forked from D-Net/dnet-hadoop
580 lines
17 KiB
Java
580 lines
17 KiB
Java
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package eu.dnetlib.dhp.resulttoorganizationfromsemrel;
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import static eu.dnetlib.dhp.PropagationConstant.readPath;
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import java.io.IOException;
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import java.nio.file.Files;
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import java.nio.file.Path;
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import java.util.List;
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import org.apache.commons.io.FileUtils;
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import org.apache.spark.SparkConf;
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import org.apache.spark.api.java.JavaRDD;
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import org.apache.spark.api.java.JavaSparkContext;
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import org.apache.spark.api.java.function.FilterFunction;
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import org.apache.spark.api.java.function.ForeachFunction;
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import org.apache.spark.sql.Dataset;
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import org.apache.spark.sql.Encoders;
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import org.apache.spark.sql.Row;
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import org.apache.spark.sql.SparkSession;
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import org.junit.jupiter.api.AfterAll;
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import org.junit.jupiter.api.Assertions;
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import org.junit.jupiter.api.BeforeAll;
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import org.junit.jupiter.api.Test;
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import org.slf4j.Logger;
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import org.slf4j.LoggerFactory;
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import com.fasterxml.jackson.databind.ObjectMapper;
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import eu.dnetlib.dhp.KeyValueSet;
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import eu.dnetlib.dhp.projecttoresult.SparkResultToProjectThroughSemRelJob;
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import eu.dnetlib.dhp.schema.oaf.Relation;
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public class PrepareInfoJobTest {
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private static final Logger log = LoggerFactory.getLogger(PrepareInfoJobTest.class);
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private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
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private static SparkSession spark;
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private static Path workingDir;
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@BeforeAll
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public static void beforeAll() throws IOException {
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workingDir = Files.createTempDirectory(PrepareInfoJobTest.class.getSimpleName());
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log.info("using work dir {}", workingDir);
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SparkConf conf = new SparkConf();
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conf.setAppName(PrepareInfoJobTest.class.getSimpleName());
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conf.setMaster("local[*]");
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conf.set("spark.driver.host", "localhost");
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conf.set("hive.metastore.local", "true");
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conf.set("spark.ui.enabled", "false");
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conf.set("spark.sql.warehouse.dir", workingDir.toString());
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conf.set("hive.metastore.warehouse.dir", workingDir.resolve("warehouse").toString());
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spark = SparkSession
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.builder()
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.appName(PrepareInfoJobTest.class.getSimpleName())
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.config(conf)
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.getOrCreate();
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}
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@AfterAll
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public static void afterAll() throws IOException {
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FileUtils.deleteDirectory(workingDir.toFile());
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spark.stop();
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}
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@Test
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public void childParentTest1() throws Exception {
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PrepareInfo
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.main(
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new String[] {
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"-isSparkSessionManaged", Boolean.FALSE.toString(),
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"-graphPath", getClass()
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.getResource(
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"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/childparenttest1")
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.getPath(),
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"-hive_metastore_uris", "",
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"-leavesPath", workingDir.toString() + "/currentIteration/",
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"-resultOrgPath", workingDir.toString() + "/resultOrganization/",
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"-childParentPath", workingDir.toString() + "/childParentOrg/",
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"-relationPath", workingDir.toString() + "/relation"
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});
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final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
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JavaRDD<KeyValueSet> tmp = sc
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.textFile(workingDir.toString() + "/childParentOrg/")
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.map(item -> OBJECT_MAPPER.readValue(item, KeyValueSet.class));
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Dataset<KeyValueSet> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(KeyValueSet.class));
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Assertions.assertEquals(6, verificationDs.count());
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Assertions
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.assertEquals(
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1, verificationDs
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.filter("key = '20|dedup_wf_001::2899e571609779168222fdeb59cb916d'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.size());
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Assertions
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.assertEquals(
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"20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f",
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verificationDs
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.filter("key = '20|dedup_wf_001::2899e571609779168222fdeb59cb916d'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.get(0));
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Assertions
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.assertEquals(
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2, verificationDs
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.filter("key = '20|pippo_wf_001::2899e571609779168222fdeb59cb916d'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.size());
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Assertions
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.assertTrue(
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verificationDs
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.filter("key = '20|pippo_wf_001::2899e571609779168222fdeb59cb916d'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.contains("20|dedup_wf_001::2899e571609779168222fdeb59cb916d"));
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Assertions
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.assertTrue(
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verificationDs
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.filter("key = '20|pippo_wf_001::2899e571609779168222fdeb59cb916d'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.contains("20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f"));
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Assertions
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.assertEquals(
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1, verificationDs
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.filter("key = '20|doajarticles::396262ee936f3d3e26ff0e60bea6cae0'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.size());
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Assertions
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.assertTrue(
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verificationDs
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.filter("key = '20|doajarticles::396262ee936f3d3e26ff0e60bea6cae0'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.contains("20|dedup_wf_001::2899e571609779168222fdeb59cb916d"));
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Assertions
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.assertEquals(
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1, verificationDs
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.filter("key = '20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.size());
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Assertions
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.assertTrue(
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verificationDs
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.filter("key = '20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.contains("20|doajarticles::03748bcb5d754c951efec9700e18a56d"));
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Assertions
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.assertEquals(
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1, verificationDs
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.filter("key = '20|doajarticles::1cae0b82b56ccd97c2db1f698def7074'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.size());
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Assertions
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.assertTrue(
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verificationDs
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.filter("key = '20|doajarticles::1cae0b82b56ccd97c2db1f698def7074'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.contains("20|openaire____::ec653e804967133b9436fdd30d3ff51d"));
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Assertions
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.assertEquals(
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1, verificationDs
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.filter("key = '20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.size());
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Assertions
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.assertTrue(
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verificationDs
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.filter("key = '20|opendoar____::a5fcb8eb25ebd6f7cd219e0fa1e6ddc1'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.contains("20|doajarticles::1cae0b82b56ccd97c2db1f698def7074"));
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verificationDs
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.foreach((ForeachFunction<KeyValueSet>) v -> System.out.println(OBJECT_MAPPER.writeValueAsString(v)));
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}
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@Test
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public void childParentTest2() throws Exception {
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PrepareInfo
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.main(
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new String[] {
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"-isSparkSessionManaged", Boolean.FALSE.toString(),
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"-graphPath", getClass()
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.getResource(
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"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/childparenttest2")
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.getPath(),
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"-hive_metastore_uris", "",
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"-leavesPath", workingDir.toString() + "/currentIteration/",
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"-resultOrgPath", workingDir.toString() + "/resultOrganization/",
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"-childParentPath", workingDir.toString() + "/childParentOrg/",
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"-relationPath", workingDir.toString() + "/relation"
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});
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final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
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JavaRDD<KeyValueSet> tmp = sc
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.textFile(workingDir.toString() + "/childParentOrg/")
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.map(item -> OBJECT_MAPPER.readValue(item, KeyValueSet.class));
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Dataset<KeyValueSet> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(KeyValueSet.class));
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Assertions.assertEquals(5, verificationDs.count());
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Assertions
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.assertEquals(
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0, verificationDs.filter("key = '20|dedup_wf_001::2899e571609779168222fdeb59cb916d'").count());
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Assertions
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.assertEquals(
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1, verificationDs
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.filter("key = '20|pippo_wf_001::2899e571609779168222fdeb59cb916d'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.size());
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Assertions
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.assertEquals(
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"20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f",
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verificationDs
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.filter("key = '20|pippo_wf_001::2899e571609779168222fdeb59cb916d'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.get(0));
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Assertions
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.assertEquals(
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1, verificationDs
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.filter("key = '20|doajarticles::396262ee936f3d3e26ff0e60bea6cae0'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.size());
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Assertions
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.assertTrue(
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verificationDs
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.filter("key = '20|doajarticles::396262ee936f3d3e26ff0e60bea6cae0'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.contains("20|dedup_wf_001::2899e571609779168222fdeb59cb916d"));
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Assertions
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.assertEquals(
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1, verificationDs
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.filter("key = '20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.size());
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Assertions
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.assertTrue(
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verificationDs
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.filter("key = '20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.contains("20|doajarticles::03748bcb5d754c951efec9700e18a56d"));
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Assertions
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.assertEquals(
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1, verificationDs
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.filter("key = '20|doajarticles::1cae0b82b56ccd97c2db1f698def7074'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.size());
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Assertions
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.assertTrue(
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verificationDs
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.filter("key = '20|doajarticles::1cae0b82b56ccd97c2db1f698def7074'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.contains("20|openaire____::ec653e804967133b9436fdd30d3ff51d"));
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Assertions
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.assertEquals(
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1, verificationDs
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.filter("key = '20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.size());
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Assertions
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.assertTrue(
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verificationDs
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.filter("key = '20|opendoar____::a5fcb8eb25ebd6f7cd219e0fa1e6ddc1'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.contains("20|doajarticles::1cae0b82b56ccd97c2db1f698def7074"));
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}
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@Test
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public void relationTest() throws Exception {
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PrepareInfo
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.main(
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new String[] {
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"-isSparkSessionManaged", Boolean.FALSE.toString(),
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"-graphPath", getClass()
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.getResource(
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"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/resultorganizationtest")
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.getPath(),
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"-hive_metastore_uris", "",
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"-leavesPath", workingDir.toString() + "/currentIteration/",
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"-resultOrgPath", workingDir.toString() + "/resultOrganization/",
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"-childParentPath", workingDir.toString() + "/childParentOrg/",
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"-relationPath", workingDir.toString() + "/relation"
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});
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final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
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JavaRDD<Relation> tmp = sc
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.textFile(workingDir.toString() + "/relation")
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.map(item -> OBJECT_MAPPER.readValue(item, Relation.class));
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Dataset<Relation> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(Relation.class));
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Assertions.assertEquals(7, verificationDs.count());
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}
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@Test
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public void resultOrganizationTest1() throws Exception {
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PrepareInfo
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.main(
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new String[] {
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"-isSparkSessionManaged", Boolean.FALSE.toString(),
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"-graphPath", getClass()
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.getResource(
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"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/resultorganizationtest")
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.getPath(),
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"-hive_metastore_uris", "",
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"-leavesPath", workingDir.toString() + "/currentIteration/",
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"-resultOrgPath", workingDir.toString() + "/resultOrganization/",
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"-childParentPath", workingDir.toString() + "/childParentOrg/",
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"-relationPath", workingDir.toString() + "/relation"
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});
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final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
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JavaRDD<KeyValueSet> tmp = sc
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.textFile(workingDir.toString() + "/resultOrganization/")
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.map(item -> OBJECT_MAPPER.readValue(item, KeyValueSet.class));
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Dataset<KeyValueSet> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(KeyValueSet.class));
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Assertions.assertEquals(5, verificationDs.count());
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Assertions
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.assertEquals(
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2, verificationDs
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.filter("key = '50|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.size());
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Assertions
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.assertTrue(
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verificationDs
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.filter("key = '50|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.contains("20|dedup_wf_001::2899e571609779168222fdeb59cb916d"));
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Assertions
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.assertTrue(
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verificationDs
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.filter("key = '50|doajarticles::2baa9032dc058d3c8ff780c426b0c19f'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.contains("20|pippo_wf_001::2899e571609779168222fdeb59cb916d"));
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|
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Assertions
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.assertEquals(
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2, verificationDs
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.filter("key = '50|dedup_wf_001::2899e571609779168222fdeb59cb916d'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.size());
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Assertions
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.assertTrue(
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verificationDs
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.filter("key = '50|dedup_wf_001::2899e571609779168222fdeb59cb916d'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.contains("20|doajarticles::396262ee936f3d3e26ff0e60bea6cae0"));
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Assertions
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.assertTrue(
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verificationDs
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.filter("key = '50|dedup_wf_001::2899e571609779168222fdeb59cb916d'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.contains("20|pippo_wf_001::2899e571609779168222fdeb59cb916d"));
|
|
|
|
Assertions
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.assertEquals(
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1, verificationDs
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.filter("key = '50|doajarticles::03748bcb5d754c951efec9700e18a56d'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.size());
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Assertions
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.assertTrue(
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verificationDs
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.filter("key = '50|doajarticles::03748bcb5d754c951efec9700e18a56d'")
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.collectAsList()
|
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.get(0)
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.getValueSet()
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.contains("20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f"));
|
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|
|
Assertions
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.assertEquals(
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1, verificationDs
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.filter("key = '50|openaire____::ec653e804967133b9436fdd30d3ff51d'")
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.collectAsList()
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.get(0)
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.getValueSet()
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.size());
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Assertions
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.assertTrue(
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verificationDs
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.filter("key = '50|openaire____::ec653e804967133b9436fdd30d3ff51d'")
|
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.collectAsList()
|
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.get(0)
|
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.getValueSet()
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.contains("20|doajarticles::1cae0b82b56ccd97c2db1f698def7074"));
|
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|
|
Assertions
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.assertEquals(
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1, verificationDs
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.filter("key = '50|doajarticles::1cae0b82b56ccd97c2db1f698def7074'")
|
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.collectAsList()
|
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.get(0)
|
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.getValueSet()
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.size());
|
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Assertions
|
|
.assertTrue(
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verificationDs
|
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.filter("key = '50|doajarticles::1cae0b82b56ccd97c2db1f698def7074'")
|
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.collectAsList()
|
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.get(0)
|
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.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)));
|
|
|
|
}
|
|
|
|
}
|