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