324 lines
12 KiB
Java
324 lines
12 KiB
Java
|
|
package eu.dnetlib.dhp.resulttoorganizationfromsemrel;
|
|
|
|
import com.fasterxml.jackson.databind.ObjectMapper;
|
|
import eu.dnetlib.dhp.KeyValueSet;
|
|
import eu.dnetlib.dhp.projecttoresult.SparkResultToProjectThroughSemRelJob;
|
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
|
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.api.java.function.FilterFunction;
|
|
import org.apache.spark.api.java.function.ForeachFunction;
|
|
import org.apache.spark.sql.Dataset;
|
|
import org.apache.spark.sql.Encoders;
|
|
import org.apache.spark.sql.Row;
|
|
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 java.io.IOException;
|
|
import java.nio.file.Files;
|
|
import java.nio.file.Path;
|
|
import java.util.List;
|
|
|
|
public class PrepareInfoJobTest {
|
|
|
|
private static final Logger log = LoggerFactory.getLogger(PrepareInfoJobTest.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(PrepareInfoJobTest.class.getSimpleName());
|
|
log.info("using work dir {}", workingDir);
|
|
|
|
SparkConf conf = new SparkConf();
|
|
conf.setAppName(PrepareInfoJobTest.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(PrepareInfoJobTest.class.getSimpleName())
|
|
.config(conf)
|
|
.getOrCreate();
|
|
}
|
|
|
|
@AfterAll
|
|
public static void afterAll() throws IOException {
|
|
FileUtils.deleteDirectory(workingDir.toFile());
|
|
spark.stop();
|
|
}
|
|
|
|
|
|
@Test
|
|
public void childParentTest1() {
|
|
|
|
PrepareInfo.prepareChildrenParent(spark, getClass()
|
|
.getResource(
|
|
"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/childparenttest1")
|
|
.getPath(), workingDir.toString() + "/childParentOrg/");
|
|
|
|
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
|
|
|
|
JavaRDD<KeyValueSet> tmp = sc
|
|
.textFile( workingDir.toString() + "/childParentOrg/")
|
|
.map(item -> OBJECT_MAPPER.readValue(item, KeyValueSet.class));
|
|
|
|
Dataset<KeyValueSet> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(KeyValueSet.class));
|
|
|
|
Assertions.assertEquals(6, verificationDs.count());
|
|
|
|
Assertions.assertEquals(1, verificationDs.filter("key = '20|dedup_wf_001::2899e571609779168222fdeb59cb916d'")
|
|
.collectAsList().get(0).getValueSet().size());
|
|
Assertions.assertEquals("20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f",
|
|
verificationDs.filter("key = '20|dedup_wf_001::2899e571609779168222fdeb59cb916d'")
|
|
.collectAsList().get(0).getValueSet().get(0));
|
|
|
|
Assertions.assertEquals(2, verificationDs.filter("key = '20|pippo_wf_001::2899e571609779168222fdeb59cb916d'")
|
|
.collectAsList().get(0).getValueSet().size());
|
|
Assertions.assertTrue(verificationDs.filter("key = '20|pippo_wf_001::2899e571609779168222fdeb59cb916d'")
|
|
.collectAsList().get(0).getValueSet().contains("20|dedup_wf_001::2899e571609779168222fdeb59cb916d"));
|
|
Assertions.assertTrue(verificationDs.filter("key = '20|pippo_wf_001::2899e571609779168222fdeb59cb916d'")
|
|
.collectAsList().get(0).getValueSet().contains("20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f"));
|
|
|
|
Assertions.assertEquals(1, verificationDs.filter("key = '20|doajarticles::396262ee936f3d3e26ff0e60bea6cae0'")
|
|
.collectAsList().get(0).getValueSet().size());
|
|
Assertions.assertTrue(verificationDs.filter("key = '20|doajarticles::396262ee936f3d3e26ff0e60bea6cae0'")
|
|
.collectAsList().get(0).getValueSet().contains("20|dedup_wf_001::2899e571609779168222fdeb59cb916d"));
|
|
|
|
Assertions.assertEquals(1, verificationDs.filter("key = '20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
|
|
.collectAsList().get(0).getValueSet().size());
|
|
Assertions.assertTrue(verificationDs.filter("key = '20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
|
|
.collectAsList().get(0).getValueSet().contains("20|doajarticles::03748bcb5d754c951efec9700e18a56d"));
|
|
|
|
Assertions.assertEquals(1, verificationDs.filter("key = '20|doajarticles::1cae0b82b56ccd97c2db1f698def7074'")
|
|
.collectAsList().get(0).getValueSet().size());
|
|
Assertions.assertTrue(verificationDs.filter("key = '20|doajarticles::1cae0b82b56ccd97c2db1f698def7074'")
|
|
.collectAsList().get(0).getValueSet().contains("20|openaire____::ec653e804967133b9436fdd30d3ff51d"));
|
|
|
|
Assertions.assertEquals(1, verificationDs.filter("key = '20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
|
|
.collectAsList().get(0).getValueSet().size());
|
|
Assertions.assertTrue(verificationDs.filter("key = '20|opendoar____::a5fcb8eb25ebd6f7cd219e0fa1e6ddc1'")
|
|
.collectAsList().get(0).getValueSet().contains("20|doajarticles::1cae0b82b56ccd97c2db1f698def7074"));
|
|
|
|
}
|
|
|
|
|
|
|
|
@Test
|
|
public void childParentTest2() {
|
|
|
|
PrepareInfo.prepareChildrenParent(spark, getClass()
|
|
.getResource(
|
|
"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/childparenttest2")
|
|
.getPath(), workingDir.toString() + "/childParentOrg/");
|
|
|
|
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
|
|
|
|
JavaRDD<KeyValueSet> tmp = sc
|
|
.textFile( workingDir.toString() + "/childParentOrg/")
|
|
.map(item -> OBJECT_MAPPER.readValue(item, KeyValueSet.class));
|
|
|
|
Dataset<KeyValueSet> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(KeyValueSet.class));
|
|
|
|
Assertions.assertEquals(5, verificationDs.count());
|
|
|
|
Assertions.assertEquals(0, verificationDs.filter("key = '20|dedup_wf_001::2899e571609779168222fdeb59cb916d'").count());
|
|
|
|
Assertions.assertEquals(1, verificationDs.filter("key = '20|pippo_wf_001::2899e571609779168222fdeb59cb916d'")
|
|
.collectAsList().get(0).getValueSet().size());
|
|
Assertions.assertEquals("20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f",
|
|
verificationDs.filter("key = '20|pippo_wf_001::2899e571609779168222fdeb59cb916d'")
|
|
.collectAsList().get(0).getValueSet().get(0));
|
|
|
|
Assertions.assertEquals(1, verificationDs.filter("key = '20|doajarticles::396262ee936f3d3e26ff0e60bea6cae0'")
|
|
.collectAsList().get(0).getValueSet().size());
|
|
Assertions.assertTrue(verificationDs.filter("key = '20|doajarticles::396262ee936f3d3e26ff0e60bea6cae0'")
|
|
.collectAsList().get(0).getValueSet().contains("20|dedup_wf_001::2899e571609779168222fdeb59cb916d"));
|
|
|
|
Assertions.assertEquals(1, verificationDs.filter("key = '20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
|
|
.collectAsList().get(0).getValueSet().size());
|
|
Assertions.assertTrue(verificationDs.filter("key = '20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
|
|
.collectAsList().get(0).getValueSet().contains("20|doajarticles::03748bcb5d754c951efec9700e18a56d"));
|
|
|
|
Assertions.assertEquals(1, verificationDs.filter("key = '20|doajarticles::1cae0b82b56ccd97c2db1f698def7074'")
|
|
.collectAsList().get(0).getValueSet().size());
|
|
Assertions.assertTrue(verificationDs.filter("key = '20|doajarticles::1cae0b82b56ccd97c2db1f698def7074'")
|
|
.collectAsList().get(0).getValueSet().contains("20|openaire____::ec653e804967133b9436fdd30d3ff51d"));
|
|
|
|
Assertions.assertEquals(1, verificationDs.filter("key = '20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
|
|
.collectAsList().get(0).getValueSet().size());
|
|
Assertions.assertTrue(verificationDs.filter("key = '20|opendoar____::a5fcb8eb25ebd6f7cd219e0fa1e6ddc1'")
|
|
.collectAsList().get(0).getValueSet().contains("20|doajarticles::1cae0b82b56ccd97c2db1f698def7074"));
|
|
|
|
}
|
|
|
|
|
|
@Test
|
|
public void resultOrganizationTest1(){
|
|
|
|
}
|
|
|
|
/**
|
|
* All the possible updates will produce a new relation. No relations are already linked in the grpha
|
|
*
|
|
* @throws Exception
|
|
*/
|
|
@Test
|
|
void UpdateTenTest() throws Exception {
|
|
final String potentialUpdatePath = getClass()
|
|
.getResource(
|
|
"/eu/dnetlib/dhp/projecttoresult/preparedInfo/tenupdates/potentialUpdates")
|
|
.getPath();
|
|
final String alreadyLinkedPath = getClass()
|
|
.getResource(
|
|
"/eu/dnetlib/dhp/projecttoresult/preparedInfo/alreadyLinked")
|
|
.getPath();
|
|
SparkResultToProjectThroughSemRelJob
|
|
.main(
|
|
new String[] {
|
|
"-isTest", Boolean.TRUE.toString(),
|
|
"-isSparkSessionManaged", Boolean.FALSE.toString(),
|
|
"-hive_metastore_uris", "",
|
|
"-saveGraph", "true",
|
|
"-outputPath", workingDir.toString() + "/relation",
|
|
"-potentialUpdatePath", potentialUpdatePath,
|
|
"-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));
|
|
|
|
// got 20 new relations because "produces" and "isProducedBy" are added
|
|
Assertions.assertEquals(10, tmp.count());
|
|
|
|
Dataset<Relation> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(Relation.class));
|
|
|
|
Assertions.assertEquals(5, verificationDs.filter("relClass = 'produces'").count());
|
|
Assertions.assertEquals(5, verificationDs.filter("relClass = 'isProducedBy'").count());
|
|
|
|
Assertions
|
|
.assertEquals(
|
|
5,
|
|
verificationDs
|
|
.filter(
|
|
(FilterFunction<Relation>) r -> r.getSource().startsWith("50")
|
|
&& r.getTarget().startsWith("40")
|
|
&& r.getRelClass().equals("isProducedBy"))
|
|
.count());
|
|
Assertions
|
|
.assertEquals(
|
|
5,
|
|
verificationDs
|
|
.filter(
|
|
(FilterFunction<Relation>) r -> r.getSource().startsWith("40")
|
|
&& r.getTarget().startsWith("50")
|
|
&& r.getRelClass().equals("produces"))
|
|
.count());
|
|
|
|
verificationDs.createOrReplaceTempView("temporary");
|
|
|
|
Assertions
|
|
.assertEquals(
|
|
10,
|
|
spark
|
|
.sql(
|
|
"Select * from temporary where datainfo.inferenceprovenance = 'propagation'")
|
|
.count());
|
|
}
|
|
|
|
/**
|
|
* One of the relations in the possible updates is already linked to the project in the graph. All the others are
|
|
* not. There will be 9 new associations leading to 18 new relations
|
|
*
|
|
* @throws Exception
|
|
*/
|
|
@Test
|
|
void UpdateMixTest() throws Exception {
|
|
final String potentialUpdatepath = getClass()
|
|
.getResource(
|
|
"/eu/dnetlib/dhp/projecttoresult/preparedInfo/updatesmixed/potentialUpdates")
|
|
.getPath();
|
|
final String alreadyLinkedPath = getClass()
|
|
.getResource(
|
|
"/eu/dnetlib/dhp/projecttoresult/preparedInfo/alreadyLinked")
|
|
.getPath();
|
|
SparkResultToProjectThroughSemRelJob
|
|
.main(
|
|
new String[] {
|
|
"-isTest", Boolean.TRUE.toString(),
|
|
"-isSparkSessionManaged", Boolean.FALSE.toString(),
|
|
"-hive_metastore_uris", "",
|
|
"-saveGraph", "true",
|
|
"-outputPath", workingDir.toString() + "/relation",
|
|
"-potentialUpdatePath", potentialUpdatepath,
|
|
"-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));
|
|
|
|
// JavaRDD<Relation> tmp = sc.textFile("/tmp/relation")
|
|
// .map(item -> OBJECT_MAPPER.readValue(item, Relation.class));
|
|
|
|
// got 20 new relations because "produces" and "isProducedBy" are added
|
|
Assertions.assertEquals(8, tmp.count());
|
|
|
|
Dataset<Relation> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(Relation.class));
|
|
|
|
Assertions.assertEquals(4, verificationDs.filter("relClass = 'produces'").count());
|
|
Assertions.assertEquals(4, verificationDs.filter("relClass = 'isProducedBy'").count());
|
|
|
|
Assertions
|
|
.assertEquals(
|
|
4,
|
|
verificationDs
|
|
.filter(
|
|
(FilterFunction<Relation>) r -> r.getSource().startsWith("50")
|
|
&& r.getTarget().startsWith("40")
|
|
&& r.getRelClass().equals("isProducedBy"))
|
|
.count());
|
|
Assertions
|
|
.assertEquals(
|
|
4,
|
|
verificationDs
|
|
.filter(
|
|
(FilterFunction<Relation>) r -> r.getSource().startsWith("40")
|
|
&& r.getTarget().startsWith("50")
|
|
&& r.getRelClass().equals("produces"))
|
|
.count());
|
|
|
|
verificationDs.createOrReplaceTempView("temporary");
|
|
|
|
Assertions
|
|
.assertEquals(
|
|
8,
|
|
spark
|
|
.sql(
|
|
"Select * from temporary where datainfo.inferenceprovenance = 'propagation'")
|
|
.count());
|
|
}
|
|
}
|