2021-02-10 11:51:50 +01:00
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package eu.dnetlib.dhp.oa.dedup;
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import java.io.IOException;
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import java.util.ArrayList;
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import java.util.List;
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import java.util.Optional;
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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.JavaRDD;
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import org.apache.spark.api.java.function.MapFunction;
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2021-02-26 10:19:28 +01:00
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import org.apache.spark.sql.Dataset;
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2021-02-10 11:51:50 +01:00
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import org.apache.spark.sql.Encoders;
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2021-02-26 10:19:28 +01:00
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import org.apache.spark.sql.SaveMode;
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2021-02-10 11:51:50 +01:00
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import org.apache.spark.sql.SparkSession;
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import org.dom4j.DocumentException;
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import org.slf4j.Logger;
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import org.slf4j.LoggerFactory;
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2021-03-31 17:07:13 +02:00
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import com.sun.media.sound.ModelChannelMixer;
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2021-02-10 11:51:50 +01:00
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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2021-03-31 17:07:13 +02:00
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import eu.dnetlib.dhp.schema.common.ModelConstants;
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2021-02-10 11:51:50 +01:00
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import eu.dnetlib.dhp.schema.oaf.DataInfo;
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2021-02-26 10:19:28 +01:00
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import eu.dnetlib.dhp.schema.oaf.KeyValue;
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import eu.dnetlib.dhp.schema.oaf.Qualifier;
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2021-02-10 11:51:50 +01:00
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import eu.dnetlib.dhp.schema.oaf.Relation;
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2021-03-29 10:07:12 +02:00
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import eu.dnetlib.dhp.utils.DHPUtils;
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2021-02-10 11:51:50 +01:00
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import eu.dnetlib.dhp.utils.ISLookupClientFactory;
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import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpException;
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import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpService;
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2021-02-26 10:19:28 +01:00
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import eu.dnetlib.pace.config.DedupConfig;
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2021-03-29 10:07:12 +02:00
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import net.sf.saxon.ma.trie.Tuple2;
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2021-02-10 11:51:50 +01:00
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public class SparkCopyOpenorgsMergeRels extends AbstractSparkAction {
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private static final Logger log = LoggerFactory.getLogger(SparkCopyOpenorgsMergeRels.class);
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public SparkCopyOpenorgsMergeRels(ArgumentApplicationParser parser, SparkSession spark) {
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super(parser, spark);
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}
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public static void main(String[] args) throws Exception {
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ArgumentApplicationParser parser = new ArgumentApplicationParser(
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IOUtils
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.toString(
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SparkCopyOpenorgsMergeRels.class
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.getResourceAsStream(
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"/eu/dnetlib/dhp/oa/dedup/copyOpenorgsMergeRels_parameters.json")));
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parser.parseArgument(args);
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SparkConf conf = new SparkConf();
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new SparkCopyOpenorgsMergeRels(parser, getSparkSession(conf))
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.run(ISLookupClientFactory.getLookUpService(parser.get("isLookUpUrl")));
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}
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@Override
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public void run(ISLookUpService isLookUpService)
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throws DocumentException, IOException, ISLookUpException {
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// read oozie parameters
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final String graphBasePath = parser.get("graphBasePath");
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final String actionSetId = parser.get("actionSetId");
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final String workingPath = parser.get("workingPath");
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final int numPartitions = Optional
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.ofNullable(parser.get("numPartitions"))
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.map(Integer::valueOf)
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.orElse(NUM_PARTITIONS);
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log.info("numPartitions: '{}'", numPartitions);
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log.info("graphBasePath: '{}'", graphBasePath);
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log.info("actionSetId: '{}'", actionSetId);
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log.info("workingPath: '{}'", workingPath);
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log.info("Copying OpenOrgs Merge Rels");
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final String outputPath = DedupUtility.createMergeRelPath(workingPath, actionSetId, "organization");
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final String relationPath = DedupUtility.createEntityPath(graphBasePath, "relation");
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2021-04-06 14:31:00 +02:00
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//collect organization merge relations from openorgs database
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JavaRDD<Relation> mergeRelsRDD = spark
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.read()
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.textFile(relationPath)
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.map(patchRelFn(), Encoders.bean(Relation.class))
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.toJavaRDD()
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.filter(this::isOpenorgs) //take only openorgs relations
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.filter(this::isMergeRel); //take merges and isMergedIn relations
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2021-02-10 11:51:50 +01:00
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2021-04-06 14:31:00 +02:00
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log.info("Number of Openorgs Merge Relations collected: {}", mergeRelsRDD.count());
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2021-03-19 16:57:40 +01:00
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2021-02-26 10:19:28 +01:00
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spark
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.createDataset(
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mergeRelsRDD.rdd(),
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Encoders.bean(Relation.class))
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.write()
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.mode(SaveMode.Append)
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.parquet(outputPath);
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2021-02-10 11:51:50 +01:00
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}
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2021-04-06 14:31:00 +02:00
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private boolean isMergeRel(Relation rel) {
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return (rel.getRelClass().equals(ModelConstants.MERGES) || rel.getRelClass().equals(ModelConstants.IS_MERGED_IN))
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&& rel.getRelType().equals(ModelConstants.ORG_ORG_RELTYPE)
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2021-04-01 10:30:51 +02:00
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&& rel.getSubRelType().equals(ModelConstants.DEDUP);
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2021-02-10 11:51:50 +01:00
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}
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}
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