package eu.dnetlib.dhp.oa.dedup; import java.io.IOException; import java.util.Collection; import java.util.Optional; import org.apache.commons.io.IOUtils; import org.apache.spark.SparkConf; import org.apache.spark.api.java.JavaSparkContext; import org.apache.spark.api.java.function.MapFunction; import org.apache.spark.sql.*; import org.dom4j.DocumentException; import org.slf4j.Logger; import org.slf4j.LoggerFactory; import org.xml.sax.SAXException; import eu.dnetlib.dhp.application.ArgumentApplicationParser; import eu.dnetlib.dhp.oa.dedup.model.BlockStats; import eu.dnetlib.dhp.utils.ISLookupClientFactory; import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpException; import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpService; import eu.dnetlib.pace.config.DedupConfig; import eu.dnetlib.pace.model.SparkDeduper; public class SparkBlockStats extends AbstractSparkAction { private static final Logger log = LoggerFactory.getLogger(SparkBlockStats.class); public SparkBlockStats(ArgumentApplicationParser parser, SparkSession spark) { super(parser, spark); } public static void main(String[] args) throws Exception { ArgumentApplicationParser parser = new ArgumentApplicationParser( IOUtils .toString( SparkBlockStats.class .getResourceAsStream( "/eu/dnetlib/dhp/oa/dedup/createBlockStats_parameters.json"))); parser.parseArgument(args); SparkConf conf = new SparkConf(); new SparkBlockStats(parser, getSparkSession(conf)) .run(ISLookupClientFactory.getLookUpService(parser.get("isLookUpUrl"))); } public Long computeComparisons(Long blockSize, Long slidingWindowSize) { if (slidingWindowSize >= blockSize) return (slidingWindowSize * (slidingWindowSize - 1)) / 2; else { return (blockSize - slidingWindowSize + 1) * (slidingWindowSize * (slidingWindowSize - 1)) / 2; } } @Override public void run(ISLookUpService isLookUpService) throws DocumentException, IOException, ISLookUpException, SAXException { // read oozie parameters final String graphBasePath = parser.get("graphBasePath"); final String isLookUpUrl = parser.get("isLookUpUrl"); final String actionSetId = parser.get("actionSetId"); final String workingPath = parser.get("workingPath"); final int numPartitions = Optional .ofNullable(parser.get("numPartitions")) .map(Integer::valueOf) .orElse(NUM_PARTITIONS); log.info("graphBasePath: '{}'", graphBasePath); log.info("isLookUpUrl: '{}'", isLookUpUrl); log.info("actionSetId: '{}'", actionSetId); log.info("workingPath: '{}'", workingPath); // for each dedup configuration for (DedupConfig dedupConf : getConfigurations(isLookUpService, actionSetId)) { final String subEntity = dedupConf.getWf().getSubEntityValue(); log.info("Creating blockstats for: '{}'", subEntity); final String outputPath = DedupUtility.createBlockStatsPath(workingPath, actionSetId, subEntity); removeOutputDir(spark, outputPath); JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext()); SparkDeduper deduper = new SparkDeduper(dedupConf); Dataset simRels = spark .read() .textFile(DedupUtility.createEntityPath(graphBasePath, subEntity)) .transform(deduper.model().parseJsonDataset()) .transform(deduper.filterAndCleanup()) .transform(deduper.generateClustersWithCollect()) .filter(functions.size(new Column("block")).geq(1)); simRels.map((MapFunction) row -> { Collection mapDocuments = row.getList(row.fieldIndex("block")); /* * List mapDocuments = documents .stream() .sorted( new * RowDataOrderingComparator(deduper.model().orderingFieldPosition(), * deduper.model().identityFieldPosition())) .limit(dedupConf.getWf().getQueueMaxSize()) * .collect(Collectors.toList()); */ return new BlockStats( row.getString(row.fieldIndex("key")), (long) mapDocuments.size(), computeComparisons( (long) mapDocuments.size(), (long) dedupConf.getWf().getSlidingWindowSize())); }, Encoders.bean(BlockStats.class)) .write() .mode(SaveMode.Overwrite) .save(outputPath); } } }