119 lines
3.9 KiB
Java
119 lines
3.9 KiB
Java
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package eu.dnetlib.dhp.oa.graph.dump.eosc;
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import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
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import java.io.Serializable;
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import java.util.*;
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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.FlatMapFunction;
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import org.apache.spark.api.java.function.MapFunction;
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import org.apache.spark.api.java.function.MapGroupsFunction;
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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 eu.dnetlib.dhp.application.ArgumentApplicationParser;
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import eu.dnetlib.dhp.eosc.model.EoscResult;
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import eu.dnetlib.dhp.oa.graph.dump.Utils;
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import eu.dnetlib.dhp.schema.common.ModelConstants;
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import eu.dnetlib.dhp.schema.oaf.*;
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import scala.Tuple2;
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/**
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* @author miriam.baglioni
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* @Date 12/01/23
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*/
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public class SparkSelectRelation implements Serializable {
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private static final Logger log = LoggerFactory.getLogger(SparkSelectRelation.class);
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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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SparkSelectRelation.class
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.getResourceAsStream(
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"/eu/dnetlib/dhp/oa/graph/dump/input_relationdump_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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final 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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Optional<String> rs = Optional.ofNullable(parser.get("removeSet"));
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final Set<String> removeSet = new HashSet<>();
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if (rs.isPresent()) {
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Collections.addAll(removeSet, rs.get().split(";"));
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}
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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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selectSubset(spark, inputPath, outputPath, removeSet);
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});
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}
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private static void selectSubset(SparkSession spark, String inputPath, String outputPath, Set<String> removeSet) {
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Dataset<Relation> relation = Utils
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.readPath(spark, inputPath + "/relation", Relation.class)
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.filter(
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(FilterFunction<Relation>) r -> !r.getDataInfo().getDeletedbyinference()
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&& !removeSet.contains(r.getRelClass()));
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Dataset<String> resultIds = Utils
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.readPath(spark, outputPath + "/publication", EoscResult.class)
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.map((MapFunction<EoscResult, String>) p -> p.getId(), Encoders.STRING())
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.union(
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Utils
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.readPath(spark, outputPath + "/dataset", EoscResult.class)
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.map((MapFunction<EoscResult, String>) d -> d.getId(), Encoders.STRING()))
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.union(
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Utils
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.readPath(spark, outputPath + "/software", EoscResult.class)
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.map((MapFunction<EoscResult, String>) s -> s.getId(), Encoders.STRING()))
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.union(
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Utils
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.readPath(spark, outputPath + "/otherresearchproduct", EoscResult.class)
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.map((MapFunction<EoscResult, String>) o -> o.getId(), Encoders.STRING()));
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// select result -> result relations
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Dataset<Relation> relResultResult = relation
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.joinWith(resultIds, relation.col("source").equalTo(resultIds.col("value")))
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.map((MapFunction<Tuple2<Relation, String>, Relation>) t2 -> t2._1(), Encoders.bean(Relation.class));
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relResultResult
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.joinWith(resultIds, relResultResult.col("target").equalTo(resultIds.col("value")))
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.map((MapFunction<Tuple2<Relation, String>, Relation>) t2 -> t2._1(), Encoders.bean(Relation.class))
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.write()
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.option("compression", "gzip")
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.mode(SaveMode.Overwrite)
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.json(outputPath + "/relation");
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}
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}
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