<arg>--outputPath</arg><arg>${graphOutputPath}/datasource</arg>
|
||||||
|
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Datasource</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="wait_dispatch"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="dispatch_project">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>Dispatch project</name>
|
||||||
|
<class>eu.dnetlib.dhp.oa.merge.DispatchEntitiesSparkJob</class>
|
||||||
|
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
|
||||||
|
<spark-opts>
|
||||||
|
--executor-cores=${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}${spark2EventLogDir}
|
||||||
|
--conf spark.sql.shuffle.partitions=7680
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--inputPath</arg><arg>${workingPath}/grouped_entities</arg>
|
||||||
|
<arg>--outputPath</arg><arg>${graphOutputPath}/project</arg>
|
||||||
|
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Project</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="wait_dispatch"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="dispatch_organization">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>Dispatch organization</name>
|
||||||
|
<class>eu.dnetlib.dhp.oa.merge.DispatchEntitiesSparkJob</class>
|
||||||
|
<jar>dhp-graph-mapper-${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=7680
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--inputPath</arg><arg>${workingPath}/grouped_entities</arg>
|
||||||
|
<arg>--outputPath</arg><arg>${graphOutputPath}/organization</arg>
|
||||||
|
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Organization</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="wait_dispatch"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="dispatch_publication">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>Dispatch publication</name>
|
||||||
|
<class>eu.dnetlib.dhp.oa.merge.DispatchEntitiesSparkJob</class>
|
||||||
|
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
|
||||||
|
<spark-opts>
|
||||||
|
--executor-cores=${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}${spark2EventLogDir}
|
||||||
|
--conf spark.sql.shuffle.partitions=7680
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--inputPath</arg><arg>${workingPath}/grouped_entities</arg>
|
||||||
|
<arg>--outputPath</arg><arg>${graphOutputPath}/publication</arg>
|
||||||
|
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Publication</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="wait_dispatch"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="dispatch_dataset">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>Dispatch dataset</name>
|
||||||
|
<class>eu.dnetlib.dhp.oa.merge.DispatchEntitiesSparkJob</class>
|
||||||
|
<jar>dhp-graph-mapper-${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=7680
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--inputPath</arg><arg>${workingPath}/grouped_entities</arg>
|
||||||
|
<arg>--outputPath</arg><arg>${graphOutputPath}/dataset</arg>
|
||||||
|
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Dataset</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="wait_dispatch"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="dispatch_software">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>Dispatch software</name>
|
||||||
|
<class>eu.dnetlib.dhp.oa.merge.DispatchEntitiesSparkJob</class>
|
||||||
|
<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
|
||||||
|
<spark-opts>
|
||||||
|
--executor-cores=${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}${spark2EventLogDir}
|
||||||
|
--conf spark.sql.shuffle.partitions=7680
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--inputPath</arg><arg>${workingPath}/grouped_entities</arg>
|
||||||
|
<arg>--outputPath</arg><arg>${graphOutputPath}/software</arg>
|
||||||
|
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Software</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="wait_dispatch"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<action name="dispatch_otherresearchproduct">
|
||||||
|
<spark xmlns="uri:oozie:spark-action:0.2">
|
||||||
|
<master>yarn</master>
|
||||||
|
<mode>cluster</mode>
|
||||||
|
<name>Dispatch otherresearchproduct</name>
|
||||||
|
<class>eu.dnetlib.dhp.oa.merge.DispatchEntitiesSparkJob</class>
|
||||||
|
<jar>dhp-graph-mapper-${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=7680
|
||||||
|
</spark-opts>
|
||||||
|
<arg>--inputPath</arg><arg>${workingPath}/grouped_entities</arg>
|
||||||
|
<arg>--outputPath</arg><arg>${graphOutputPath}/otherresearchproduct</arg>
|
||||||
|
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.OtherResearchProduct</arg>
|
||||||
|
</spark>
|
||||||
|
<ok to="wait_dispatch"/>
|
||||||
|
<error to="Kill"/>
|
||||||
|
</action>
|
||||||
|
|
||||||
|
<join name="wait_dispatch" to="End"/>
|
||||||
|
|
||||||
|
<end name="End"/>
|
||||||
|
</workflow-app>
|
2
pom.xml
2
pom.xml
|
@ -797,7 +797,7 @@
|
||||||
<mockito-core.version>3.3.3</mockito-core.version>
|
<mockito-core.version>3.3.3</mockito-core.version>
|
||||||
<mongodb.driver.version>3.4.2</mongodb.driver.version>
|
<mongodb.driver.version>3.4.2</mongodb.driver.version>
|
||||||
<vtd.version>[2.12,3.0)</vtd.version>
|
<vtd.version>[2.12,3.0)</vtd.version>
|
||||||
<dhp-schemas.version>[2.10.24]</dhp-schemas.version>
|
<dhp-schemas.version>[2.10.26-SNAPSHOT]</dhp-schemas.version>
|
||||||
<dnet-actionmanager-api.version>[4.0.3]</dnet-actionmanager-api.version>
|
<dnet-actionmanager-api.version>[4.0.3]</dnet-actionmanager-api.version>
|
||||||
<dnet-actionmanager-common.version>[6.0.5]</dnet-actionmanager-common.version>
|
<dnet-actionmanager-common.version>[6.0.5]</dnet-actionmanager-common.version>
|
||||||
<dnet-openaire-broker-common.version>[3.1.6]</dnet-openaire-broker-common.version>
|
<dnet-openaire-broker-common.version>[3.1.6]</dnet-openaire-broker-common.version>
|
||||||
|
|
Loading…
Reference in New Issue