91 lines
2.6 KiB
Java
91 lines
2.6 KiB
Java
|
|
package eu.dnetlib.dhp.oa.graph.dump.filterentities;
|
|
|
|
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
|
|
|
|
import java.io.Serializable;
|
|
import java.util.Optional;
|
|
|
|
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.sql.*;
|
|
import org.apache.spark.sql.functions.*;
|
|
import org.slf4j.Logger;
|
|
import org.slf4j.LoggerFactory;
|
|
|
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
|
import eu.dnetlib.dhp.oa.graph.dump.skgif.EmitFromEntities;
|
|
import eu.dnetlib.dhp.oa.graph.dump.skgif.Utils;
|
|
import eu.dnetlib.dhp.schema.common.ModelSupport;
|
|
import eu.dnetlib.dhp.schema.oaf.Result;
|
|
import scala.Tuple2;
|
|
|
|
/**
|
|
* @author miriam.baglioni
|
|
* @Date 20/03/24
|
|
*/
|
|
public class SelectEOSCEntities implements Serializable {
|
|
private static final Logger log = LoggerFactory.getLogger(SelectEOSCEntities.class);
|
|
|
|
public static void main(String[] args) throws Exception {
|
|
String jsonConfiguration = IOUtils
|
|
.toString(
|
|
FilterEntities.class
|
|
.getResourceAsStream(
|
|
"/eu/dnetlib/dhp/oa/graph/dump/skgif/eosc_entities_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 filterPath = parser.get("filterPath");
|
|
log.info("filterPath: {}", filterPath);
|
|
|
|
SparkConf conf = new SparkConf();
|
|
|
|
runWithSparkSession(
|
|
conf,
|
|
isSparkSessionManaged,
|
|
spark -> {
|
|
|
|
selectEntities(spark, inputPath, filterPath);
|
|
|
|
});
|
|
}
|
|
|
|
private static <R extends Result> void selectEntities(SparkSession spark, String inputPath, String filterPath) {
|
|
ModelSupport.entityTypes.keySet().forEach(e -> {
|
|
if (ModelSupport.isResult(e)) {
|
|
|
|
spark
|
|
.read()
|
|
.schema(Encoders.bean(Result.class).schema())
|
|
.json(inputPath + e.name())
|
|
.where("datainfo.deletedbyinference != true and datainfo.invisible != true")
|
|
.select("id", "context", "collectedfrom")
|
|
.where("array_contains(context.id,'eosc') or array_contains(collectedfrom.value,'B2FIND')")
|
|
.drop("context", "collectedfrom")
|
|
.distinct()
|
|
.write()
|
|
.mode(SaveMode.Overwrite)
|
|
.option("compression", "gzip")
|
|
.parquet(filterPath + e.name() + "_ids");
|
|
|
|
}
|
|
|
|
});
|
|
}
|
|
|
|
}
|