144 lines
4.3 KiB
Java
144 lines
4.3 KiB
Java
|
|
package eu.dnetlib.dhp.blacklist;
|
|
|
|
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
|
|
|
|
import java.util.Objects;
|
|
import java.util.Optional;
|
|
|
|
import org.apache.commons.io.IOUtils;
|
|
import org.apache.spark.SparkConf;
|
|
import org.apache.spark.api.java.function.MapFunction;
|
|
import org.apache.spark.sql.*;
|
|
import org.apache.spark.sql.Dataset;
|
|
import org.apache.spark.sql.Encoders;
|
|
import org.slf4j.Logger;
|
|
import org.slf4j.LoggerFactory;
|
|
|
|
import com.fasterxml.jackson.databind.ObjectMapper;
|
|
|
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
|
import eu.dnetlib.dhp.common.HdfsSupport;
|
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
|
import scala.Tuple2;
|
|
|
|
public class SparkRemoveBlacklistedRelationJob {
|
|
private static final Logger log = LoggerFactory.getLogger(SparkRemoveBlacklistedRelationJob.class);
|
|
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
|
|
|
|
public static void main(String[] args) throws Exception {
|
|
|
|
String jsonConfiguration = IOUtils
|
|
.toString(
|
|
SparkRemoveBlacklistedRelationJob.class
|
|
.getResourceAsStream(
|
|
"/eu/dnetlib/dhp/blacklist/sparkblacklist_parameters.json"));
|
|
|
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
|
|
|
|
parser.parseArgument(args);
|
|
|
|
Boolean isSparkSessionManaged = Optional
|
|
.ofNullable(parser.get("isSparkSessionManaged"))
|
|
.map(Boolean::valueOf)
|
|
.orElse(Boolean.TRUE);
|
|
|
|
log.info("isSparkSessionManaged: {}", isSparkSessionManaged);
|
|
|
|
String inputPath = parser.get("sourcePath");
|
|
log.info("inputPath: {}", inputPath);
|
|
|
|
final String outputPath = parser.get("outputPath");
|
|
log.info("outputPath {}: ", outputPath);
|
|
|
|
final String blacklistPath = parser.get("hdfsPath");
|
|
log.info("blacklistPath {}: ", blacklistPath);
|
|
|
|
final String mergesPath = parser.get("mergesPath");
|
|
log.info("mergesPath {}: ", mergesPath);
|
|
|
|
SparkConf conf = new SparkConf();
|
|
|
|
runWithSparkSession(
|
|
conf,
|
|
isSparkSessionManaged,
|
|
spark -> {
|
|
removeOutputDir(spark, outputPath);
|
|
removeBlacklistedRelations(
|
|
spark,
|
|
blacklistPath,
|
|
inputPath,
|
|
outputPath,
|
|
mergesPath);
|
|
});
|
|
}
|
|
|
|
private static void removeBlacklistedRelations(SparkSession spark, String blacklistPath, String inputPath,
|
|
String outputPath, String mergesPath) {
|
|
Dataset<Relation> blackListed = readRelations(spark, blacklistPath + "/blacklist");
|
|
Dataset<Relation> inputRelation = readRelations(spark, inputPath);
|
|
Dataset<Relation> mergesRelation = readRelations(spark, mergesPath);
|
|
|
|
Dataset<Relation> dedupSource = blackListed
|
|
.joinWith(
|
|
mergesRelation, blackListed.col("source").equalTo(mergesRelation.col("target")),
|
|
"left_outer")
|
|
.map((MapFunction<Tuple2<Relation, Relation>, Relation>) c -> {
|
|
Optional
|
|
.ofNullable(c._2())
|
|
.ifPresent(mr -> c._1().setSource(mr.getSource()));
|
|
return c._1();
|
|
}, Encoders.bean(Relation.class));
|
|
|
|
Dataset<Relation> dedupBL = dedupSource
|
|
.joinWith(
|
|
mergesRelation, dedupSource.col("target").equalTo(mergesRelation.col("target")),
|
|
"left_outer")
|
|
.map((MapFunction<Tuple2<Relation, Relation>, Relation>) c -> {
|
|
Optional
|
|
.ofNullable(c._2())
|
|
.ifPresent(mr -> c._1().setTarget(mr.getSource()));
|
|
return c._1();
|
|
}, Encoders.bean(Relation.class));
|
|
|
|
inputRelation
|
|
.joinWith(
|
|
dedupBL, (inputRelation
|
|
.col("source")
|
|
.equalTo(dedupBL.col("source"))
|
|
.and(
|
|
inputRelation
|
|
.col("target")
|
|
.equalTo(dedupBL.col("target")))),
|
|
"left_outer")
|
|
.map((MapFunction<Tuple2<Relation, Relation>, Relation>) c -> {
|
|
Relation ir = c._1();
|
|
Optional<Relation> obl = Optional.ofNullable(c._2());
|
|
if (obl.isPresent() && ir.equals(obl.get())) {
|
|
return null;
|
|
}
|
|
return ir;
|
|
}, Encoders.bean(Relation.class))
|
|
.filter(Objects::nonNull)
|
|
.write()
|
|
.mode(SaveMode.Overwrite)
|
|
.option("compression", "gzip")
|
|
.json(outputPath);
|
|
}
|
|
|
|
public static org.apache.spark.sql.Dataset<Relation> readRelations(
|
|
SparkSession spark, String inputPath) {
|
|
return spark
|
|
.read()
|
|
.textFile(inputPath)
|
|
.map(
|
|
(MapFunction<String, Relation>) value -> OBJECT_MAPPER.readValue(value, Relation.class),
|
|
Encoders.bean(Relation.class));
|
|
}
|
|
|
|
private static void removeOutputDir(SparkSession spark, String path) {
|
|
HdfsSupport.remove(path, spark.sparkContext().hadoopConfiguration());
|
|
}
|
|
|
|
}
|