2020-05-18 13:04:06 +02:00
|
|
|
|
|
|
|
package eu.dnetlib.dhp.actionmanager.project;
|
|
|
|
|
|
|
|
import static eu.dnetlib.dhp.common.SparkSessionSupport.runWithSparkSession;
|
|
|
|
|
2020-05-19 18:42:50 +02:00
|
|
|
import java.util.Arrays;
|
|
|
|
import java.util.HashMap;
|
2020-05-18 13:04:06 +02:00
|
|
|
import java.util.Optional;
|
|
|
|
|
|
|
|
import org.apache.commons.io.IOUtils;
|
|
|
|
import org.apache.spark.SparkConf;
|
2020-05-19 18:42:50 +02:00
|
|
|
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;
|
2020-05-18 13:04:06 +02:00
|
|
|
import org.apache.spark.sql.SparkSession;
|
|
|
|
import org.slf4j.Logger;
|
|
|
|
import org.slf4j.LoggerFactory;
|
|
|
|
|
|
|
|
import com.fasterxml.jackson.databind.ObjectMapper;
|
|
|
|
|
2020-05-19 18:42:50 +02:00
|
|
|
import eu.dnetlib.dhp.actionmanager.project.csvutils.CSVProgramme;
|
|
|
|
import eu.dnetlib.dhp.actionmanager.project.csvutils.CSVProject;
|
2020-05-18 13:04:06 +02:00
|
|
|
import eu.dnetlib.dhp.application.ArgumentApplicationParser;
|
|
|
|
import eu.dnetlib.dhp.common.HdfsSupport;
|
2020-05-19 18:42:50 +02:00
|
|
|
import eu.dnetlib.dhp.schema.common.ModelSupport;
|
|
|
|
import eu.dnetlib.dhp.schema.oaf.Programme;
|
|
|
|
import eu.dnetlib.dhp.schema.oaf.Project;
|
|
|
|
import eu.dnetlib.dhp.utils.DHPUtils;
|
2020-05-18 13:04:06 +02:00
|
|
|
|
|
|
|
public class SparkAtomicActionJob {
|
|
|
|
private static final Logger log = LoggerFactory.getLogger(SparkAtomicActionJob.class);
|
|
|
|
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
|
2020-05-19 18:42:50 +02:00
|
|
|
private static final HashMap<String, String> programmeMap = new HashMap<>();
|
2020-05-18 13:04:06 +02:00
|
|
|
|
|
|
|
public static void main(String[] args) throws Exception {
|
|
|
|
|
|
|
|
String jsonConfiguration = IOUtils
|
|
|
|
.toString(
|
|
|
|
SparkAtomicActionJob.class
|
|
|
|
.getResourceAsStream(
|
|
|
|
"/eu/dnetlib/dhp/actionmanager/project/action_set_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);
|
|
|
|
|
|
|
|
String projectPath = parser.get("projectPath");
|
|
|
|
log.info("projectPath: {}", projectPath);
|
|
|
|
|
|
|
|
final String outputPath = parser.get("outputPath");
|
|
|
|
log.info("outputPath {}: ", outputPath);
|
|
|
|
|
|
|
|
final String programmePath = parser.get("programmePath");
|
|
|
|
log.info("programmePath {}: ", programmePath);
|
|
|
|
|
|
|
|
SparkConf conf = new SparkConf();
|
|
|
|
|
|
|
|
runWithSparkSession(
|
|
|
|
conf,
|
|
|
|
isSparkSessionManaged,
|
|
|
|
spark -> {
|
|
|
|
removeOutputDir(spark, outputPath);
|
|
|
|
getAtomicActions(
|
|
|
|
spark,
|
|
|
|
projectPath,
|
|
|
|
programmePath,
|
|
|
|
outputPath);
|
|
|
|
});
|
|
|
|
}
|
|
|
|
|
|
|
|
private static void removeOutputDir(SparkSession spark, String path) {
|
|
|
|
HdfsSupport.remove(path, spark.sparkContext().hadoopConfiguration());
|
|
|
|
}
|
|
|
|
|
2020-05-19 18:42:50 +02:00
|
|
|
private static void getAtomicActions(SparkSession spark, String projectPatH,
|
|
|
|
String programmePath,
|
2020-05-18 13:04:06 +02:00
|
|
|
String outputPath) {
|
|
|
|
|
2020-05-19 18:42:50 +02:00
|
|
|
Dataset<CSVProject> project = readPath(spark, projectPatH, CSVProject.class);
|
|
|
|
Dataset<CSVProgramme> programme = readPath(spark, programmePath, CSVProgramme.class);
|
|
|
|
|
|
|
|
project
|
|
|
|
.joinWith(programme, project.col("programme").equalTo(programme.col("code")), "left")
|
|
|
|
.map(c -> {
|
|
|
|
CSVProject csvProject = c._1();
|
|
|
|
Optional<CSVProgramme> csvProgramme = Optional.ofNullable(c._2());
|
|
|
|
if (csvProgramme.isPresent()) {
|
|
|
|
Project p = new Project();
|
|
|
|
p
|
|
|
|
.setId(
|
|
|
|
createOpenaireId(
|
|
|
|
ModelSupport.entityIdPrefix.get("project"),
|
|
|
|
"corda__h2020", csvProject.getId()));
|
|
|
|
Programme pm = new Programme();
|
|
|
|
pm.setCode(csvProject.getProgramme());
|
|
|
|
pm.setDescription(csvProgramme.get().getShortTitle());
|
|
|
|
p.setProgramme(Arrays.asList(pm));
|
|
|
|
return p;
|
|
|
|
}
|
|
|
|
|
|
|
|
return null;
|
|
|
|
}, Encoders.bean(Project.class))
|
|
|
|
.filter(p -> !(p == null))
|
|
|
|
// .map(p -> new AtomicAction<>(Project.class, p), Encoders.bean(AtomicAction.class))
|
|
|
|
.write()
|
|
|
|
.option("compression", "gzip")
|
|
|
|
.mode(SaveMode.Overwrite)
|
|
|
|
.json(outputPath);
|
|
|
|
}
|
|
|
|
|
|
|
|
public static <R> Dataset<R> readPath(
|
|
|
|
SparkSession spark, String inputPath, Class<R> clazz) {
|
|
|
|
return spark
|
|
|
|
.read()
|
|
|
|
.textFile(inputPath)
|
|
|
|
.map((MapFunction<String, R>) value -> OBJECT_MAPPER.readValue(value, clazz), Encoders.bean(clazz));
|
|
|
|
}
|
|
|
|
|
|
|
|
public static String createOpenaireId(
|
|
|
|
final String prefix, final String nsPrefix, final String id) {
|
|
|
|
|
|
|
|
return String.format("%s|%s::%s", prefix, nsPrefix, DHPUtils.md5(id));
|
|
|
|
|
2020-05-18 13:04:06 +02:00
|
|
|
}
|
|
|
|
}
|