package eu.dnetlib.dhp.oa.graph.dump.skgif; import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession; import java.io.Serializable; import java.util.Optional; import java.util.stream.Collectors; import org.apache.commons.io.IOUtils; 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.api.java.function.MapGroupsFunction; import org.apache.spark.sql.Dataset; 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.oaf.Organization; import eu.dnetlib.dhp.schema.oaf.Project; import eu.dnetlib.dhp.skgif.model.Identifier; import eu.dnetlib.dhp.skgif.model.OrganizationTypes; import eu.dnetlib.dhp.skgif.model.Prefixes; /** * @author miriam.baglioni * @Date 21/02/24 */ public class DumpOrganization implements Serializable { private static final Logger log = LoggerFactory.getLogger(DumpOrganization.class); public static void main(String[] args) throws Exception { String jsonConfiguration = IOUtils .toString( DumpOrganization.class .getResourceAsStream( "/eu/dnetlib/dhp/oa/graph/dump/skgif/dump_organization_parameters.json")); final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration); parser.parseArgument(args); Boolean isSparkSessionManaged = Optional .ofNullable(parser.get("isSparkSessionManaged")) .map(Boolean::valueOf) .orElse(Boolean.TRUE); log.info("isSparkSessionManaged: {}", isSparkSessionManaged); final String inputPath = parser.get("sourcePath"); log.info("inputPath: {}", inputPath); final String outputPath = parser.get("outputPath"); log.info("outputPath: {}", outputPath); SparkConf conf = new SparkConf(); runWithSparkSession( conf, isSparkSessionManaged, spark -> { Utils.removeOutputDir(spark, outputPath + "organizations"); mapOrganization(spark, inputPath, outputPath); }); } private static void mapOrganization(SparkSession spark, String inputPath, String outputPath) { Dataset organizations = Utils.readPath(spark, inputPath + "organization", Organization.class); organizations = organizations .filter( (FilterFunction) o -> !o.getDataInfo().getDeletedbyinference() && !o.getDataInfo().getInvisible()) .groupByKey((MapFunction) p -> p.getId(), Encoders.STRING()) .mapGroups( (MapGroupsFunction) (k, v) -> v.next(), Encoders.bean(Organization.class)); organizations.map((MapFunction) o -> { if (!Optional.ofNullable(o.getPid()).isPresent() || o.getPid().size() == 0) return null; eu.dnetlib.dhp.skgif.model.Organization organization = new eu.dnetlib.dhp.skgif.model.Organization(); // organization.setLocal_identifier(Utils.getIdentifier(Prefixes.ORGANIZATION, o.getId())); organization.setLocal_identifier(o.getId()); organization .setCountry( Optional .ofNullable(o.getCountry().getClassid()) .orElse(new String())); organization .setName( Optional .ofNullable(o.getLegalname().getValue()) .orElse(new String())); organization .setShort_name( Optional .ofNullable(o.getLegalshortname()) .map(v -> v.getValue()) .orElse(new String())); organization .setIdentifiers( o .getPid() .stream() .map(p -> Identifier.newInstance(p.getQualifier().getClassid(), p.getValue())) .collect(Collectors.toList())); organization .setOther_names( o .getAlternativeNames() .stream() .map(a -> a.getValue()) .collect(Collectors.toList())); organization.setType(getOrganizationType(o)); return organization; }, Encoders.bean(eu.dnetlib.dhp.skgif.model.Organization.class)) .filter((FilterFunction) o -> o != null) .write() .mode(SaveMode.Overwrite) .option("compression", "gzip") .json(outputPath + "organizations"); } private static String getOrganizationType(Organization o) { if (Optional.ofNullable(o.getEcenterprise()).isPresent() && o.getEcenterprise().getValue().equalsIgnoreCase("true")) return OrganizationTypes.COMPANY.label; if (Optional.ofNullable(o.getEchighereducation()).isPresent() && o.getEchighereducation().getValue().equalsIgnoreCase("true")) return OrganizationTypes.EDUCATION.label; if (Optional.ofNullable(o.getEcresearchorganization()).isPresent() && o.getEcresearchorganization().getValue().equalsIgnoreCase("true")) return OrganizationTypes.EDUCATION.label; if (Optional.ofNullable(o.getEcnonprofit()).isPresent() && o.getEcnonprofit().getValue().equalsIgnoreCase("true")) return OrganizationTypes.NONPROFIT.label; return OrganizationTypes.OTHER.label; } }