package eu.dnetlib.dhp.actionmanager.createunresolvedentities; import static eu.dnetlib.dhp.actionmanager.Constants.*; import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession; import java.io.Serializable; import java.util.*; import java.util.stream.Collectors; import org.apache.commons.io.IOUtils; import org.apache.spark.SparkConf; import org.apache.spark.api.java.function.MapFunction; import org.apache.spark.api.java.function.MapGroupsFunction; 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.slf4j.Logger; import org.slf4j.LoggerFactory; import eu.dnetlib.dhp.actionmanager.createunresolvedentities.model.FOSDataModel; import eu.dnetlib.dhp.application.ArgumentApplicationParser; import eu.dnetlib.dhp.schema.oaf.Result; import eu.dnetlib.dhp.schema.oaf.StructuredProperty; import eu.dnetlib.dhp.utils.DHPUtils; 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/actionmanager/createunresolvedentities/prepare_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 -> { distributeFOSdois( spark, sourcePath, outputPath); }); } private static void distributeFOSdois(SparkSession spark, String sourcePath, String outputPath) { Dataset fosDataset = readPath(spark, sourcePath, FOSDataModel.class); fosDataset .groupByKey((MapFunction) v -> v.getDoi().toLowerCase(), Encoders.STRING()) .mapGroups((MapGroupsFunction) (k, it) -> { Result r = new Result(); FOSDataModel first = it.next(); r.setId(DHPUtils.generateUnresolvedIdentifier(k, DOI)); HashSet level1 = new HashSet<>(); HashSet level2 = new HashSet<>(); HashSet level3 = new HashSet<>(); addLevels(level1, level2, level3, first); it.forEachRemaining(v -> addLevels(level1, level2, level3, v)); List sbjs = new ArrayList<>(); level1.forEach(l -> sbjs.add(getSubject(l, FOS_CLASS_ID, FOS_CLASS_NAME, UPDATE_SUBJECT_FOS_CLASS_ID))); level2.forEach(l -> sbjs.add(getSubject(l, FOS_CLASS_ID, FOS_CLASS_NAME, UPDATE_SUBJECT_FOS_CLASS_ID))); level3.forEach(l -> sbjs.add(getSubject(l, FOS_CLASS_ID, FOS_CLASS_NAME, UPDATE_SUBJECT_FOS_CLASS_ID))); r.setSubject(sbjs); return r; }, Encoders.bean(Result.class)) .write() .mode(SaveMode.Overwrite) .option("compression", "gzip") .json(outputPath + "/fos"); } private static void addLevels(HashSet level1, HashSet level2, HashSet level3, FOSDataModel first) { level1.add(first.getLevel1()); level2.add(first.getLevel2()); level3.add(first.getLevel3()); } }