forked from D-Net/dnet-hadoop
95 lines
2.7 KiB
Java
95 lines
2.7 KiB
Java
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package eu.dnetlib.dhp.blacklist;
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import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkHiveSession;
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import java.util.Optional;
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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.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.fasterxml.jackson.databind.ObjectMapper;
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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import eu.dnetlib.dhp.common.HdfsSupport;
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import eu.dnetlib.dhp.schema.oaf.Relation;
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public class PrepareMergedRelationJob {
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private static final Logger log = LoggerFactory.getLogger(PrepareMergedRelationJob.class);
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private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
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public static void main(String[] args) throws Exception {
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String jsonConfiguration = IOUtils
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.toString(
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PrepareMergedRelationJob.class
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.getResourceAsStream(
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"/eu/dnetlib/dhp/blacklist/input_preparerelation_parameters.json"));
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final ArgumentApplicationParser parser = new ArgumentApplicationParser(jsonConfiguration);
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parser.parseArgument(args);
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Boolean isSparkSessionManaged = Optional
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.ofNullable(parser.get("isSparkSessionManaged"))
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.map(Boolean::valueOf)
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.orElse(Boolean.TRUE);
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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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String outputPath = parser.get("outputPath");
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log.info("outputPath: {} ", outputPath);
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SparkConf conf = new SparkConf();
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conf.set("hive.metastore.uris", parser.get("hive_metastore_uris"));
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runWithSparkHiveSession(
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conf,
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isSparkSessionManaged,
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spark -> {
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removeOutputDir(spark, outputPath);
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selectMergesRelations(
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spark,
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inputPath,
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outputPath);
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});
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}
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private static void selectMergesRelations(SparkSession spark, String inputPath, String outputPath) {
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Dataset<Relation> relation = readRelations(spark, inputPath);
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relation
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.filter("relclass = 'merges' and datainfo.deletedbyinference=false")
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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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public static org.apache.spark.sql.Dataset<Relation> readRelations(
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SparkSession spark, String inputPath) {
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return spark
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.read()
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.textFile(inputPath)
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.map(
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(MapFunction<String, Relation>) value -> OBJECT_MAPPER.readValue(value, Relation.class),
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Encoders.bean(Relation.class));
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}
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private static void removeOutputDir(SparkSession spark, String path) {
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HdfsSupport.remove(path, spark.sparkContext().hadoopConfiguration());
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}
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}
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