package eu.dnetlib.dhp.oa.dedup; import static eu.dnetlib.dhp.schema.common.ModelConstants.DNET_PROVENANCE_ACTIONS; import static eu.dnetlib.dhp.schema.common.ModelConstants.PROVENANCE_DEDUP; import java.io.IOException; import org.apache.commons.io.IOUtils; import org.apache.spark.SparkConf; import org.apache.spark.sql.SaveMode; import org.apache.spark.sql.SparkSession; import org.dom4j.DocumentException; import org.slf4j.Logger; import org.slf4j.LoggerFactory; import eu.dnetlib.dhp.application.ArgumentApplicationParser; import eu.dnetlib.dhp.schema.common.EntityType; import eu.dnetlib.dhp.schema.common.ModelSupport; import eu.dnetlib.dhp.schema.oaf.DataInfo; import eu.dnetlib.dhp.schema.oaf.OafEntity; import eu.dnetlib.dhp.schema.oaf.Qualifier; 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; public class SparkCreateDedupRecord extends AbstractSparkAction { private static final Logger log = LoggerFactory.getLogger(SparkCreateDedupRecord.class); public static final String ROOT_TRUST = "0.8"; public SparkCreateDedupRecord(ArgumentApplicationParser parser, SparkSession spark) { super(parser, spark); } public static void main(String[] args) throws Exception { ArgumentApplicationParser parser = new ArgumentApplicationParser( IOUtils .toString( SparkCreateSimRels.class .getResourceAsStream( "/eu/dnetlib/dhp/oa/dedup/createDedupRecord_parameters.json"))); parser.parseArgument(args); SparkConf conf = new SparkConf(); conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer"); conf.registerKryoClasses(ModelSupport.getOafModelClasses()); new SparkCreateDedupRecord(parser, getSparkSession(conf)) .run(ISLookupClientFactory.getLookUpService(parser.get("isLookUpUrl"))); } @Override public void run(ISLookUpService isLookUpService) throws ISLookUpException, DocumentException, IOException { final String graphBasePath = parser.get("graphBasePath"); final String isLookUpUrl = parser.get("isLookUpUrl"); final String actionSetId = parser.get("actionSetId"); final String workingPath = parser.get("workingPath"); log.info("graphBasePath: '{}'", graphBasePath); log.info("isLookUpUrl: '{}'", isLookUpUrl); log.info("actionSetId: '{}'", actionSetId); log.info("workingPath: '{}'", workingPath); for (DedupConfig dedupConf : getConfigurations(isLookUpService, actionSetId)) { String subEntity = dedupConf.getWf().getSubEntityValue(); log.info("Creating deduprecords for: '{}'", subEntity); final String outputPath = DedupUtility.createDedupRecordPath(workingPath, actionSetId, subEntity); removeOutputDir(spark, outputPath); final String mergeRelPath = DedupUtility.createMergeRelPath(workingPath, actionSetId, subEntity); final String entityPath = DedupUtility.createEntityPath(graphBasePath, subEntity); final Class clazz = ModelSupport.entityTypes.get(EntityType.valueOf(subEntity)); final DataInfo dataInfo = getDataInfo(dedupConf); DedupRecordFactory .createDedupRecord(spark, dataInfo, mergeRelPath, entityPath, clazz) .write() .mode(SaveMode.Overwrite) .option("compression", "gzip") .json(outputPath); } } private static DataInfo getDataInfo(DedupConfig dedupConf) { DataInfo info = new DataInfo(); info.setDeletedbyinference(false); info.setInferred(true); info.setInvisible(false); info.setTrust(ROOT_TRUST); info.setInferenceprovenance(dedupConf.getWf().getConfigurationId()); Qualifier provenance = new Qualifier(); provenance.setClassid(PROVENANCE_DEDUP); provenance.setClassname(PROVENANCE_DEDUP); provenance.setSchemeid(DNET_PROVENANCE_ACTIONS); provenance.setSchemename(DNET_PROVENANCE_ACTIONS); info.setProvenanceaction(provenance); return info; } }