first implementation of the BETA & PROD graphs merge procedure
This commit is contained in:
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package eu.dnetlib.dhp.oa.graph.merge;
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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.oa.graph.clean.CleanGraphSparkJob;
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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 org.apache.commons.io.IOUtils;
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import org.apache.spark.SparkConf;
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import org.apache.spark.api.java.function.FilterFunction;
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import org.apache.spark.api.java.function.MapFunction;
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import org.apache.spark.sql.Dataset;
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import org.apache.spark.sql.Encoders;
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import org.apache.spark.sql.SaveMode;
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import org.apache.spark.sql.SparkSession;
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import org.slf4j.Logger;
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import org.slf4j.LoggerFactory;
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import scala.Tuple2;
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import java.util.Objects;
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import java.util.Optional;
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import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
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/**
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* Combines the content from two aggregator graph tables of the same type, entities (or relationships) with the same ids
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* are picked preferring those from the BETA aggregator rather then from PROD. The identity of a relationship is defined
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* by eu.dnetlib.dhp.schema.common.ModelSupport#idFn()
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*/
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public class MergeGraphSparkJob {
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private static final Logger log = LoggerFactory.getLogger(CleanGraphSparkJob.class);
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private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
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public static void main(String[] args) throws Exception {
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String jsonConfiguration = IOUtils
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.toString(
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CleanGraphSparkJob.class
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.getResourceAsStream(
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"/eu/dnetlib/dhp/oa/graph/merge_graphs_parameters.json"));
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final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
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parser.parseArgument(args);
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Boolean isSparkSessionManaged = Optional
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.ofNullable(parser.get("isSparkSessionManaged"))
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.map(Boolean::valueOf)
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.orElse(Boolean.TRUE);
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log.info("isSparkSessionManaged: {}", isSparkSessionManaged);
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String betaInputPath = parser.get("betaInputPath");
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log.info("betaInputPath: {}", betaInputPath);
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String prodInputPath = parser.get("prodInputPath");
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log.info("prodInputPath: {}", prodInputPath);
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String outputPath = parser.get("outputPath");
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log.info("outputPath: {}", outputPath);
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String graphTableClassName = parser.get("graphTableClassName");
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log.info("graphTableClassName: {}", graphTableClassName);
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Class<? extends OafEntity> entityClazz = (Class<? extends OafEntity>) Class.forName(graphTableClassName);
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SparkConf conf = new SparkConf();
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conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer");
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conf.registerKryoClasses(ModelSupport.getOafModelClasses());
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runWithSparkSession(
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conf,
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isSparkSessionManaged,
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spark -> {
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removeOutputDir(spark, outputPath);
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mergeGraphTable(spark, betaInputPath, prodInputPath, entityClazz, entityClazz, outputPath);
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});
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}
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private static <P extends Oaf, B extends Oaf> void mergeGraphTable(
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SparkSession spark,
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String betaInputPath,
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String prodInputPath,
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Class<P> p_clazz,
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Class<B> b_clazz,
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String outputPath) {
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Dataset<Tuple2<String, B>> beta = readTableFromPath(spark, betaInputPath, b_clazz);
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Dataset<Tuple2<String, P>> prod = readTableFromPath(spark, prodInputPath, p_clazz);
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prod.joinWith(beta, prod.col("_1").equalTo(beta.col("_1")), "full_outer")
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.map((MapFunction<Tuple2<Tuple2<String, P>, Tuple2<String, B>>, P>) value -> {
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Optional<P> p = Optional.ofNullable(value._1()).map(Tuple2::_2);
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Optional<B> b = Optional.ofNullable(value._2()).map(Tuple2::_2);
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if (p.isPresent() & !b.isPresent()) {
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return p.get();
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}
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if (b.isPresent()) {
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return (P) b.get();
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}
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return null;
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}, Encoders.bean(p_clazz))
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.filter((FilterFunction<P>) Objects::nonNull)
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.write()
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.mode(SaveMode.Overwrite)
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.option("compression", "gzip")
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.json(outputPath);
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}
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private static <T extends Oaf> Dataset<Tuple2<String, T>> readTableFromPath(
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SparkSession spark, String inputEntityPath, Class<T> clazz) {
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log.info("Reading Graph table from: {}", inputEntityPath);
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return spark
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.read()
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.textFile(inputEntityPath)
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.map(
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(MapFunction<String, Tuple2<String, T>>) value -> {
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final T t = OBJECT_MAPPER.readValue(value, clazz);
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final String id = ModelSupport.idFn().apply(t);
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return new Tuple2<>(id, t);
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},
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Encoders.tuple(Encoders.STRING(), Encoders.kryo(clazz)));
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}
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private static void removeOutputDir(SparkSession spark, String path) {
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HdfsSupport.remove(path, spark.sparkContext().hadoopConfiguration());
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}
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}
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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 +1,282 @@
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<workflow-app name="merge graphs" xmlns="uri:oozie:workflow:0.5">
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<parameters>
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<property>
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<name>betaInputGgraphPath</name>
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<description>the beta graph root path</description>
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</property>
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<property>
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<name>prodInputGgraphPath</name>
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<description>the production graph root path</description>
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</property>
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<property>
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<name>graphOutputPath</name>
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<description>the output merged graph root path</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>
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</property>
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<property>
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<name>spark2YarnHistoryServerAddress</name>
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<description>spark 2.* yarn history server address</description>
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</property>
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<property>
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<name>spark2EventLogDir</name>
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<description>spark 2.* event log dir location</description>
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</property>
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</parameters>
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<start to="fork_merge_graph"/>
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<kill name="Kill">
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<message>Action failed, error message[${wf:errorMessage(wf:lastErrorNode())}]</message>
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</kill>
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<fork name="fork_merge_graph">
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<path start="merge_publication"/>
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<path start="merge_dataset"/>
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<path start="merge_otherresearchproduct"/>
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<path start="merge_software"/>
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<path start="merge_datasource"/>
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<path start="merge_organization"/>
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<path start="merge_project"/>
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<path start="merge_relation"/>
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</fork>
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<action name="merge_publication">
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<spark xmlns="uri:oozie:spark-action:0.2">
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<master>yarn</master>
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<mode>cluster</mode>
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<name>Merge publications</name>
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<class>eu.dnetlib.dhp.oa.graph.merge.MergeGraphSparkJob</class>
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<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
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<spark-opts>
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--executor-cores=${sparkExecutorCores}
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--executor-memory=${sparkExecutorMemory}
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--driver-memory=${sparkDriverMemory}
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--conf spark.extraListeners=${spark2ExtraListeners}
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--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
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--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
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--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
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--conf spark.sql.shuffle.partitions=7680
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</spark-opts>
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<arg>--betaInputPath</arg><arg>${betaInputGgraphPath}/publication</arg>
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<arg>--prodInputPath</arg><arg>${prodInputGgraphPath}/publication</arg>
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<arg>--outputPath</arg><arg>${graphOutputPath}/publication</arg>
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<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Publication</arg>
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</spark>
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<ok to="wait_merge"/>
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<error to="Kill"/>
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</action>
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<action name="merge_dataset">
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<spark xmlns="uri:oozie:spark-action:0.2">
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<master>yarn</master>
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<mode>cluster</mode>
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<name>Merge datasets</name>
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<class>eu.dnetlib.dhp.oa.graph.merge.MergeGraphSparkJob</class>
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<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
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<spark-opts>
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--executor-cores=${sparkExecutorCores}
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--executor-memory=${sparkExecutorMemory}
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--driver-memory=${sparkDriverMemory}
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--conf spark.extraListeners=${spark2ExtraListeners}
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--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
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--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
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--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
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--conf spark.sql.shuffle.partitions=7680
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</spark-opts>
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<arg>--betaInputPath</arg><arg>${betaInputGgraphPath}/dataset</arg>
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<arg>--prodInputPath</arg><arg>${prodInputGgraphPath}/dataset</arg>
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<arg>--outputPath</arg><arg>${graphOutputPath}/dataset</arg>
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<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Dataset</arg>
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</spark>
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<ok to="wait_merge"/>
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<error to="Kill"/>
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</action>
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<action name="merge_otherresearchproduct">
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<spark xmlns="uri:oozie:spark-action:0.2">
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<master>yarn</master>
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<mode>cluster</mode>
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<name>Merge otherresearchproducts</name>
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<class>eu.dnetlib.dhp.oa.graph.merge.MergeGraphSparkJob</class>
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<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
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<spark-opts>
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--executor-cores=${sparkExecutorCores}
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--executor-memory=${sparkExecutorMemory}
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--driver-memory=${sparkDriverMemory}
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--conf spark.extraListeners=${spark2ExtraListeners}
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--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
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--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
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--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
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--conf spark.sql.shuffle.partitions=7680
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</spark-opts>
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<arg>--betaInputPath</arg><arg>${betaInputGgraphPath}/otherresearchproduct</arg>
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<arg>--prodInputPath</arg><arg>${prodInputGgraphPath}/otherresearchproduct</arg>
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<arg>--outputPath</arg><arg>${graphOutputPath}/otherresearchproduct</arg>
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<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.OtherResearchProduct</arg>
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</spark>
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<ok to="wait_merge"/>
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<error to="Kill"/>
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</action>
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<action name="merge_software">
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<spark xmlns="uri:oozie:spark-action:0.2">
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<master>yarn</master>
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<mode>cluster</mode>
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<name>Merge softwares</name>
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<class>eu.dnetlib.dhp.oa.graph.merge.MergeGraphSparkJob</class>
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<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
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<spark-opts>
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--executor-cores=${sparkExecutorCores}
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--executor-memory=${sparkExecutorMemory}
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--driver-memory=${sparkDriverMemory}
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--conf spark.extraListeners=${spark2ExtraListeners}
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--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
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--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
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--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
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--conf spark.sql.shuffle.partitions=7680
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</spark-opts>
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<arg>--betaInputPath</arg><arg>${betaInputGgraphPath}/software</arg>
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<arg>--prodInputPath</arg><arg>${prodInputGgraphPath}/software</arg>
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<arg>--outputPath</arg><arg>${graphOutputPath}/software</arg>
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<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Software</arg>
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</spark>
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<ok to="wait_merge"/>
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<error to="Kill"/>
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</action>
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<action name="merge_datasource">
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<spark xmlns="uri:oozie:spark-action:0.2">
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<master>yarn</master>
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<mode>cluster</mode>
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<name>Merge datasources</name>
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<class>eu.dnetlib.dhp.oa.graph.merge.MergeGraphSparkJob</class>
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<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
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<spark-opts>
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--executor-cores=${sparkExecutorCores}
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--executor-memory=${sparkExecutorMemory}
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--driver-memory=${sparkDriverMemory}
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--conf spark.extraListeners=${spark2ExtraListeners}
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--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
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--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
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--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
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--conf spark.sql.shuffle.partitions=7680
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</spark-opts>
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<arg>--betaInputPath</arg><arg>${betaInputGgraphPath}/datasource</arg>
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<arg>--prodInputPath</arg><arg>${prodInputGgraphPath}/datasource</arg>
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<arg>--outputPath</arg><arg>${graphOutputPath}/datasource</arg>
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<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Datasource</arg>
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</spark>
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<ok to="wait_merge"/>
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<error to="Kill"/>
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</action>
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<action name="merge_organization">
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<spark xmlns="uri:oozie:spark-action:0.2">
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<master>yarn</master>
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<mode>cluster</mode>
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<name>Merge organizations</name>
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<class>eu.dnetlib.dhp.oa.graph.merge.MergeGraphSparkJob</class>
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<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
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<spark-opts>
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--executor-cores=${sparkExecutorCores}
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--executor-memory=${sparkExecutorMemory}
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--driver-memory=${sparkDriverMemory}
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--conf spark.extraListeners=${spark2ExtraListeners}
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--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
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--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
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--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
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--conf spark.sql.shuffle.partitions=7680
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</spark-opts>
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<arg>--betaInputPath</arg><arg>${betaInputGgraphPath}/organization</arg>
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<arg>--prodInputPath</arg><arg>${prodInputGgraphPath}/organization</arg>
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<arg>--outputPath</arg><arg>${graphOutputPath}/organization</arg>
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<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Organization</arg>
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</spark>
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<ok to="wait_merge"/>
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<error to="Kill"/>
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</action>
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<action name="merge_project">
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<spark xmlns="uri:oozie:spark-action:0.2">
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<master>yarn</master>
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<mode>cluster</mode>
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<name>Merge projects</name>
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<class>eu.dnetlib.dhp.oa.graph.merge.MergeGraphSparkJob</class>
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<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
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<spark-opts>
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--executor-cores=${sparkExecutorCores}
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--executor-memory=${sparkExecutorMemory}
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--driver-memory=${sparkDriverMemory}
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--conf spark.extraListeners=${spark2ExtraListeners}
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--conf spark.sql.queryExecutionListeners=${spark2SqlQueryExecutionListeners}
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--conf spark.yarn.historyServer.address=${spark2YarnHistoryServerAddress}
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--conf spark.eventLog.dir=${nameNode}${spark2EventLogDir}
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--conf spark.sql.shuffle.partitions=7680
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</spark-opts>
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<arg>--betaInputPath</arg><arg>${betaInputGgraphPath}/project</arg>
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<arg>--prodInputPath</arg><arg>${prodInputGgraphPath}/project</arg>
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<arg>--outputPath</arg><arg>${graphOutputPath}/project</arg>
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<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Project</arg>
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</spark>
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<ok to="wait_merge"/>
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<error to="Kill"/>
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</action>
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<action name="merge_relation">
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<spark xmlns="uri:oozie:spark-action:0.2">
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<master>yarn</master>
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<mode>cluster</mode>
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<name>Merge relations</name>
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<class>eu.dnetlib.dhp.oa.graph.merge.MergeGraphSparkJob</class>
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<jar>dhp-graph-mapper-${projectVersion}.jar</jar>
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<spark-opts>
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--executor-cores=${sparkExecutorCores}
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--executor-memory=${sparkExecutorMemory}
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--driver-memory=${sparkDriverMemory}
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--conf spark.extraListeners=${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>--betaInputPath</arg><arg>${betaInputGgraphPath}/relation</arg>
|
||||
<arg>--prodInputPath</arg><arg>${prodInputGgraphPath}/relation</arg>
|
||||
<arg>--outputPath</arg><arg>${graphOutputPath}/relation</arg>
|
||||
<arg>--graphTableClassName</arg><arg>eu.dnetlib.dhp.schema.oaf.Relation</arg>
|
||||
</spark>
|
||||
<ok to="wait_merge"/>
|
||||
<error to="Kill"/>
|
||||
</action>
|
||||
|
||||
<join name="wait_merge" to="End"/>
|
||||
|
||||
<end name="End"/>
|
||||
</workflow-app>
|
||||
|
|
@ -0,0 +1,32 @@
|
|||
[
|
||||
{
|
||||
"paramName": "issm",
|
||||
"paramLongName": "isSparkSessionManaged",
|
||||
"paramDescription": "when true will stop SparkSession after job execution",
|
||||
"paramRequired": false
|
||||
},
|
||||
{
|
||||
"paramName": "bin",
|
||||
"paramLongName": "betaInputPath",
|
||||
"paramDescription": "the beta graph root path",
|
||||
"paramRequired": true
|
||||
},
|
||||
{
|
||||
"paramName": "pin",
|
||||
"paramLongName": "prodInputPath",
|
||||
"paramDescription": "the production graph root path",
|
||||
"paramRequired": true
|
||||
},
|
||||
{
|
||||
"paramName": "out",
|
||||
"paramLongName": "outputPath",
|
||||
"paramDescription": "the output merged graph root path",
|
||||
"paramRequired": true
|
||||
},
|
||||
{
|
||||
"paramName": "class",
|
||||
"paramLongName": "graphTableClassName",
|
||||
"paramDescription": "class name moelling the graph table",
|
||||
"paramRequired": true
|
||||
}
|
||||
]
|
||||
|
|
@ -0,0 +1,779 @@
|
|||
<RESOURCE_PROFILE>
|
||||
<HEADER>
|
||||
<RESOURCE_IDENTIFIER value="b05c97e6-69b5-497d-87fd-2137d3ff2c2e_V29ya2Zsb3dEU1Jlc291cmNlcy9Xb3JrZmxvd0RTUmVzb3VyY2VUeXBl"/>
|
||||
<RESOURCE_TYPE value="WorkflowDSResourceType"/>
|
||||
<RESOURCE_KIND value="WorkflowDSResources"/>
|
||||
<RESOURCE_URI value=""/>
|
||||
<DATE_OF_CREATION value="2020-06-15T16:35:09+00:00"/>
|
||||
</HEADER>
|
||||
<BODY>
|
||||
<WORKFLOW_NAME>Graph Construction [HYBRID]</WORKFLOW_NAME>
|
||||
<WORKFLOW_TYPE>Data Provision</WORKFLOW_TYPE>
|
||||
<WORKFLOW_PRIORITY>30</WORKFLOW_PRIORITY>
|
||||
<CONFIGURATION start="manual">
|
||||
|
||||
<NODE isStart="true" name="reuseProdContent" type="SetEnvParameter">
|
||||
<DESCRIPTION>reuse cached content from the PROD aggregation system</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">reuseProdContent</PARAM>
|
||||
<PARAM function="validValues(['true', 'false'])" managedBy="user" name="parameterValue" required="true" type="string">true</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="contentPathProd"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="contentPathProd" type="SetEnvParameter">
|
||||
<DESCRIPTION>set the PROD aggregator content path</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">prodContentPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/core_aggregator</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="prodAggregatorGraphPath"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="prodAggregatorGraphPath" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the path containing the PROD AGGREGATOR graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">prodAggregatorGraphPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/core_provision/graph/00_prod_graph_aggregator</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="reuseBetaContent" type="SetEnvParameter">
|
||||
<DESCRIPTION>reuse cached content from the BETA aggregation system</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">reuseBetaContent</PARAM>
|
||||
<PARAM function="validValues(['true', 'false'])" managedBy="user" name="parameterValue" required="true" type="string">true</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="contentPathBeta"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="contentPathBeta" type="SetEnvParameter">
|
||||
<DESCRIPTION>set the BETA aggregator content path</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">betaContentPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/beta_aggregator</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="betaAggregatorGraphPath"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="betaAggregatorGraphPath" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the path containing the BETA AGGREGATOR graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">betaAggregatorGraphPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/core_provision/graph/00_beta_graph_aggregator</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="setIsLookUpUrl"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="setIsLookUpUrl" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the IS lookup service address</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">isLookUpUrl</PARAM>
|
||||
<PARAM managedBy="system" name="parameterValue" required="true" type="string">http://services.openaire.eu:8280/is/services/isLookUp?wsdl</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="setMergedGraphPath" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the target path to store the MERGED graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">mergedGraphPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/core_provision/graph/01_graph_merged</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="setRawGraphPath" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the target path to store the RAW graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">rawGraphPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/core_provision/graph/02_graph_raw</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="setDedupGraphPath" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the target path to store the DEDUPED graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">dedupGraphPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/core_provision/graph/03_graph_dedup</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="setInferredGraphPath" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the target path to store the INFERRED graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">inferredGraphPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/core_provision/graph/04_graph_inferred</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="setConsistentGraphPath" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the target path to store the CONSISTENCY graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">consistentGraphPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/core_provision/graph/05_graph_consistent</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="setOrcidGraphPath" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the target path to store the ORCID enriched graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">orcidGraphPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/core_provision/graph/06_graph_orcid</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="setBulkTaggingGraphPath" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the target path to store the BULK TAGGED graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">bulkTaggingGraphPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/core_provision/graph/07_graph_bulktagging</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="setAffiliationGraphPath" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the target path to store the AFFILIATION from INSTITUTIONAL REPOS graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">affiliationGraphPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/core_provision/graph/08_graph_affiliation</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="setCommunityOrganizationGraphPath" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the target path to store the COMMUNITY from SELECTED SOURCES graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">communityOrganizationGraphPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/core_provision/graph/09_graph_comunity_organization</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="setFundingGraphPath" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the target path to store the FUNDING from SEMANTIC RELATION graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">fundingGraphPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/core_provision/graph/10_graph_funding</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="setCommunitySemRelGraphPath" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the target path to store the COMMUNITY from SEMANTIC RELATION graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">communitySemRelGraphPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/core_provision/graph/11_graph_comunity_sem_rel</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="setCountryGraphPath" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the target path to store the COUNTRY enriched graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">countryGraphPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/core_provision/graph/12_graph_country</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="setCleanedGraphPath" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the target path to store the CLEANED graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">cleanedGraphPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/core_provision/graph/13_graph_cleaned</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="setBlacklistedGraphPath" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the target path to store the blacklisted graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">blacklistedGraphPath</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">/tmp/core_provision/graph/14_graph_blacklisted</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="setBulkTaggingPathMap" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the map of paths for the Bulk Tagging</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">bulkTaggingPathMap</PARAM>
|
||||
<PARAM managedBy="system" name="parameterValue" required="true" type="string">{"author" : "$['author'][*]['fullname']", "title" : "$['title'][*]['value']", "orcid" : "$['author'][*]['pid'][*][?(@['key']=='ORCID')]['value']", "contributor" : "$['contributor'][*]['value']", "description" : "$['description'][*]['value']"}</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="setPropagationOrganizationCommunityMap" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the map of associations organization, community list for the propagation of community to result through organization</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">propagationOrganizationCommunityMap</PARAM>
|
||||
<PARAM managedBy="system" name="parameterValue" required="true" type="string">{"20|corda__h2020::3fb05a9524c3f790391261347852f638":["mes","euromarine"], "20|corda__h2020::e8dbe14cca9bf6fce09d468872f813f8":["mes","euromarine"], "20|snsf________::9b253f265e3bef5cae6d881fdf61aceb":["mes","euromarine"],"20|rcuk________::e054eea0a47665af8c3656b5785ccf76":["mes","euromarine"],"20|corda__h2020::edc18d67c9b11fb616ca9f6e1db1b151":["mes","euromarine"],"20|rcuk________::d5736d9da90521ddcdc7828a05a85e9a":["mes","euromarine"],"20|corda__h2020::f5d418d3aa1cf817ddefcc3fdc039f27":["mes","euromarine"],"20|snsf________::8fa091f8f25a846779acb4ea97b50aef":["mes","euromarine"],"20|corda__h2020::81e020977211c2c40fae2e1a50bffd71":["mes","euromarine"],"20|corda_______::81e020977211c2c40fae2e1a50bffd71":["mes","euromarine"],"20|snsf________::31d0a100e54e3cdb3c6f52d91e638c78":["mes","euromarine"],"20|corda__h2020::ea379ef91b8cc86f9ac5edc4169292db":["mes","euromarine"],"20|corda__h2020::f75ee2ee48e5cb0ec8c8d30aaa8fef70":["mes","euromarine"],"20|rcuk________::e16010089551a1a9182a94604fc0ea59":["mes","euromarine"],"20|corda__h2020::38531a2cce7c5c347ffc439b07c1f43b":["mes","euromarine"],"20|corda_______::38531a2cce7c5c347ffc439b07c1f43b":["mes","euromarine"],"20|grid________::b2cbbf5eadbbf87d534b022bad3191d7":["mes","euromarine"],"20|snsf________::74730ef1439d7f7636a8be58a6b471b8":["mes","euromarine"],"20|nsf_________::ad72e19043a5a467e35f9b444d11563e":["mes","euromarine"],"20|rcuk________::0fc3e92500290902a2d38ec2445e74c3":["mes","euromarine"],"20|grid________::ad2c29905da0eb3c06b3fa80cacd89ea":["mes","euromarine"],"20|corda__h2020::30b53e4d63d3724f00acb9cbaca40860":["mes","euromarine"],"20|corda__h2020::f60f84bee14ad93f0db0e49af1d5c317":["mes","euromarine"], "20|corda__h2020::7bf251ac3765b5e89d82270a1763d09f":["mes","euromarine"], "20|corda__h2020::65531bd11be9935948c7f2f4db1c1832":["mes","euromarine"], "20|corda__h2020::e0e98f86bbc76638bbb72a8fe2302946":["mes","euromarine"], "20|snsf________::3eb43582ac27601459a8d8b3e195724b":["mes","euromarine"], "20|corda__h2020::af2481dab65d06c8ea0ae02b5517b9b6":["mes","euromarine"], "20|corda__h2020::c19d05cfde69a50d3ebc89bd0ee49929":["mes","euromarine"], "20|corda__h2020::af0bfd9fc09f80d9488f56d71a9832f0":["mes","euromarine"], "20|rcuk________::f33c02afb0dc66c49d0ed97ca5dd5cb0":["beopen"],
|
||||
"20|grid________::a867f78acdc5041b34acfe4f9a349157":["beopen"], "20|grid________::7bb116a1a9f95ab812bf9d2dea2be1ff":["beopen"], "20|corda__h2020::6ab0e0739dbe625b99a2ae45842164ad":["beopen"], "20|corda__h2020::8ba50792bc5f4d51d79fca47d860c602":["beopen"], "20|corda_______::8ba50792bc5f4d51d79fca47d860c602":["beopen"], "20|corda__h2020::e70e9114979e963eef24666657b807c3":["beopen"], "20|corda_______::e70e9114979e963eef24666657b807c3":["beopen"], "20|corda_______::15911e01e9744d57205825d77c218737":["beopen"], "20|opendoar____::056a41e24e2a9a67215e87bbee6a80ab":["beopen"], "20|opendoar____::7f67f2e6c6fbb0628f8160fcd3d92ae3":["beopen"], "20|grid________::a8ecfd7c084e561168bcbe6bf0daf3e3":["beopen"], "20|corda_______::7bbe6cc5d8ec1864739a04b0d020c9e9":["beopen"], "20|corda_______::3ff558e30c2e434d688539548300b050":["beopen"], "20|corda__h2020::5ffee5b3b83b33a8cf0e046877bd3a39":["beopen"], "20|corda__h2020::5187217e2e806a6df3579c46f82401bc":["beopen"], "20|grid________::5fa7e2709bcd945e26bfa18689adeec1":["beopen"], "20|corda_______::d8696683c53027438031a96ad27c3c07":["beopen"], "20|corda__h2020::d8696683c53027438031a96ad27c3c07":["beopen"], "20|rcuk________::23a79ebdfa59790864e4a485881568c1":["beopen"], "20|corda__h2020::b76cf8fe49590a966953c37e18608af9":["beopen"], "20|grid________::d2f0204126ee709244a488a4cd3b91c2":["beopen"], "20|corda__h2020::05aba9d2ed17533d15221e5655ac11e6":["beopen"], "20|grid________::802401579481dc32062bdee69f5e6a34":["beopen"], "20|corda__h2020::3f6d9d54cac975a517ba6b252c81582d":["beopen"]}
|
||||
</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="setDedupConfig" type="SetEnvParameter">
|
||||
<DESCRIPTION>Set the dedup orchestrator name</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">dedupConfig</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">decisiontree-dedup-test</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="actionSetsRaw" type="SetEnvParameter">
|
||||
<DESCRIPTION>declares the ActionSet ids to promote in the RAW graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">actionSetIdsRawGraph</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">scholexplorer-dump,gridac-dump,doiboost-organizations,doiboost,orcidworks-no-doi,iis-wos-entities,iis-entities-software,iis-entities-patent</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isStart="true" name="actionSetsIIS" type="SetEnvParameter">
|
||||
<DESCRIPTION>declares the ActionSet ids to promote in the INFERRED graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="parameterName" required="true" type="string">actionSetIdsIISGraph</PARAM>
|
||||
<PARAM managedBy="user" name="parameterValue" required="true" type="string">iis-researchinitiative,iis-document-citations,iis-document-affiliation,iis-document-classes,iis-document-similarities,iis-referenced-datasets-main,iis-referenced-datasets-preprocessing,iis-referenced-projects-main,iis-referenced-projects-preprocessing,iis-referenceextraction-pdb,document_software_url,iis-extracted-metadata,iis-communities,iis-referenced-patents,iis-covid-19</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitConfig"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isJoin="true" name="waitConfig">
|
||||
<DESCRIPTION>wait configurations</DESCRIPTION>
|
||||
<PARAMETERS/>
|
||||
<ARCS>
|
||||
<ARC to="betaAggregatorGraph"/>
|
||||
<ARC to="prodAggregatorGraph"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
|
||||
<NODE name="betaAggregatorGraph" type="SubmitHadoopJob">
|
||||
<DESCRIPTION>create the AGGREGATOR graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||
{
|
||||
'graphOutputPath' : 'betaAggregatorGraphPath',
|
||||
'isLookupUrl' : 'isLookUpUrl',
|
||||
'reuseContent' : 'reuseBetaContent',
|
||||
'contentPath' : 'betaContentPath'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||
{
|
||||
'oozie.wf.application.path' : '/lib/dnet/oa/graph/raw_all/oozie_app',
|
||||
'mongoURL' : 'mongodb://beta.services.openaire.eu',
|
||||
'mongoDb' : 'mdstore',
|
||||
'postgresURL' : 'jdbc:postgresql://beta.services.openaire.eu:5432/dnet_openaireplus',
|
||||
'postgresUser' : 'dnet',
|
||||
'postgresPassword' : '',
|
||||
'workingDir' : '/tmp/core_provision/working_dir/beta_aggregator'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitAggregatorGraph"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="prodAggregatorGraph" type="SubmitHadoopJob">
|
||||
<DESCRIPTION>create the AGGREGATOR graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||
{
|
||||
'graphOutputPath' : 'prodAggregatorGraphPath',
|
||||
'isLookupUrl' : 'isLookUpUrl',
|
||||
'reuseContent' : 'reuseProdContent',
|
||||
'contentPath' : 'prodContentPath'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||
{
|
||||
'oozie.wf.application.path' : '/lib/dnet/oa/graph/raw_all/oozie_app',
|
||||
'mongoURL' : 'mongodb://services.openaire.eu',
|
||||
'mongoDb' : 'mdstore',
|
||||
'postgresURL' : 'jdbc:postgresql://postgresql.services.openaire.eu:5432/dnet_openaireplus',
|
||||
'postgresUser' : 'dnet',
|
||||
'postgresPassword' : '',
|
||||
'workingDir' : '/tmp/core_provision/working_dir/prod_aggregator'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="waitAggregatorGraph"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE isJoin="true" name="waitAggregatorGraph">
|
||||
<DESCRIPTION>wait configurations</DESCRIPTION>
|
||||
<PARAMETERS/>
|
||||
<ARCS>
|
||||
<ARC to="mergeAggregatorGraphs"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="mergeAggregatorGraphs" type="SubmitHadoopJob">
|
||||
<DESCRIPTION>create the AGGREGATOR graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||
{
|
||||
'betaInputGgraphPath' : 'betaAggregatorGraphPath',
|
||||
'prodInputGgraphPath' : 'prodAggregatorGraphPath',
|
||||
'graphOutputPath' : 'mergedGraphPath'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||
{
|
||||
'oozie.wf.application.path' : '/lib/dnet/oa/graph/merge/oozie_app',
|
||||
'workingDir' : '/tmp/core_provision/working_dir/merge_graph'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="promoteActionsRaw"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="promoteActionsRaw" type="SubmitHadoopJob">
|
||||
<DESCRIPTION>create the RAW graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||
{
|
||||
'inputActionSetIds' : 'actionSetIdsRawGraph',
|
||||
'inputGraphRootPath' : 'mergedGraphPath',
|
||||
'outputGraphRootPath' : 'rawGraphPath',
|
||||
'isLookupUrl' : 'isLookUpUrl'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||
{
|
||||
'oozie.wf.application.path' : '/lib/dnet/actionmanager/wf/main/oozie_app',
|
||||
'sparkExecutorCores' : '3',
|
||||
'sparkExecutorMemory' : '10G',
|
||||
'activePromoteDatasetActionPayload' : 'true',
|
||||
'activePromoteDatasourceActionPayload' : 'true',
|
||||
'activePromoteOrganizationActionPayload' : 'true',
|
||||
'activePromoteOtherResearchProductActionPayload' : 'true',
|
||||
'activePromoteProjectActionPayload' : 'true',
|
||||
'activePromotePublicationActionPayload' : 'true',
|
||||
'activePromoteRelationActionPayload' : 'true',
|
||||
'activePromoteResultActionPayload' : 'true',
|
||||
'activePromoteSoftwareActionPayload' : 'true',
|
||||
'mergeAndGetStrategy' : 'MERGE_FROM_AND_GET',
|
||||
'workingDir' : '/tmp/core_provision/working_dir/promoteActionsRaw'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="duplicateScan"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="duplicateScan" type="SubmitHadoopJob">
|
||||
<DESCRIPTION>search for duplicates in the raw graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||
{
|
||||
'actionSetId' : 'dedupConfig',
|
||||
'graphBasePath' : 'rawGraphPath',
|
||||
'dedupGraphPath': 'dedupGraphPath',
|
||||
'isLookUpUrl' : 'isLookUpUrl'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||
{
|
||||
'oozie.wf.application.path' : '/lib/dnet/oa/dedup/scan/oozie_app',
|
||||
'workingPath' : '/tmp/core_provision/working_dir/dedup'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="promoteActionsIIS"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="promoteActionsIIS" type="SubmitHadoopJob">
|
||||
<DESCRIPTION>create the INFERRED graph</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||
{
|
||||
'inputActionSetIds' : 'actionSetIdsIISGraph',
|
||||
'inputGraphRootPath' : 'dedupGraphPath',
|
||||
'outputGraphRootPath' : 'inferredGraphPath',
|
||||
'isLookupUrl' : 'isLookUpUrl'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||
{
|
||||
'oozie.wf.application.path' : '/lib/dnet/actionmanager/wf/main/oozie_app',
|
||||
'sparkExecutorCores' : '3',
|
||||
'sparkExecutorMemory' : '10G',
|
||||
'activePromoteDatasetActionPayload' : 'true',
|
||||
'activePromoteDatasourceActionPayload' : 'true',
|
||||
'activePromoteOrganizationActionPayload' : 'true',
|
||||
'activePromoteOtherResearchProductActionPayload' : 'true',
|
||||
'activePromoteProjectActionPayload' : 'true',
|
||||
'activePromotePublicationActionPayload' : 'true',
|
||||
'activePromoteRelationActionPayload' : 'true',
|
||||
'activePromoteResultActionPayload' : 'true',
|
||||
'activePromoteSoftwareActionPayload' : 'true',
|
||||
'mergeAndGetStrategy' : 'MERGE_FROM_AND_GET',
|
||||
'workingDir' : '/tmp/core_provision/working_dir/promoteActionsIIS'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="dedupConsistency"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="dedupConsistency" type="SubmitHadoopJob">
|
||||
<DESCRIPTION>mark duplicates as deleted and redistribute the relationships</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||
{
|
||||
'graphBasePath' : 'inferredGraphPath',
|
||||
'dedupGraphPath': 'consistentGraphPath'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||
{
|
||||
'oozie.wf.application.path' : '/lib/dnet/oa/dedup/consistency/oozie_app',
|
||||
'workingPath' : '/tmp/core_provision/working_dir/dedup'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="orcidPropagation"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="orcidPropagation" type="SubmitHadoopJob">
|
||||
<DESCRIPTION>propagates ORCID among results linked by allowedsemrels semantic relationships</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||
{
|
||||
'sourcePath' : 'consistentGraphPath',
|
||||
'outputPath': 'orcidGraphPath'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||
{
|
||||
'oozie.wf.application.path' : '/lib/dnet/oa/enrichment/orcidtoresultfromsemrel/oozie_app',
|
||||
'workingDir' : '/tmp/core_provision/working_dir/orcid',
|
||||
'allowedsemrels' : 'isSupplementedBy;isSupplementTo',
|
||||
'saveGraph' : 'true'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="bulkTagging"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="bulkTagging" type="SubmitHadoopJob">
|
||||
<DESCRIPTION>mark results respecting some rules as belonging to communities</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||
{
|
||||
'sourcePath' : 'orcidGraphPath',
|
||||
'outputPath': 'bulkTaggingGraphPath',
|
||||
'isLookUpUrl' : 'isLookUpUrl',
|
||||
'pathMap' : 'bulkTaggingPathMap'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||
{
|
||||
'oozie.wf.application.path' : '/lib/dnet/oa/enrichment/bulktag/oozie_app',
|
||||
'workingDir' : '/tmp/core_provision/working_dir/bulktag'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="affiliationPropagation"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="affiliationPropagation" type="SubmitHadoopJob">
|
||||
<DESCRIPTION>creates relashionships between results and organizations when the organizations are associated to institutional repositories</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||
{
|
||||
'sourcePath' : 'bulkTaggingGraphPath',
|
||||
'outputPath': 'affiliationGraphPath'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||
{
|
||||
'oozie.wf.application.path' : '/lib/dnet/oa/enrichment/affiliation/oozie_app',
|
||||
'workingDir' : '/tmp/core_provision/working_dir/affiliation',
|
||||
'saveGraph' : 'true'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="communityOrganizationPropagation"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="communityOrganizationPropagation" type="SubmitHadoopJob">
|
||||
<DESCRIPTION>marks as belonging to communities the result collected from datasources related to the organizations specified in the organizationCommunityMap</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||
{
|
||||
'sourcePath' : 'affiliationGraphPath',
|
||||
'outputPath': 'communityOrganizationGraphPath',
|
||||
'organizationtoresultcommunitymap': 'propagationOrganizationCommunityMap'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||
{
|
||||
'oozie.wf.application.path' : '/lib/dnet/oa/enrichment/community_organization/oozie_app',
|
||||
'workingDir' : '/tmp/core_provision/working_dir/community_organization',
|
||||
'saveGraph' : 'true'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="resultProjectPropagation"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="resultProjectPropagation" type="SubmitHadoopJob">
|
||||
<DESCRIPTION>created relation between projects and results linked to other results trough allowedsemrel semantic relations linked to projects</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||
{
|
||||
'sourcePath' : 'communityOrganizationGraphPath',
|
||||
'outputPath': 'fundingGraphPath'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||
{
|
||||
'oozie.wf.application.path' : '/lib/dnet/oa/enrichment/funding/oozie_app',
|
||||
'workingDir' : '/tmp/core_provision/working_dir/funding',
|
||||
'allowedsemrels' : 'isSupplementedBy;isSupplementTo',
|
||||
'saveGraph' : 'true'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="communitySemrelPropagation"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="communitySemrelPropagation" type="SubmitHadoopJob">
|
||||
<DESCRIPTION>tag as belonging to communitites result in in allowedsemrels relation with other result already linked to communities </DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||
{
|
||||
'sourcePath' : 'fundingGraphPath',
|
||||
'outputPath': 'communitySemRelGraphPath',
|
||||
'isLookUpUrl' : 'isLookUpUrl'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||
{
|
||||
'oozie.wf.application.path' : '/lib/dnet/oa/enrichment/community_semrel/oozie_app',
|
||||
'workingDir' : '/tmp/core_provision/working_dir/community_semrel',
|
||||
'allowedsemrels' : 'isSupplementedBy;isSupplementTo',
|
||||
'saveGraph' : 'true'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="countryPropagation"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="countryPropagation" type="SubmitHadoopJob">
|
||||
<DESCRIPTION>associated to results colleced from allowedtypes and those in the whithelist the country of the organization(s) handling the datasource it is collected from </DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||
{
|
||||
'sourcePath' : 'communitySemRelGraphPath',
|
||||
'outputPath': 'countryGraphPath'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||
{
|
||||
'oozie.wf.application.path' : '/lib/dnet/oa/enrichment/country/oozie_app',
|
||||
'sparkExecutorCores' : '3',
|
||||
'sparkExecutorMemory' : '10G',
|
||||
'workingDir' : '/tmp/core_provision/working_dir/country',
|
||||
'allowedtypes' : 'pubsrepository::institutional',
|
||||
'whitelist' : '10|opendoar____::300891a62162b960cf02ce3827bb363c',
|
||||
'saveGraph' : 'true'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="graphCleaning"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="graphCleaning" type="SubmitHadoopJob">
|
||||
<DESCRIPTION>clean the properties in the graph typed as Qualifier according to the vocabulary indicated in schemeid</DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||
{
|
||||
'graphInputPath' : 'countryGraphPath',
|
||||
'graphOutputPath': 'cleanedGraphPath',
|
||||
'isLookupUrl': 'isLookUpUrl'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||
{
|
||||
'oozie.wf.application.path' : '/lib/dnet/oa/graph/clean/oozie_app',
|
||||
'workingPath' : '/tmp/core_provision/working_dir/clean'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="blacklistRelations"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
<NODE name="blacklistRelations" type="SubmitHadoopJob">
|
||||
<DESCRIPTION>removes blacklisted relations </DESCRIPTION>
|
||||
<PARAMETERS>
|
||||
<PARAM managedBy="system" name="hadoopJob" required="true" type="string">executeOozieJob</PARAM>
|
||||
<PARAM managedBy="system" name="cluster" required="true" type="string">IIS</PARAM>
|
||||
<PARAM managedBy="system" name="envParams" required="true" type="string">
|
||||
{
|
||||
'sourcePath' : 'cleanedGraphPath',
|
||||
'outputPath': 'blacklistedGraphPath'
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="params" required="true" type="string">
|
||||
{
|
||||
'oozie.wf.application.path' : '/lib/dnet/oa/enrichment/blacklist/oozie_app',
|
||||
'workingDir' : '/tmp/core_provision/working_dir/blacklist',
|
||||
'postgresURL' : 'jdbc:postgresql://beta.services.openaire.eu:5432/dnet_openaireplus',
|
||||
'postgresUser' : 'dnet',
|
||||
'postgresPassword' : ''
|
||||
}
|
||||
</PARAM>
|
||||
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="success"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
</CONFIGURATION>
|
||||
<STATUS>
|
||||
<LAST_EXECUTION_ID>wf_20200615_163630_609</LAST_EXECUTION_ID>
|
||||
<LAST_EXECUTION_DATE>2020-06-15T17:08:00+00:00</LAST_EXECUTION_DATE>
|
||||
<LAST_EXECUTION_STATUS>SUCCESS</LAST_EXECUTION_STATUS>
|
||||
<LAST_EXECUTION_ERROR/>
|
||||
</STATUS>
|
||||
</BODY>
|
||||
</RESOURCE_PROFILE>
|
||||
|
|
@ -413,7 +413,7 @@
|
|||
<PARAM managedBy="system" name="oozieReportActionsCsv" required="true" type="string">build-report</PARAM>
|
||||
</PARAMETERS>
|
||||
<ARCS>
|
||||
<ARC to="graphCleaning"/>
|
||||
<ARC to="orcidPropagation"/>
|
||||
</ARCS>
|
||||
</NODE>
|
||||
|
||||
Loading…
Reference in New Issue