579 lines
17 KiB
Java
579 lines
17 KiB
Java
|
|
package eu.dnetlib.dhp.resulttoorganizationfromsemrel;
|
|
|
|
import static eu.dnetlib.dhp.PropagationConstant.readPath;
|
|
|
|
import java.io.IOException;
|
|
import java.nio.file.Files;
|
|
import java.nio.file.Path;
|
|
import java.util.List;
|
|
|
|
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 com.fasterxml.jackson.databind.ObjectMapper;
|
|
|
|
import eu.dnetlib.dhp.KeyValueSet;
|
|
import eu.dnetlib.dhp.projecttoresult.SparkResultToProjectThroughSemRelJob;
|
|
import eu.dnetlib.dhp.schema.oaf.Relation;
|
|
|
|
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() throws Exception {
|
|
|
|
PrepareInfo
|
|
.main(
|
|
new String[] {
|
|
"-isSparkSessionManaged", Boolean.FALSE.toString(),
|
|
"-graphPath", getClass()
|
|
.getResource(
|
|
"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/childparenttest1")
|
|
.getPath(),
|
|
"-hive_metastore_uris", "",
|
|
"-leavesPath", workingDir.toString() + "/currentIteration/",
|
|
"-resultOrgPath", workingDir.toString() + "/resultOrganization/",
|
|
"-childParentPath", workingDir.toString() + "/childParentOrg/",
|
|
"-relationPath", workingDir.toString() + "/relation"
|
|
|
|
});
|
|
|
|
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"));
|
|
|
|
verificationDs
|
|
.foreach((ForeachFunction<KeyValueSet>) v -> System.out.println(OBJECT_MAPPER.writeValueAsString(v)));
|
|
|
|
}
|
|
|
|
@Test
|
|
public void childParentTest2() throws Exception {
|
|
|
|
PrepareInfo
|
|
.main(
|
|
new String[] {
|
|
"-isSparkSessionManaged", Boolean.FALSE.toString(),
|
|
"-graphPath", getClass()
|
|
.getResource(
|
|
"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/childparenttest2")
|
|
.getPath(),
|
|
"-hive_metastore_uris", "",
|
|
"-leavesPath", workingDir.toString() + "/currentIteration/",
|
|
"-resultOrgPath", workingDir.toString() + "/resultOrganization/",
|
|
"-childParentPath", workingDir.toString() + "/childParentOrg/",
|
|
"-relationPath", workingDir.toString() + "/relation"
|
|
|
|
});
|
|
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 relationTest()throws Exception {
|
|
|
|
PrepareInfo
|
|
.main(
|
|
new String[] {
|
|
"-isSparkSessionManaged", Boolean.FALSE.toString(),
|
|
"-graphPath", getClass()
|
|
.getResource(
|
|
"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/resultorganizationtest")
|
|
.getPath(),
|
|
"-hive_metastore_uris", "",
|
|
"-leavesPath", workingDir.toString() + "/currentIteration/",
|
|
"-resultOrgPath", workingDir.toString() + "/resultOrganization/",
|
|
"-childParentPath", workingDir.toString() + "/childParentOrg/",
|
|
"-relationPath", workingDir.toString() + "/relation"
|
|
|
|
});
|
|
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(7, verificationDs.count());
|
|
|
|
}
|
|
@Test
|
|
public void resultOrganizationTest1() throws Exception {
|
|
|
|
PrepareInfo
|
|
.main(
|
|
new String[] {
|
|
"-isSparkSessionManaged", Boolean.FALSE.toString(),
|
|
"-graphPath", getClass()
|
|
.getResource(
|
|
"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/resultorganizationtest")
|
|
.getPath(),
|
|
"-hive_metastore_uris", "",
|
|
"-leavesPath", workingDir.toString() + "/currentIteration/",
|
|
"-resultOrgPath", workingDir.toString() + "/resultOrganization/",
|
|
"-childParentPath", workingDir.toString() + "/childParentOrg/",
|
|
"-relationPath", workingDir.toString() + "/relation"
|
|
|
|
});
|
|
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
|
|
|
|
JavaRDD<KeyValueSet> tmp = sc
|
|
.textFile(workingDir.toString() + "/resultOrganization/")
|
|
.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(
|
|
2, verificationDs
|
|
.filter("key = '50|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
|
|
.collectAsList()
|
|
.get(0)
|
|
.getValueSet()
|
|
.size());
|
|
Assertions
|
|
.assertTrue(
|
|
verificationDs
|
|
.filter("key = '50|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
|
|
.collectAsList()
|
|
.get(0)
|
|
.getValueSet()
|
|
.contains("20|dedup_wf_001::2899e571609779168222fdeb59cb916d"));
|
|
Assertions
|
|
.assertTrue(
|
|
verificationDs
|
|
.filter("key = '50|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
|
|
.collectAsList()
|
|
.get(0)
|
|
.getValueSet()
|
|
.contains("20|pippo_wf_001::2899e571609779168222fdeb59cb916d"));
|
|
|
|
Assertions
|
|
.assertEquals(
|
|
2, verificationDs
|
|
.filter("key = '50|dedup_wf_001::2899e571609779168222fdeb59cb916d'")
|
|
.collectAsList()
|
|
.get(0)
|
|
.getValueSet()
|
|
.size());
|
|
Assertions
|
|
.assertTrue(
|
|
verificationDs
|
|
.filter("key = '50|dedup_wf_001::2899e571609779168222fdeb59cb916d'")
|
|
.collectAsList()
|
|
.get(0)
|
|
.getValueSet()
|
|
.contains("20|doajarticles::396262ee936f3d3e26ff0e60bea6cae0"));
|
|
Assertions
|
|
.assertTrue(
|
|
verificationDs
|
|
.filter("key = '50|dedup_wf_001::2899e571609779168222fdeb59cb916d'")
|
|
.collectAsList()
|
|
.get(0)
|
|
.getValueSet()
|
|
.contains("20|pippo_wf_001::2899e571609779168222fdeb59cb916d"));
|
|
|
|
Assertions
|
|
.assertEquals(
|
|
1, verificationDs
|
|
.filter("key = '50|doajarticles::03748bcb5d754c951efec9700e18a56d'")
|
|
.collectAsList()
|
|
.get(0)
|
|
.getValueSet()
|
|
.size());
|
|
Assertions
|
|
.assertTrue(
|
|
verificationDs
|
|
.filter("key = '50|doajarticles::03748bcb5d754c951efec9700e18a56d'")
|
|
.collectAsList()
|
|
.get(0)
|
|
.getValueSet()
|
|
.contains("20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f"));
|
|
|
|
Assertions
|
|
.assertEquals(
|
|
1, verificationDs
|
|
.filter("key = '50|openaire____::ec653e804967133b9436fdd30d3ff51d'")
|
|
.collectAsList()
|
|
.get(0)
|
|
.getValueSet()
|
|
.size());
|
|
Assertions
|
|
.assertTrue(
|
|
verificationDs
|
|
.filter("key = '50|openaire____::ec653e804967133b9436fdd30d3ff51d'")
|
|
.collectAsList()
|
|
.get(0)
|
|
.getValueSet()
|
|
.contains("20|doajarticles::1cae0b82b56ccd97c2db1f698def7074"));
|
|
|
|
Assertions
|
|
.assertEquals(
|
|
1, verificationDs
|
|
.filter("key = '50|doajarticles::1cae0b82b56ccd97c2db1f698def7074'")
|
|
.collectAsList()
|
|
.get(0)
|
|
.getValueSet()
|
|
.size());
|
|
Assertions
|
|
.assertTrue(
|
|
verificationDs
|
|
.filter("key = '50|doajarticles::1cae0b82b56ccd97c2db1f698def7074'")
|
|
.collectAsList()
|
|
.get(0)
|
|
.getValueSet()
|
|
.contains("20|opendoar____::a5fcb8eb25ebd6f7cd219e0fa1e6ddc1"));
|
|
|
|
verificationDs
|
|
.foreach((ForeachFunction<KeyValueSet>) v -> System.out.println(OBJECT_MAPPER.writeValueAsString(v)));
|
|
|
|
}
|
|
|
|
@Test
|
|
public void foundLeavesTest1() throws Exception {
|
|
|
|
PrepareInfo
|
|
.main(
|
|
new String[] {
|
|
"-isSparkSessionManaged", Boolean.FALSE.toString(),
|
|
"-graphPath", getClass()
|
|
.getResource(
|
|
"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/resultorganizationtest")
|
|
.getPath(),
|
|
"-hive_metastore_uris", "",
|
|
"-leavesPath", workingDir.toString() + "/currentIteration/",
|
|
"-resultOrgPath", workingDir.toString() + "/resultOrganization/",
|
|
"-childParentPath", workingDir.toString() + "/childParentOrg/",
|
|
"-relationPath", workingDir.toString() + "/relation"
|
|
|
|
});
|
|
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
|
|
|
|
JavaRDD<String> tmp = sc
|
|
.textFile(workingDir.toString() + "/currentIteration/")
|
|
.map(item -> OBJECT_MAPPER.readValue(item, String.class));
|
|
|
|
Assertions.assertEquals(0, tmp.count());
|
|
|
|
}
|
|
|
|
@Test
|
|
public void foundLeavesTest2() throws Exception {
|
|
PrepareInfo
|
|
.main(
|
|
new String[] {
|
|
"-isSparkSessionManaged", Boolean.FALSE.toString(),
|
|
"-graphPath", getClass()
|
|
.getResource(
|
|
"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/childparenttest1")
|
|
.getPath(),
|
|
"-hive_metastore_uris", "",
|
|
"-leavesPath", workingDir.toString() + "/currentIteration/",
|
|
"-resultOrgPath", workingDir.toString() + "/resultOrganization/",
|
|
"-childParentPath", workingDir.toString() + "/childParentOrg/",
|
|
"-relationPath", workingDir.toString() + "/relation"
|
|
|
|
});
|
|
|
|
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
|
|
|
|
JavaRDD<Leaves> tmp = sc
|
|
.textFile(workingDir.toString() + "/currentIteration/")
|
|
.map(item -> OBJECT_MAPPER.readValue(item, Leaves.class));
|
|
|
|
Dataset<Leaves> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(Leaves.class));
|
|
|
|
Assertions.assertEquals(3, verificationDs.count());
|
|
|
|
Assertions
|
|
.assertEquals(
|
|
1, verificationDs
|
|
.filter("value = '20|doajarticles::396262ee936f3d3e26ff0e60bea6cae0'")
|
|
.count());
|
|
|
|
Assertions
|
|
.assertEquals(
|
|
1, verificationDs
|
|
.filter("value = '20|opendoar____::a5fcb8eb25ebd6f7cd219e0fa1e6ddc1'")
|
|
.count());
|
|
|
|
Assertions
|
|
.assertEquals(
|
|
1, verificationDs
|
|
.filter("value = '20|pippo_wf_001::2899e571609779168222fdeb59cb916d'")
|
|
.count());
|
|
|
|
verificationDs.foreach((ForeachFunction<Leaves>) l -> System.out.println(OBJECT_MAPPER.writeValueAsString(l)));
|
|
|
|
}
|
|
|
|
}
|