package eu.dnetlib.dhp.oa.dedup; import java.io.IOException; import org.apache.commons.io.IOUtils; import org.apache.spark.SparkConf; import org.apache.spark.api.java.JavaRDD; 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.application.ArgumentApplicationParser; import eu.dnetlib.dhp.schema.common.ModelSupport; import eu.dnetlib.dhp.schema.oaf.Relation; import eu.dnetlib.dhp.utils.ISLookupClientFactory; import eu.dnetlib.enabling.is.lookup.rmi.ISLookUpService; public class SparkCopyRelationsNoOpenorgs extends AbstractSparkAction { private static final Logger log = LoggerFactory.getLogger(SparkCopyRelationsNoOpenorgs.class); public SparkCopyRelationsNoOpenorgs(ArgumentApplicationParser parser, SparkSession spark) { super(parser, spark); } public static void main(String[] args) throws Exception { ArgumentApplicationParser parser = new ArgumentApplicationParser( IOUtils .toString( SparkCopyRelationsNoOpenorgs.class .getResourceAsStream( "/eu/dnetlib/dhp/oa/dedup/updateEntity_parameters.json"))); parser.parseArgument(args); SparkConf conf = new SparkConf(); conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer"); conf.registerKryoClasses(ModelSupport.getOafModelClasses()); new SparkCopyRelationsNoOpenorgs(parser, getSparkSession(conf)) .run(ISLookupClientFactory.getLookUpService(parser.get("isLookUpUrl"))); } public void run(ISLookUpService isLookUpService) throws IOException { final String graphBasePath = parser.get("graphBasePath"); final String workingPath = parser.get("workingPath"); final String dedupGraphPath = parser.get("dedupGraphPath"); log.info("graphBasePath: '{}'", graphBasePath); log.info("workingPath: '{}'", workingPath); log.info("dedupGraphPath: '{}'", dedupGraphPath); final String relationPath = DedupUtility.createEntityPath(graphBasePath, "relation"); final String outputPath = DedupUtility.createEntityPath(dedupGraphPath, "relation"); JavaRDD simRels = spark .read() .textFile(relationPath) .map(patchRelFn(), Encoders.bean(Relation.class)) .toJavaRDD() .filter(x -> !isOpenorgsDedupRel(x)); if (log.isDebugEnabled()) { log.debug("Number of non-Openorgs relations collected: {}", simRels.count()); } spark .createDataset(simRels.rdd(), Encoders.bean(Relation.class)) .write() .mode(SaveMode.Overwrite) .json(outputPath); } }