2020-04-01 18:41:29 +02:00
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package eu.dnetlib.dhp.actionmanager.partition;
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2020-04-18 12:42:58 +02:00
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import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
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import static org.apache.spark.sql.functions.*;
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2020-04-14 15:54:41 +02:00
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import eu.dnetlib.dhp.actionmanager.ISClient;
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2020-04-01 18:41:29 +02:00
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import eu.dnetlib.dhp.actionmanager.promote.PromoteActionPayloadForGraphTableJob;
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import eu.dnetlib.dhp.application.ArgumentApplicationParser;
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2020-04-18 12:42:58 +02:00
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import eu.dnetlib.dhp.common.HdfsSupport;
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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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2020-04-01 18:41:29 +02:00
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import org.apache.commons.io.IOUtils;
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import org.apache.hadoop.io.Text;
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import org.apache.spark.SparkConf;
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import org.apache.spark.api.java.JavaRDD;
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import org.apache.spark.api.java.JavaSparkContext;
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import org.apache.spark.sql.*;
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import org.apache.spark.sql.types.*;
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import org.slf4j.Logger;
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import org.slf4j.LoggerFactory;
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2020-04-18 12:42:58 +02:00
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/** Partitions given set of action sets by payload type. */
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2020-04-01 18:41:29 +02:00
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public class PartitionActionSetsByPayloadTypeJob {
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2020-04-27 14:45:40 +02:00
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private static final Logger logger =
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LoggerFactory.getLogger(PartitionActionSetsByPayloadTypeJob.class);
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private static final StructType KV_SCHEMA =
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StructType$.MODULE$.apply(
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Arrays.asList(
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StructField$.MODULE$.apply("key", DataTypes.StringType, false, Metadata.empty()),
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StructField$.MODULE$.apply("value", DataTypes.StringType, false, Metadata.empty())));
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private static final StructType ATOMIC_ACTION_SCHEMA =
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StructType$.MODULE$.apply(
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Arrays.asList(
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StructField$.MODULE$.apply("clazz", DataTypes.StringType, false, Metadata.empty()),
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StructField$.MODULE$.apply(
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"payload", DataTypes.StringType, false, Metadata.empty())));
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private ISClient isClient;
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public PartitionActionSetsByPayloadTypeJob(String isLookupUrl) {
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this.isClient = new ISClient(isLookupUrl);
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}
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public PartitionActionSetsByPayloadTypeJob() {}
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public static void main(String[] args) throws Exception {
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String jsonConfiguration =
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IOUtils.toString(
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PromoteActionPayloadForGraphTableJob.class.getResourceAsStream(
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"/eu/dnetlib/dhp/actionmanager/partition/partition_action_sets_by_payload_type_input_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 =
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Optional.ofNullable(parser.get("isSparkSessionManaged"))
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.map(Boolean::valueOf)
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.orElse(Boolean.TRUE);
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logger.info("isSparkSessionManaged: {}", isSparkSessionManaged);
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String inputActionSetIds = parser.get("inputActionSetIds");
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logger.info("inputActionSetIds: {}", inputActionSetIds);
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String outputPath = parser.get("outputPath");
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logger.info("outputPath: {}", outputPath);
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String isLookupUrl = parser.get("isLookupUrl");
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logger.info("isLookupUrl: {}", isLookupUrl);
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new PartitionActionSetsByPayloadTypeJob(isLookupUrl)
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.run(isSparkSessionManaged, inputActionSetIds, outputPath);
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}
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protected void run(Boolean isSparkSessionManaged, String inputActionSetIds, String outputPath) {
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List<String> inputActionSetPaths = getIsClient().getLatestRawsetPaths(inputActionSetIds);
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logger.info("inputActionSetPaths: {}", String.join(",", inputActionSetPaths));
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SparkConf conf = new SparkConf();
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conf.set("spark.serializer", "org.apache.spark.serializer.KryoSerializer");
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runWithSparkSession(
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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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readAndWriteActionSetsFromPaths(spark, inputActionSetPaths, outputPath);
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});
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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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private static void readAndWriteActionSetsFromPaths(
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SparkSession spark, List<String> inputActionSetPaths, String outputPath) {
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inputActionSetPaths.stream()
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.filter(path -> HdfsSupport.exists(path, spark.sparkContext().hadoopConfiguration()))
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.forEach(
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inputActionSetPath -> {
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Dataset<Row> actionDS = readActionSetFromPath(spark, inputActionSetPath);
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saveActions(actionDS, outputPath);
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});
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}
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private static Dataset<Row> readActionSetFromPath(SparkSession spark, String path) {
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logger.info("Reading actions from path: {}", path);
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JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
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JavaRDD<Row> rdd =
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sc.sequenceFile(path, Text.class, Text.class)
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.map(x -> RowFactory.create(x._1().toString(), x._2().toString()));
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return spark
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.createDataFrame(rdd, KV_SCHEMA)
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.withColumn("atomic_action", from_json(col("value"), ATOMIC_ACTION_SCHEMA))
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.select(expr("atomic_action.*"));
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}
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private static void saveActions(Dataset<Row> actionDS, String path) {
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logger.info("Saving actions to path: {}", path);
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actionDS.write().partitionBy("clazz").mode(SaveMode.Append).parquet(path);
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}
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public ISClient getIsClient() {
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return isClient;
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}
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public void setIsClient(ISClient isClient) {
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this.isClient = isClient;
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}
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2020-04-01 18:41:29 +02:00
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}
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