forked from D-Net/dnet-hadoop
141 lines
4.0 KiB
Java
141 lines
4.0 KiB
Java
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package eu.dnetlib.dhp.blacklist;
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import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
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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.function.MapFunction;
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import org.apache.spark.sql.*;
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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.slf4j.Logger;
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import org.slf4j.LoggerFactory;
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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.schema.oaf.Relation;
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public class SparkRemoveBlacklistedRelationJob {
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private static final Logger log = LoggerFactory.getLogger(SparkRemoveBlacklistedRelationJob.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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SparkRemoveBlacklistedRelationJob.class
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.getResourceAsStream(
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"/eu/dnetlib/dhp/blacklist/sparkblacklist_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 inputPath = parser.get("sourcePath");
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log.info("inputPath: {}", inputPath);
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final String outputPath = parser.get("outputPath");
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log.info("outputPath {}: ", outputPath);
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final String blacklistPath = parser.get("hdfsPath");
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log.info("blacklistPath {}: ", blacklistPath);
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final String mergesPath = parser.get("mergesPath");
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log.info("mergesPath {}: ", mergesPath);
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SparkConf conf = new SparkConf();
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runWithSparkSession(
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conf,
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isSparkSessionManaged,
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spark -> {
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removeBlacklistedRelations(
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spark,
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blacklistPath,
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inputPath,
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outputPath,
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mergesPath);
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});
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}
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private static void removeBlacklistedRelations(SparkSession spark, String blacklistPath, String inputPath,
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String outputPath, String mergesPath) {
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Dataset<Relation> blackListed = readRelations(spark, blacklistPath);
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Dataset<Relation> inputRelation = readRelations(spark, inputPath);
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Dataset<Relation> mergesRelation = readRelations(spark, mergesPath);
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log.info("InputRelationCount: {}", inputRelation.count());
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Dataset<Relation> dedupSource = blackListed
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.joinWith(mergesRelation, blackListed.col("source").equalTo(mergesRelation.col("target")), "left_outer")
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.map(c -> {
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Optional
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.ofNullable(c._2())
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.ifPresent(mr -> c._1().setSource(mr.getSource()));
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return c._1();
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}, Encoders.bean(Relation.class));
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Dataset<Relation> dedupBL = dedupSource
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.joinWith(mergesRelation, dedupSource.col("target").equalTo(mergesRelation.col("target")), "left_outer")
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.map(c -> {
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Optional
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.ofNullable(c._2())
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.ifPresent(mr -> c._1().setTarget(mr.getSource()));
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return c._1();
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}, Encoders.bean(Relation.class));
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dedupBL
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.write()
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.json(blacklistPath + "/deduped");
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Dataset<Relation> tmp = inputRelation
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.joinWith(
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dedupBL, inputRelation.col("source").equalTo(dedupBL.col("source")),
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"left_outer")
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.map(c -> {
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Relation ir = c._1();
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Optional<Relation> obl = Optional.ofNullable(c._2());
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if (obl.isPresent()) {
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if (ir.equals(obl.get())) {
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return null;
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}
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}
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return ir;
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}, Encoders.bean(Relation.class))
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.filter(r -> r != null);
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log.info("NumberOfRelationAfterBlacklisting: {} ", tmp.count());
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tmp
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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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public static org.apache.spark.sql.Dataset<Relation> readRelations(
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SparkSession spark, String inputPath) {
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return spark
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.read()
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.textFile(inputPath)
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.map(
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(MapFunction<String, Relation>) value -> OBJECT_MAPPER.readValue(value, Relation.class),
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Encoders.bean(Relation.class));
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}
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}
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