87 lines
2.7 KiB
Java
87 lines
2.7 KiB
Java
|
|
package eu.dnetlib.dhp.bypassactionset.fos;
|
|
|
|
import static eu.dnetlib.dhp.PropagationConstant.*;
|
|
import static eu.dnetlib.dhp.bypassactionset.Utils.getIdentifier;
|
|
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
|
|
|
|
import java.io.Serializable;
|
|
import java.util.ArrayList;
|
|
import java.util.Arrays;
|
|
import java.util.List;
|
|
|
|
import org.apache.commons.io.IOUtils;
|
|
import org.apache.spark.SparkConf;
|
|
import org.apache.spark.api.java.function.FlatMapFunction;
|
|
import org.apache.spark.sql.Dataset;
|
|
import org.apache.spark.sql.Encoders;
|
|
import org.apache.spark.sql.SaveMode;
|
|
import org.apache.spark.sql.SparkSession;
|
|
import org.jetbrains.annotations.NotNull;
|
|
import org.slf4j.Logger;
|
|
import org.slf4j.LoggerFactory;
|
|
|
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
|
import eu.dnetlib.dhp.bypassactionset.model.FOSDataModel;
|
|
import eu.dnetlib.dhp.schema.oaf.utils.CleaningFunctions;
|
|
import eu.dnetlib.dhp.schema.oaf.utils.IdentifierFactory;
|
|
|
|
public class PrepareFOSSparkJob implements Serializable {
|
|
private static final Logger log = LoggerFactory.getLogger(PrepareFOSSparkJob.class);
|
|
|
|
public static void main(String[] args) throws Exception {
|
|
|
|
String jsonConfiguration = IOUtils
|
|
.toString(
|
|
PrepareFOSSparkJob.class
|
|
.getResourceAsStream(
|
|
"/eu/dnetlib/dhp/bypassactionset/distribute_fos_parameters.json"));
|
|
|
|
final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
|
|
|
|
parser.parseArgument(args);
|
|
|
|
Boolean isSparkSessionManaged = isSparkSessionManaged(parser);
|
|
log.info("isSparkSessionManaged: {}", isSparkSessionManaged);
|
|
|
|
String sourcePath = parser.get("sourcePath");
|
|
log.info("sourcePath: {}", sourcePath);
|
|
|
|
final String outputPath = parser.get("outputPath");
|
|
log.info("outputPath: {}", outputPath);
|
|
|
|
SparkConf conf = new SparkConf();
|
|
runWithSparkSession(
|
|
conf,
|
|
isSparkSessionManaged,
|
|
spark -> {
|
|
removeOutputDir(spark, outputPath);
|
|
distributeFOSdois(
|
|
spark,
|
|
sourcePath,
|
|
|
|
outputPath);
|
|
});
|
|
}
|
|
|
|
private static void distributeFOSdois(SparkSession spark, String sourcePath, String outputPath) {
|
|
Dataset<FOSDataModel> fosDataset = readPath(spark, sourcePath, FOSDataModel.class);
|
|
|
|
fosDataset.flatMap((FlatMapFunction<FOSDataModel, FOSDataModel>) v -> {
|
|
List<FOSDataModel> fosList = new ArrayList<>();
|
|
final String level1 = v.getLevel1();
|
|
final String level2 = v.getLevel2();
|
|
final String level3 = v.getLevel3();
|
|
Arrays
|
|
.stream(v.getDoi().split("\u0002"))
|
|
.forEach(d -> fosList.add(FOSDataModel.newInstance(getIdentifier(d), level1, level2, level3)));
|
|
return fosList.iterator();
|
|
}, Encoders.bean(FOSDataModel.class))
|
|
.write()
|
|
.mode(SaveMode.Overwrite)
|
|
.option("compression", "gzip")
|
|
.json(outputPath);
|
|
}
|
|
|
|
}
|