test unit for result to project propagation
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package eu.dnetlib.dhp.projecttoresult;
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import com.fasterxml.jackson.databind.ObjectMapper;
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import eu.dnetlib.dhp.countrypropagation.CountryPropagationJobTest;
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import eu.dnetlib.dhp.countrypropagation.SparkCountryPropagationJob2;
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import eu.dnetlib.dhp.schema.oaf.Country;
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import eu.dnetlib.dhp.schema.oaf.Relation;
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import eu.dnetlib.dhp.schema.oaf.Software;
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import org.apache.commons.io.FileUtils;
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import org.apache.neethi.Assertion;
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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.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 scala.Tuple2;
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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.ArrayList;
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import java.util.List;
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public class ProjectPropagationJobTest {
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private static final Logger log = LoggerFactory.getLogger(ProjectPropagationJobTest.class);
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private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
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private static final ClassLoader cl = ProjectPropagationJobTest.class.getClassLoader();
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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(ProjectPropagationJobTest.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(ProjectPropagationJobTest.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(ProjectPropagationJobTest.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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/**
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* There are no new relations to be added. All the possible relations have already been linked with the project in the graph
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* @throws Exception
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*/
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@Test
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public void NoUpdateTest() throws Exception {
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SparkResultToProjectThroughSemRelJob3.main(new String[]{
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"-isTest", Boolean.TRUE.toString(),
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"-isSparkSessionManaged", Boolean.FALSE.toString(),
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"-sourcePath", getClass().getResource("/eu/dnetlib/dhp/projecttoresult/sample/relation").getPath(),
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"-hive_metastore_uris", "",
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"-writeUpdate", "false",
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"-saveGraph", "true",
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"-outputPath", workingDir.toString() + "/relation",
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"-potentialUpdatePath", getClass().getResource("/eu/dnetlib/dhp/projecttoresult/preparedInfo/noupdates/potentialUpdates").getPath(),
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"-alreadyLinkedPath",getClass().getResource("/eu/dnetlib/dhp/projecttoresult/preparedInfo/alreadyLinked").getPath(),
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});
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final JavaSparkContext sc = new JavaSparkContext(spark.sparkContext());
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JavaRDD<Relation> tmp = sc.textFile(workingDir.toString()+"/relation")
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.map(item -> OBJECT_MAPPER.readValue(item, Relation.class));
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Assertions.assertEquals(0, tmp.count());
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}
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/**
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* All the possible updates will produce a new relation. No relations are already linked in the grpha
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* @throws Exception
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*/
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@Test
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public void UpdateTenTest() throws Exception{
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SparkResultToProjectThroughSemRelJob3.main(new String[]{
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"-isTest", Boolean.TRUE.toString(),
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"-isSparkSessionManaged", Boolean.FALSE.toString(),
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"-sourcePath", getClass().getResource("/eu/dnetlib/dhp/projecttoresult/sample/relation").getPath(),
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"-hive_metastore_uris", "",
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"-writeUpdate", "false",
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"-saveGraph", "true",
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"-outputPath", workingDir.toString() + "/relation",
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"-potentialUpdatePath", getClass().getResource("/eu/dnetlib/dhp/projecttoresult/preparedInfo/tenupdates/potentialUpdates").getPath(),
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"-alreadyLinkedPath",getClass().getResource("/eu/dnetlib/dhp/projecttoresult/preparedInfo/alreadyLinked").getPath(),
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});
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final JavaSparkContext sc = new JavaSparkContext(spark.sparkContext());
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JavaRDD<Relation> tmp = sc.textFile(workingDir.toString()+"/relation")
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.map(item -> OBJECT_MAPPER.readValue(item, Relation.class));
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//got 20 new relations because "produces" and "isProducedBy" are added
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Assertions.assertEquals(20, tmp.count());
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Dataset<Relation> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(Relation.class));
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Assertions.assertEquals(10, verificationDs.filter("relClass = 'produces'").count());
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Assertions.assertEquals(10, verificationDs.filter("relClass = 'isProducedBy'").count());
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Assertions.assertEquals(10, verificationDs.filter(r -> r.getSource().substring(0, 2). equals("50") &&
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r.getTarget().substring(0,2).equals("40") &&
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r.getRelClass().equals("isProducedBy")).count());
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Assertions.assertEquals(10, verificationDs.filter(r -> r.getSource().substring(0, 2). equals("40") &&
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r.getTarget().substring(0,2).equals("50") &&
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r.getRelClass().equals("produces")).count());
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verificationDs.createOrReplaceTempView("temporary");
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Assertions.assertEquals(20, spark.sql("Select * from temporary where datainfo.inferenceprovenance = 'propagation'").count());
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}
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/**
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* One of the relations in the possible updates is already linked to the project in the graph.
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* All the others are not. There will be 9 new associations leading to 18 new relations
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* @throws Exception
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*/
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@Test
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public void UpdateMixTest() throws Exception{
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SparkResultToProjectThroughSemRelJob3.main(new String[]{
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"-isTest", Boolean.TRUE.toString(),
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"-isSparkSessionManaged", Boolean.FALSE.toString(),
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"-sourcePath", getClass().getResource("/eu/dnetlib/dhp/projecttoresult/sample/relation").getPath(),
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"-hive_metastore_uris", "",
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"-writeUpdate", "false",
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"-saveGraph", "true",
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"-outputPath", workingDir.toString() + "/relation",
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"-potentialUpdatePath", getClass().getResource("/eu/dnetlib/dhp/projecttoresult/preparedInfo/updatesmixed/potentialUpdates").getPath(),
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"-alreadyLinkedPath",getClass().getResource("/eu/dnetlib/dhp/projecttoresult/preparedInfo/alreadyLinked").getPath(),
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});
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final JavaSparkContext sc = new JavaSparkContext(spark.sparkContext());
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JavaRDD<Relation> tmp = sc.textFile(workingDir.toString()+"/relation")
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.map(item -> OBJECT_MAPPER.readValue(item, Relation.class));
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// JavaRDD<Relation> tmp = sc.textFile("/tmp/relation")
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// .map(item -> OBJECT_MAPPER.readValue(item, Relation.class));
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//got 20 new relations because "produces" and "isProducedBy" are added
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Assertions.assertEquals(18, tmp.count());
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Dataset<Relation> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(Relation.class));
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Assertions.assertEquals(9, verificationDs.filter("relClass = 'produces'").count());
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Assertions.assertEquals(9, verificationDs.filter("relClass = 'isProducedBy'").count());
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Assertions.assertEquals(9, verificationDs.filter(r -> r.getSource().substring(0, 2). equals("50") &&
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r.getTarget().substring(0,2).equals("40") &&
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r.getRelClass().equals("isProducedBy")).count());
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Assertions.assertEquals(9, verificationDs.filter(r -> r.getSource().substring(0, 2). equals("40") &&
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r.getTarget().substring(0,2).equals("50") &&
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r.getRelClass().equals("produces")).count());
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verificationDs.createOrReplaceTempView("temporary");
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Assertions.assertEquals(18, spark.sql("Select * from temporary where datainfo.inferenceprovenance = 'propagation'").count());
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}
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}
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