forked from D-Net/dnet-hadoop
129 lines
3.9 KiB
Java
129 lines
3.9 KiB
Java
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package eu.dnetlib.dhp.countrypropagation;
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import static eu.dnetlib.dhp.PropagationConstant.*;
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import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkHiveSession;
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import java.util.ArrayList;
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import java.util.Set;
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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.hadoop.io.compress.GzipCodec;
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import org.apache.spark.SparkConf;
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import org.apache.spark.sql.*;
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import org.apache.spark.sql.Dataset;
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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.oaf.*;
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import scala.Tuple2;
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public class PrepareResultCountrySet {
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private static final Logger log = LoggerFactory.getLogger(PrepareResultCountrySet.class);
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private static final String RESULT_COUNTRYSET_QUERY = "SELECT id resultId, collect_set(country) countrySet "
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+ "FROM ( SELECT id, country "
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+ "FROM datasource_country JOIN cfhb ON cf = dataSourceId "
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+ "UNION ALL "
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+ "SELECT id, country FROM datasource_country "
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+ "JOIN cfhb ON hb = dataSourceId ) tmp "
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+ "GROUP BY id";
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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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PrepareResultCountrySet.class
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.getResourceAsStream(
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"/eu/dnetlib/dhp/countrypropagation/input_prepareresultcountry_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 = 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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String outputPath = parser.get("outputPath");
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log.info("outputPath: {}", outputPath);
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final String datasourcecountrypath = parser.get("preparedInfoPath");
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log.info("preparedInfoPath: {}", datasourcecountrypath);
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final String resultClassName = parser.get("resultTableName");
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log.info("resultTableName: {}", resultClassName);
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Class<? extends Result> resultClazz = (Class<? extends Result>) Class.forName(resultClassName);
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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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getPotentialResultToUpdate(
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spark,
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inputPath,
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outputPath,
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datasourcecountrypath,
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resultClazz);
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});
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}
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private static <R extends Result> void getPotentialResultToUpdate(
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SparkSession spark,
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String inputPath,
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String outputPath,
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String datasourcecountrypath,
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Class<R> resultClazz) {
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Dataset<R> result = readPath(spark, inputPath, resultClazz);
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result.createOrReplaceTempView("result");
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// log.info("number of results: {}", result.count());
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createCfHbforResult(spark);
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Dataset<DatasourceCountry> datasource_country = readPath(spark, datasourcecountrypath, DatasourceCountry.class);
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datasource_country.createOrReplaceTempView("datasource_country");
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// log.info("datasource_country number : {}", datasource_country.count());
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spark
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.sql(RESULT_COUNTRYSET_QUERY)
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.as(Encoders.bean(ResultCountrySet.class))
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.toJavaRDD()
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.mapToPair(value -> new Tuple2<>(value.getResultId(), value))
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.reduceByKey((a, b) -> {
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ArrayList<CountrySbs> countryList = a.getCountrySet();
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Set<String> countryCodes = countryList
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.stream()
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.map(country -> country.getClassid())
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.collect(Collectors.toSet());
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b
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.getCountrySet()
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.stream()
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.forEach(c -> {
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if (!countryCodes.contains(c.getClassid())) {
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countryList.add(c);
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countryCodes.add(c.getClassid());
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}
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});
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a.setCountrySet(countryList);
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return a;
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})
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.map(couple -> OBJECT_MAPPER.writeValueAsString(couple._2()))
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.saveAsTextFile(outputPath, GzipCodec.class);
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// .write()
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// .option("compression", "gzip")
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// .mode(SaveMode.Append)
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// .json(outputPath);
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}
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}
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