package eu.dnetlib.dhp.oa.graph.groupbyid; import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession; import java.util.Optional; import org.apache.commons.io.IOUtils; import org.apache.commons.lang3.StringUtils; import org.apache.spark.SparkConf; import org.apache.spark.api.java.function.FilterFunction; import org.apache.spark.api.java.function.MapFunction; 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 com.fasterxml.jackson.databind.ObjectMapper; import eu.dnetlib.dhp.application.ArgumentApplicationParser; import eu.dnetlib.dhp.common.HdfsSupport; import eu.dnetlib.dhp.oa.graph.raw.MigrateMongoMdstoresApplication; import eu.dnetlib.dhp.schema.common.ModelSupport; import eu.dnetlib.dhp.schema.oaf.Oaf; import eu.dnetlib.dhp.schema.oaf.OafEntity; import scala.Tuple2; public class DispatchEntitiesSparkJob { private static final Logger log = LoggerFactory.getLogger(DispatchEntitiesSparkJob.class); private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper(); public static void main(final String[] args) throws Exception { final ArgumentApplicationParser parser = new ArgumentApplicationParser( IOUtils .toString( MigrateMongoMdstoresApplication.class .getResourceAsStream( "/eu/dnetlib/dhp/oa/graph/dispatch_entities_bytype_parameters.json"))); parser.parseArgument(args); Boolean isSparkSessionManaged = Optional .ofNullable(parser.get("isSparkSessionManaged")) .map(Boolean::valueOf) .orElse(Boolean.TRUE); log.info("isSparkSessionManaged: {}", isSparkSessionManaged); final String entitiesPath = parser.get("entitiesPath"); log.info("entitiesPath: {}", entitiesPath); final String outputPath = parser.get("outputPath"); log.info("outputPath: {}", outputPath); String graphTableClassName = parser.get("graphTableClassName"); log.info("graphTableClassName: {}", graphTableClassName); Class entityClazz = (Class) Class.forName(graphTableClassName); SparkConf conf = new SparkConf(); conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer"); conf.registerKryoClasses(ModelSupport.getOafModelClasses()); runWithSparkSession( conf, isSparkSessionManaged, spark -> { HdfsSupport.remove(outputPath, spark.sparkContext().hadoopConfiguration()); dispatchOaf(spark, entityClazz, entitiesPath, outputPath); }); } private static void dispatchOaf( final SparkSession spark, final Class clazz, final String sourcePath, final String targetPath) { log.info("Processing entities ({}) in file: {}", clazz.getName(), sourcePath); spark .read() .textFile(sourcePath) .filter((FilterFunction) s -> isEntityType(s, clazz)) .map((MapFunction) s -> StringUtils.substringAfter(s, "|"), Encoders.STRING()) .write() .option("compression", "gzip") .mode(SaveMode.Overwrite) .text(targetPath); } private static boolean isEntityType(final String s, final Class clazz) { return StringUtils.substringBefore(s, "|").equals(clazz.getName()); } }