412 lines
12 KiB
Java
412 lines
12 KiB
Java
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package eu.dnetlib.dhp.resulttoorganizationfromsemrel;
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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 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.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.PropagationConstant;
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import eu.dnetlib.dhp.schema.common.ModelConstants;
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import eu.dnetlib.dhp.schema.oaf.Relation;
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public class StepActionsTest {
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private static final Logger log = LoggerFactory.getLogger(StepActionsTest.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(StepActionsTest.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 execStepTest() {
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StepActions
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.execStep(
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spark, getClass()
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.getResource(
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"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/execstep/")
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.getPath(),
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workingDir.toString() + "/newRelationPath",
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getClass()
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.getResource(
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"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/execstep/currentIteration/")
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.getPath(),
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getClass()
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.getResource(
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"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/execstep/childParentOrg/")
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.getPath(),
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getClass()
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.getResource(
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"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/execstep/resultOrganization/")
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.getPath());
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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() + "/newRelationPath")
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.map(item -> OBJECT_MAPPER.readValue(item, Relation.class));
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Assertions.assertEquals(4, tmp.count());
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Dataset<Relation> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(Relation.class));
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verificationDs
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.foreach(
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(ForeachFunction<Relation>) r -> Assertions
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.assertEquals("propagation", r.getDataInfo().getInferenceprovenance()));
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verificationDs
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.foreach((ForeachFunction<Relation>) r -> Assertions.assertEquals("0.85", r.getDataInfo().getTrust()));
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verificationDs
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.foreach((ForeachFunction<Relation>) r -> Assertions.assertEquals("50|", r.getSource().substring(0, 3)));
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verificationDs
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.foreach((ForeachFunction<Relation>) r -> Assertions.assertEquals("20|", r.getTarget().substring(0, 3)));
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verificationDs
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.foreach(
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(ForeachFunction<Relation>) r -> Assertions
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.assertEquals(ModelConstants.HAS_AUTHOR_INSTITUTION, r.getRelClass()));
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verificationDs
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.foreach(
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(ForeachFunction<Relation>) r -> Assertions
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.assertEquals(ModelConstants.RESULT_ORGANIZATION, r.getRelType()));
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verificationDs
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.foreach(
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(ForeachFunction<Relation>) r -> Assertions
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.assertEquals(ModelConstants.AFFILIATION, r.getSubRelType()));
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verificationDs
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.foreach(
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(ForeachFunction<Relation>) r -> Assertions
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.assertEquals(
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PropagationConstant.PROPAGATION_RELATION_RESULT_ORGANIZATION_SEM_REL_CLASS_ID,
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r.getDataInfo().getProvenanceaction().getClassid()));
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verificationDs
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.foreach(
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(ForeachFunction<Relation>) r -> Assertions
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.assertEquals(
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PropagationConstant.PROPAGATION_RELATION_RESULT_ORGANIZATION_SEM_REL_CLASS_NAME,
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r.getDataInfo().getProvenanceaction().getClassname()));
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verificationDs
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.filter(
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(FilterFunction<Relation>) r -> r
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.getSource()
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.equals("50|doajarticles::1cae0b82b56ccd97c2db1f698def7074"))
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.foreach(
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(ForeachFunction<Relation>) r -> Assertions
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.assertEquals("20|doajarticles::1cae0b82b56ccd97c2db1f698def7074", r.getTarget()));
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verificationDs
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.filter(
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(FilterFunction<Relation>) r -> r
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.getSource()
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.equals("50|doajarticles::2baa9032dc058d3c8ff780c426b0c19f"))
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.foreach(
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(ForeachFunction<Relation>) r -> Assertions
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.assertEquals("20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f", r.getTarget()));
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Assertions
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.assertEquals(
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2,
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verificationDs
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.filter(
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(FilterFunction<Relation>) r -> r
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.getSource()
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.equals("50|dedup_wf_001::2899e571609779168222fdeb59cb916d"))
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.count());
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Assertions
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.assertEquals(
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1,
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verificationDs
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.filter(
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(FilterFunction<Relation>) r -> r
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.getSource()
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.equals("50|dedup_wf_001::2899e571609779168222fdeb59cb916d") &&
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r.getTarget().equals("20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f"))
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.count());
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Assertions
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.assertEquals(
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1,
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verificationDs
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.filter(
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(FilterFunction<Relation>) r -> r
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.getSource()
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.equals("50|dedup_wf_001::2899e571609779168222fdeb59cb916d") &&
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r.getTarget().equals("20|dedup_wf_001::2899e571609779168222fdeb59cb916d"))
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.count());
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tmp.foreach(r -> System.out.println(OBJECT_MAPPER.writeValueAsString(r)));
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}
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@Test
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public void prepareForNextStepLeavesTest() {
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StepActions
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.prepareForNextStep(
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spark,
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getClass()
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.getResource(
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"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/execstep/relsforiteration1/")
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.getPath(),
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getClass()
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.getResource(
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"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/execstep/resultOrganization/")
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.getPath(),
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getClass()
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.getResource(
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"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/execstep/currentIteration/")
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.getPath(),
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getClass()
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.getResource(
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"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/execstep/childParentOrg/")
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.getPath(),
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workingDir.toString() + "/tempLeaves", workingDir.toString() + "/tempOrgs");
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final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
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JavaRDD<Leaves> tmp = sc
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.textFile(workingDir.toString() + "/tempLeaves")
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.map(item -> OBJECT_MAPPER.readValue(item, Leaves.class));
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Assertions.assertEquals(3, tmp.count());
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Assertions
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.assertEquals(
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1, tmp.filter(l -> l.getValue().equals("20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f")).count());
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Assertions
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.assertEquals(
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1, tmp.filter(l -> l.getValue().equals("20|dedup_wf_001::2899e571609779168222fdeb59cb916d")).count());
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Assertions
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.assertEquals(
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1, tmp.filter(l -> l.getValue().equals("20|doajarticles::1cae0b82b56ccd97c2db1f698def7074")).count());
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}
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@Test
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public void prepareFonNextStepOrgTest() {
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StepActions
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.prepareForNextStep(
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spark,
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getClass()
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.getResource(
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"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/execstep/relsforiteration1/")
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.getPath(),
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getClass()
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.getResource(
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"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/execstep/resultOrganization/")
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.getPath(),
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getClass()
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.getResource(
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"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/execstep/currentIteration/")
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.getPath(),
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getClass()
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.getResource(
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"/eu/dnetlib/dhp/resulttoorganizationfromsemrel/execstep/childParentOrg/")
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.getPath(),
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workingDir.toString() + "/tempLeaves", workingDir.toString() + "/tempOrgs");
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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() + "/tempOrgs")
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.map(item -> OBJECT_MAPPER.readValue(item, KeyValueSet.class));
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Assertions.assertEquals(5, tmp.count());
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Assertions
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.assertEquals(
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1, tmp
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.filter(kv -> kv.getKey().equals("50|openaire____::ec653e804967133b9436fdd30d3ff51d"))
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.collect()
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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::1cae0b82b56ccd97c2db1f698def7074",
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tmp
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.filter(kv -> kv.getKey().equals("50|openaire____::ec653e804967133b9436fdd30d3ff51d"))
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.collect()
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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, tmp
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.filter(kv -> kv.getKey().equals("50|doajarticles::03748bcb5d754c951efec9700e18a56d"))
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.collect()
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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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tmp
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.filter(kv -> kv.getKey().equals("50|doajarticles::03748bcb5d754c951efec9700e18a56d"))
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.collect()
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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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4, tmp
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.filter(kv -> kv.getKey().equals("50|dedup_wf_001::2899e571609779168222fdeb59cb916d"))
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.collect()
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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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tmp
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.filter(kv -> kv.getKey().equals("50|dedup_wf_001::2899e571609779168222fdeb59cb916d"))
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.collect()
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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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tmp
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.filter(kv -> kv.getKey().equals("50|dedup_wf_001::2899e571609779168222fdeb59cb916d"))
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.collect()
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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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tmp
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.filter(kv -> kv.getKey().equals("50|dedup_wf_001::2899e571609779168222fdeb59cb916d"))
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.collect()
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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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Assertions
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.assertTrue(
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tmp
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.filter(kv -> kv.getKey().equals("50|dedup_wf_001::2899e571609779168222fdeb59cb916d"))
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.collect()
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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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2, tmp
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.filter(kv -> kv.getKey().equals("50|doajarticles::1cae0b82b56ccd97c2db1f698def7074"))
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.collect()
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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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tmp
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.filter(kv -> kv.getKey().equals("50|doajarticles::1cae0b82b56ccd97c2db1f698def7074"))
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.collect()
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.get(0)
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.getValueSet()
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.contains("20|opendoar____::a5fcb8eb25ebd6f7cd219e0fa1e6ddc1"));
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Assertions
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.assertTrue(
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tmp
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.filter(kv -> kv.getKey().equals("50|doajarticles::1cae0b82b56ccd97c2db1f698def7074"))
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.collect()
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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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3, tmp
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.filter(kv -> kv.getKey().equals("50|doajarticles::2baa9032dc058d3c8ff780c426b0c19f"))
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.collect()
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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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tmp
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.filter(kv -> kv.getKey().equals("50|doajarticles::2baa9032dc058d3c8ff780c426b0c19f"))
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.collect()
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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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tmp
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.filter(kv -> kv.getKey().equals("50|doajarticles::2baa9032dc058d3c8ff780c426b0c19f"))
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.collect()
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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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Assertions
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.assertTrue(
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tmp
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.filter(kv -> kv.getKey().equals("50|doajarticles::2baa9032dc058d3c8ff780c426b0c19f"))
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.collect()
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.get(0)
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.getValueSet()
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.contains("20|doajarticles::2baa9032dc058d3c8ff780c426b0c19f"));
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}
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}
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