274 lines
8.6 KiB
Java
274 lines
8.6 KiB
Java
|
|
package eu.dnetlib.dhp.resulttoorganizationfrominstrepo;
|
|
|
|
import java.io.IOException;
|
|
import java.nio.file.Files;
|
|
import java.nio.file.Path;
|
|
|
|
import org.apache.commons.io.FileUtils;
|
|
import org.apache.spark.SparkConf;
|
|
import org.apache.spark.api.java.JavaRDD;
|
|
import org.apache.spark.api.java.JavaSparkContext;
|
|
import org.apache.spark.sql.Dataset;
|
|
import org.apache.spark.sql.Encoders;
|
|
import org.apache.spark.sql.SparkSession;
|
|
import org.junit.jupiter.api.AfterAll;
|
|
import org.junit.jupiter.api.Assertions;
|
|
import org.junit.jupiter.api.BeforeAll;
|
|
import org.junit.jupiter.api.Test;
|
|
import org.slf4j.Logger;
|
|
import org.slf4j.LoggerFactory;
|
|
|
|
import com.fasterxml.jackson.databind.ObjectMapper;
|
|
|
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
|
|
|
public class ResultToOrganizationJobTest {
|
|
|
|
private static final Logger log = LoggerFactory.getLogger(ResultToOrganizationJobTest.class);
|
|
|
|
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
|
|
|
|
private static SparkSession spark;
|
|
|
|
private static Path workingDir;
|
|
|
|
@BeforeAll
|
|
public static void beforeAll() throws IOException {
|
|
workingDir = Files.createTempDirectory(SparkResultToOrganizationFromIstRepoJob.class.getSimpleName());
|
|
log.info("using work dir {}", workingDir);
|
|
|
|
SparkConf conf = new SparkConf();
|
|
conf.setAppName(SparkResultToOrganizationFromIstRepoJob.class.getSimpleName());
|
|
|
|
conf.setMaster("local[*]");
|
|
conf.set("spark.driver.host", "localhost");
|
|
conf.set("hive.metastore.local", "true");
|
|
conf.set("spark.ui.enabled", "false");
|
|
conf.set("spark.sql.warehouse.dir", workingDir.toString());
|
|
conf.set("hive.metastore.warehouse.dir", workingDir.resolve("warehouse").toString());
|
|
|
|
spark = SparkSession
|
|
.builder()
|
|
.appName(SparkResultToOrganizationFromIstRepoJob.class.getSimpleName())
|
|
.config(conf)
|
|
.getOrCreate();
|
|
}
|
|
|
|
@AfterAll
|
|
public static void afterAll() throws IOException {
|
|
FileUtils.deleteDirectory(workingDir.toFile());
|
|
spark.stop();
|
|
}
|
|
|
|
/**
|
|
* No modifications done to the sample sets, so that no possible updates are created
|
|
*
|
|
* @throws Exception
|
|
*/
|
|
@Test
|
|
void NoUpdateTest() throws Exception {
|
|
final String sourcePath = getClass()
|
|
.getResource("/eu/dnetlib/dhp/resulttoorganizationfrominstrepo/sample/noupdate_updatenomix")
|
|
.getPath();
|
|
final String datasourceOrganizationPath = getClass()
|
|
.getResource(
|
|
"/eu/dnetlib/dhp/resulttoorganizationfrominstrepo/noupdate/preparedInfo/datasourceOrganization")
|
|
.getPath();
|
|
final String alreadyLinkedPath = getClass()
|
|
.getResource("/eu/dnetlib/dhp/resulttoorganizationfrominstrepo/noupdate/preparedInfo/alreadyLinked")
|
|
.getPath();
|
|
SparkResultToOrganizationFromIstRepoJob
|
|
.main(
|
|
new String[] {
|
|
"-isTest", Boolean.TRUE.toString(),
|
|
"-isSparkSessionManaged", Boolean.FALSE.toString(),
|
|
"-sourcePath", sourcePath,
|
|
"-hive_metastore_uris", "",
|
|
"-resultTableName", "eu.dnetlib.dhp.schema.oaf.Software",
|
|
"-saveGraph", "true",
|
|
"-outputPath", workingDir.toString() + "/relation",
|
|
"-datasourceOrganizationPath", datasourceOrganizationPath,
|
|
"-alreadyLinkedPath", alreadyLinkedPath,
|
|
});
|
|
|
|
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
|
|
|
|
JavaRDD<Relation> tmp = sc
|
|
.textFile(workingDir.toString() + "/relation")
|
|
.map(item -> OBJECT_MAPPER.readValue(item, Relation.class));
|
|
|
|
Assertions.assertEquals(0, tmp.count());
|
|
FileUtils.deleteDirectory(workingDir.toFile());
|
|
}
|
|
|
|
/**
|
|
* Testing set with modified association between datasource and organization. Copied some hostedby collectedfrom
|
|
* from the software sample set. No intersection with the already linked (all the possible new relations, will
|
|
* became new relations)
|
|
*
|
|
* @throws Exception
|
|
*/
|
|
@Test
|
|
void UpdateNoMixTest() throws Exception {
|
|
final String sourcePath = getClass()
|
|
.getResource("/eu/dnetlib/dhp/resulttoorganizationfrominstrepo/sample/noupdate_updatenomix")
|
|
.getPath();
|
|
final String datasourceOrganizationPath = getClass()
|
|
.getResource(
|
|
"/eu/dnetlib/dhp/resulttoorganizationfrominstrepo/updatenomix/preparedInfo/datasourceOrganization")
|
|
.getPath();
|
|
final String alreadyLinkedPath = getClass()
|
|
.getResource("/eu/dnetlib/dhp/resulttoorganizationfrominstrepo/updatenomix/preparedInfo/alreadyLinked")
|
|
.getPath();
|
|
SparkResultToOrganizationFromIstRepoJob
|
|
.main(
|
|
new String[] {
|
|
"-isTest", Boolean.TRUE.toString(),
|
|
"-isSparkSessionManaged", Boolean.FALSE.toString(),
|
|
"-sourcePath", sourcePath,
|
|
"-hive_metastore_uris", "",
|
|
"-resultTableName", "eu.dnetlib.dhp.schema.oaf.Software",
|
|
"-saveGraph", "true",
|
|
"-outputPath", workingDir.toString() + "/relation",
|
|
"-datasourceOrganizationPath", datasourceOrganizationPath,
|
|
"-alreadyLinkedPath", alreadyLinkedPath,
|
|
});
|
|
|
|
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
|
|
|
|
JavaRDD<Relation> tmp = sc
|
|
.textFile(workingDir.toString() + "/relation")
|
|
.map(item -> OBJECT_MAPPER.readValue(item, Relation.class));
|
|
|
|
Assertions.assertEquals(20, tmp.count());
|
|
|
|
Dataset<Relation> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(Relation.class));
|
|
Assertions
|
|
.assertEquals(
|
|
8,
|
|
verificationDs
|
|
.filter("target = '20|dedup_wf_001::5168917a6aeeea55269daeac1af2ecd2'")
|
|
.count());
|
|
Assertions
|
|
.assertEquals(
|
|
1,
|
|
verificationDs
|
|
.filter("target = '20|opendoar____::124266ebc4ece2934eb80edfda3f2091'")
|
|
.count());
|
|
Assertions
|
|
.assertEquals(
|
|
1,
|
|
verificationDs
|
|
.filter("target = '20|opendoar____::4429502fa1936b0941f4647b69b844c8'")
|
|
.count());
|
|
|
|
Assertions
|
|
.assertEquals(
|
|
2,
|
|
verificationDs
|
|
.filter(
|
|
"source = '50|dedup_wf_001::b67bc915603fc01e445f2b5888ba7218' and "
|
|
+ "(target = '20|opendoar____::124266ebc4ece2934eb80edfda3f2091' "
|
|
+ "or target = '20|dedup_wf_001::5168917a6aeeea55269daeac1af2ecd2')")
|
|
.count());
|
|
FileUtils.deleteDirectory(workingDir.toFile());
|
|
}
|
|
|
|
@Test
|
|
void UpdateMixTest() throws Exception {
|
|
final String sourcePath = getClass()
|
|
.getResource("/eu/dnetlib/dhp/resulttoorganizationfrominstrepo/sample/updatemix")
|
|
.getPath();
|
|
final String datasourceOrganizationPath = getClass()
|
|
.getResource(
|
|
"/eu/dnetlib/dhp/resulttoorganizationfrominstrepo/updatemix/preparedInfo/datasourceOrganization")
|
|
.getPath();
|
|
final String alreadyLinkedPath = getClass()
|
|
.getResource("/eu/dnetlib/dhp/resulttoorganizationfrominstrepo/updatemix/preparedInfo/alreadyLinked")
|
|
.getPath();
|
|
SparkResultToOrganizationFromIstRepoJob
|
|
.main(
|
|
new String[] {
|
|
"-isTest", Boolean.TRUE.toString(),
|
|
"-isSparkSessionManaged", Boolean.FALSE.toString(),
|
|
"-sourcePath", sourcePath,
|
|
"-hive_metastore_uris", "",
|
|
"-resultTableName", "eu.dnetlib.dhp.schema.oaf.Software",
|
|
"-saveGraph", "true",
|
|
"-outputPath", workingDir.toString() + "/relation",
|
|
"-datasourceOrganizationPath", datasourceOrganizationPath,
|
|
"-alreadyLinkedPath", alreadyLinkedPath,
|
|
});
|
|
|
|
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
|
|
|
|
JavaRDD<Relation> tmp = sc
|
|
.textFile(workingDir.toString() + "/relation")
|
|
.map(item -> OBJECT_MAPPER.readValue(item, Relation.class));
|
|
|
|
Dataset<Relation> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(Relation.class));
|
|
|
|
Assertions.assertEquals(8, verificationDs.count());
|
|
|
|
Assertions
|
|
.assertEquals(
|
|
2,
|
|
verificationDs
|
|
.filter("source = '50|od_______109::f375befa62a741e9250e55bcfa88f9a6'")
|
|
.count());
|
|
Assertions
|
|
.assertEquals(
|
|
1,
|
|
verificationDs
|
|
.filter("source = '50|dedup_wf_001::b67bc915603fc01e445f2b5888ba7218'")
|
|
.count());
|
|
Assertions
|
|
.assertEquals(
|
|
1,
|
|
verificationDs
|
|
.filter("source = '50|dedup_wf_001::40ea2f24181f6ae77b866ebcbffba523'")
|
|
.count());
|
|
|
|
Assertions
|
|
.assertEquals(
|
|
1,
|
|
verificationDs
|
|
.filter("source = '20|wt__________::a72760363ca885e6bef165804770e00c'")
|
|
.count());
|
|
|
|
Assertions
|
|
.assertEquals(
|
|
4,
|
|
verificationDs
|
|
.filter(
|
|
"relclass = 'hasAuthorInstitution' and substring(source, 1,2) = '50'")
|
|
.count());
|
|
Assertions
|
|
.assertEquals(
|
|
4,
|
|
verificationDs
|
|
.filter(
|
|
"relclass = 'isAuthorInstitutionOf' and substring(source, 1,2) = '20'")
|
|
.count());
|
|
|
|
Assertions
|
|
.assertEquals(
|
|
4,
|
|
verificationDs
|
|
.filter(
|
|
"relclass = 'hasAuthorInstitution' and "
|
|
+ "substring(source, 1,2) = '50' and substring(target, 1, 2) = '20'")
|
|
.count());
|
|
Assertions
|
|
.assertEquals(
|
|
4,
|
|
verificationDs
|
|
.filter(
|
|
"relclass = 'isAuthorInstitutionOf' and "
|
|
+ "substring(source, 1,2) = '20' and substring(target, 1, 2) = '50'")
|
|
.count());
|
|
FileUtils.deleteDirectory(workingDir.toFile());
|
|
}
|
|
}
|