forked from D-Net/dnet-hadoop
91 lines
2.8 KiB
Java
91 lines
2.8 KiB
Java
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package eu.dnetlib.dhp.orcidtoresultfromsemrel;
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import static eu.dnetlib.dhp.PropagationConstant.*;
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import static eu.dnetlib.dhp.PropagationConstant.readPath;
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import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
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import java.io.Serializable;
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import java.util.ArrayList;
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import java.util.Arrays;
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import java.util.List;
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import java.util.Optional;
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import java.util.stream.Collectors;
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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.api.java.function.FilterFunction;
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import org.apache.spark.api.java.function.MapFunction;
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import org.apache.spark.sql.Dataset;
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import org.apache.spark.sql.Encoders;
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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.slf4j.Logger;
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import org.slf4j.LoggerFactory;
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import com.google.gson.Gson;
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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import eu.dnetlib.dhp.schema.oaf.Author;
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import eu.dnetlib.dhp.schema.oaf.Relation;
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import eu.dnetlib.dhp.schema.oaf.Result;
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import eu.dnetlib.dhp.schema.oaf.StructuredProperty;
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import scala.Tuple2;
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public class PrepareResultOrcidAssociationStep0 implements Serializable {
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private static final Logger log = LoggerFactory.getLogger(PrepareResultOrcidAssociationStep0.class);
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public static void main(String[] args) throws Exception {
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String jsonConf = IOUtils
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.toString(
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PrepareResultOrcidAssociationStep0.class
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.getResourceAsStream(
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"/eu/dnetlib/dhp/orcidtoresultfromsemrel/input_prepareorcidtoresult0_parameters.json"));
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final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConf);
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parser.parseArgument(args);
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Boolean isSparkSessionManaged = isSparkSessionManaged(parser);
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log.info("isSparkSessionManaged: {}", isSparkSessionManaged);
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String inputPath = parser.get("sourcePath");
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log.info("inputPath: {}", inputPath);
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final String outputPath = parser.get("outputPath");
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log.info("outputPath: {}", outputPath);
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final List<String> allowedsemrel = Arrays
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.stream(parser.get("allowedsemrels").split(";"))
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.map(s -> s.toLowerCase())
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.collect(Collectors.toList());
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log.info("allowedSemRel: {}", new Gson().toJson(allowedsemrel));
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SparkConf conf = new SparkConf();
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runWithSparkSession(
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conf,
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isSparkSessionManaged,
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spark -> {
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selectRelations(
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spark, inputPath, outputPath, allowedsemrel);
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});
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}
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private static void selectRelations(SparkSession spark, String inputPath, String outputPath,
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List<String> allowedsemrel) {
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readPath(spark, inputPath, Relation.class)
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.filter(
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(FilterFunction<Relation>) r -> !r.getDataInfo().getDeletedbyinference()
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&& allowedsemrel.contains(r.getRelClass().toLowerCase()))
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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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