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[DUMP DELTA PROJECTS] refactoring

This commit is contained in:
Miriam Baglioni 2022-06-27 18:07:58 +02:00
parent 1d1fe3b151
commit 71744a1f52
1 changed files with 60 additions and 61 deletions
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119
dhp-workflows/dhp-graph-mapper/src/main/java/eu/dnetlib/dhp/oa/graph/dump/projectssubset/ProjectsSubsetSparkJob.java
View File

@ -1,80 +1,79 @@
package eu.dnetlib.dhp.oa.graph.dump.projectssubset;
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
import java.io.Serializable;
import java.util.List;
import java.util.Objects;
import java.util.Optional;
import java.util.stream.Collectors;
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.Dataset;
import org.apache.spark.sql.Encoders;
import org.apache.spark.sql.SaveMode;
import org.apache.spark.sql.SparkSession;
import org.jetbrains.annotations.NotNull;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
import eu.dnetlib.dhp.oa.graph.dump.Utils;
import eu.dnetlib.dhp.schema.dump.oaf.community.Funder;
import eu.dnetlib.dhp.schema.dump.oaf.graph.Project;
import scala.Tuple2;
public class ProjectsSubsetSparkJob implements Serializable {
private static final Logger log = LoggerFactory.getLogger(ProjectsSubsetSparkJob.class);
public static void main(String[] args) throws Exception {
String jsonConfiguration = IOUtils
.toString(
ProjectsSubsetSparkJob.class
.getResourceAsStream(
"/eu/dnetlib/dhp/oa/graph/dump/project_subset_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 outputPath = parser.get("outputPath");
log.info("outputPath: {}", outputPath);
final String projectListPath = parser.get("projectListPath");
log.info("projectListPath: {}", projectListPath);
SparkConf conf = new SparkConf();
runWithSparkSession(
conf,
isSparkSessionManaged,
spark -> {
Utils.removeOutputDir(spark, outputPath);
getNewProjectList(spark, inputPath, outputPath, projectListPath);
});
}
private static void getNewProjectList(SparkSession spark, String inputPath, String outputPath,
String projectListPath) {
Dataset<String> projectList = spark.read().textFile(projectListPath);
// projectList.show(false);
Dataset<Project> projects;
projects = Utils.readPath(spark, inputPath, Project.class);
projects
.joinWith(projectList, projects.col("id").equalTo(projectList.col("value")), "left")
.map((MapFunction<Tuple2<Project, String>, Project>) t2 -> {
if (Optional.ofNullable(t2._2()).isPresent())
return null;
return t2._1();
}, Encoders.bean(Project.class))
.filter(Objects::nonNull)
.write()
.mode(SaveMode.Overwrite)
.option("compression", "gzip")
.json(outputPath);
Utils
.readPath(spark, outputPath, Project.class)
.map((MapFunction<Project, String>) p -> p.getId(), Encoders.STRING())
.write()
.mode(SaveMode.Append)
.option("compression", "gzip")
.text(projectListPath);
}
private static final Logger log = LoggerFactory.getLogger(ProjectsSubsetSparkJob.class);
public static void main(String[] args) throws Exception {
String jsonConfiguration = IOUtils
.toString(
ProjectsSubsetSparkJob.class
.getResourceAsStream(
"/eu/dnetlib/dhp/oa/graph/dump/project_subset_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 outputPath = parser.get("outputPath");
log.info("outputPath: {}", outputPath);
final String projectListPath = parser.get("projectListPath");
log.info("projectListPath: {}", projectListPath);
SparkConf conf = new SparkConf();
runWithSparkSession(
conf,
isSparkSessionManaged,
spark -> {
Utils.removeOutputDir(spark, outputPath);
getNewProjectList(spark, inputPath, outputPath, projectListPath);
});
}
private static void getNewProjectList(SparkSession spark, String inputPath, String outputPath,
String projectListPath) {
Dataset<String> projectList = spark.read().textFile(projectListPath);
Dataset<Project> projects;
projects = Utils.readPath(spark, inputPath, Project.class);
projects
.joinWith(projectList, projects.col("id").equalTo(projectList.col("value")), "left")
.map((MapFunction<Tuple2<Project, String>, Project>) t2 -> {
if (Optional.ofNullable(t2._2()).isPresent())
return null;
return t2._1();
}, Encoders.bean(Project.class))
.filter(Objects::nonNull)
.write()
.mode(SaveMode.Overwrite)
.option("compression", "gzip")
.json(outputPath);
Utils
.readPath(spark, outputPath, Project.class)
.map((MapFunction<Project, String>) p -> p.getId(), Encoders.STRING())
.write()
.mode(SaveMode.Append)
.option("compression", "gzip")
.text(projectListPath);
}
}