forked from D-Net/dnet-hadoop
134 lines
4.0 KiB
Java
134 lines
4.0 KiB
Java
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package eu.dnetlib.dhp.actionmanager.createunresolvedentities;
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import static eu.dnetlib.dhp.actionmanager.createunresolvedentities.Constants.*;
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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 java.util.stream.Collectors;
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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.FlatMapFunction;
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import org.apache.spark.api.java.function.MapFunction;
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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.actionmanager.createunresolvedentities.model.FOSDataModel;
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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import eu.dnetlib.dhp.schema.common.ModelConstants;
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import eu.dnetlib.dhp.schema.oaf.Result;
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import eu.dnetlib.dhp.schema.oaf.StructuredProperty;
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import eu.dnetlib.dhp.schema.oaf.utils.OafMapperUtils;
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import eu.dnetlib.dhp.utils.DHPUtils;
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public class PrepareFOSSparkJob implements Serializable {
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private static final Logger log = LoggerFactory.getLogger(PrepareFOSSparkJob.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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PrepareFOSSparkJob.class
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.getResourceAsStream(
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"/eu/dnetlib/dhp/actionmanager/createunresolvedentities/prepare_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 = isSparkSessionManaged(parser);
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log.info("isSparkSessionManaged: {}", isSparkSessionManaged);
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String sourcePath = parser.get("sourcePath");
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log.info("sourcePath: {}", sourcePath);
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final String outputPath = parser.get("outputPath");
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log.info("outputPath: {}", outputPath);
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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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distributeFOSdois(
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spark,
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sourcePath,
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outputPath);
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});
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}
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private static void distributeFOSdois(SparkSession spark, String sourcePath, String outputPath) {
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Dataset<FOSDataModel> fosDataset = readPath(spark, sourcePath, FOSDataModel.class);
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fosDataset.flatMap((FlatMapFunction<FOSDataModel, FOSDataModel>) v -> {
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List<FOSDataModel> fosList = new ArrayList<>();
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final String level1 = v.getLevel1();
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final String level2 = v.getLevel2();
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final String level3 = v.getLevel3();
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Arrays
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.stream(v.getDoi().split("\u0002"))
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.forEach(d -> fosList.add(FOSDataModel.newInstance(d, level1, level2, level3)));
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return fosList.iterator();
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}, Encoders.bean(FOSDataModel.class))
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.map((MapFunction<FOSDataModel, Result>) value -> {
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Result r = new Result();
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r.setId(DHPUtils.generateUnresolvedIdentifier(value.getDoi(), DOI));
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r.setSubject(getSubjects(value));
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return r;
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}, Encoders.bean(Result.class))
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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 + "/fos");
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}
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private static List<StructuredProperty> getSubjects(FOSDataModel fos) {
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return Arrays
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.asList(getSubject(fos.getLevel1()), getSubject(fos.getLevel2()), getSubject(fos.getLevel3()))
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.stream()
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.filter(Objects::nonNull)
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.collect(Collectors.toList());
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}
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private static StructuredProperty getSubject(String sbj) {
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if (sbj.equals(NULL))
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return null;
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StructuredProperty sp = new StructuredProperty();
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sp.setValue(sbj);
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sp
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.setQualifier(
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OafMapperUtils
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.qualifier(
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FOS_CLASS_ID,
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FOS_CLASS_NAME,
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ModelConstants.DNET_SUBJECT_TYPOLOGIES,
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ModelConstants.DNET_SUBJECT_TYPOLOGIES));
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sp
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.setDataInfo(
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OafMapperUtils
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.dataInfo(
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false,
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UPDATE_DATA_INFO_TYPE,
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true,
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false,
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OafMapperUtils
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.qualifier(
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UPDATE_SUBJECT_FOS_CLASS_ID,
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UPDATE_CLASS_NAME,
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ModelConstants.DNET_PROVENANCE_ACTIONS,
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ModelConstants.DNET_PROVENANCE_ACTIONS),
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""));
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return sp;
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}
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}
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