271 lines
7.8 KiB
Java
271 lines
7.8 KiB
Java
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package eu.dnetlib.dhp.projecttoresult;
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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.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.schema.oaf.Relation;
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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 SparkSession spark;
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private static Path workingDir;
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private static final SparkConf conf = new SparkConf();
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@BeforeAll
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public static void beforeAll() throws IOException {
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log.info("using work dir {}", workingDir);
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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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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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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
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* the graph
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*
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* @throws Exception
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*/
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@Test
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void NoUpdateTest() throws Exception {
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workingDir = Files.createTempDirectory(ProjectPropagationJobTest.class.getSimpleName());
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final String potentialUpdateDate = getClass()
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.getResource(
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"/eu/dnetlib/dhp/projecttoresult/preparedInfo/noupdates/potentialUpdates")
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.getPath();
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final String alreadyLinkedPath = getClass()
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.getResource(
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"/eu/dnetlib/dhp/projecttoresult/preparedInfo/alreadyLinked")
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.getPath();
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SparkResultToProjectThroughSemRelJob
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.main(
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new String[] {
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"-isSparkSessionManaged", Boolean.FALSE.toString(),
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"-hive_metastore_uris", "",
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"-outputPath", workingDir.toString() + "/relation",
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"-potentialUpdatePath", potentialUpdateDate,
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"-alreadyLinkedPath", alreadyLinkedPath,
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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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Assertions.assertEquals(0, tmp.count());
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FileUtils.deleteDirectory(workingDir.toFile());
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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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*
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* @throws Exception
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*/
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@Test
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void UpdateTenTest() throws Exception {
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workingDir = Files.createTempDirectory(ProjectPropagationJobTest.class.getSimpleName());
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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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final String potentialUpdatePath = getClass()
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.getResource(
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"/eu/dnetlib/dhp/projecttoresult/preparedInfo/tenupdates/potentialUpdates")
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.getPath();
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final String alreadyLinkedPath = getClass()
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.getResource(
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"/eu/dnetlib/dhp/projecttoresult/preparedInfo/alreadyLinked")
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.getPath();
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SparkResultToProjectThroughSemRelJob
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.main(
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new String[] {
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"-isSparkSessionManaged", Boolean.FALSE.toString(),
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"-hive_metastore_uris", "",
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"-outputPath", workingDir.toString() + "/relation",
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"-potentialUpdatePath", potentialUpdatePath,
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"-alreadyLinkedPath", alreadyLinkedPath,
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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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// got 20 new relations because "produces" and "isProducedBy" are added
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Assertions.assertEquals(10, tmp.count());
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Dataset<Relation> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(Relation.class));
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Assertions.assertEquals(5, verificationDs.filter("relClass = 'produces'").count());
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Assertions.assertEquals(5, verificationDs.filter("relClass = 'isProducedBy'").count());
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Assertions
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.assertEquals(
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5,
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verificationDs
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.filter(
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(FilterFunction<Relation>) r -> r.getSource().startsWith("50")
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&& r.getTarget().startsWith("40")
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&& r.getRelClass().equals("isProducedBy"))
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.count());
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Assertions
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.assertEquals(
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5,
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verificationDs
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.filter(
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(FilterFunction<Relation>) r -> r.getSource().startsWith("40")
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&& r.getTarget().startsWith("50")
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&& r.getRelClass().equals("produces"))
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.count());
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verificationDs.createOrReplaceTempView("temporary");
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Assertions
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.assertEquals(
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10,
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spark
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.sql(
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"Select * from temporary where datainfo.inferenceprovenance = 'propagation'")
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.count());
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FileUtils.deleteDirectory(workingDir.toFile());
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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. All the others are
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* not. There will be 9 new associations leading to 18 new relations
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*
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* @throws Exception
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*/
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@Test
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void UpdateMixTest() throws Exception {
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workingDir = Files.createTempDirectory(ProjectPropagationJobTest.class.getSimpleName());
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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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final String potentialUpdatepath = getClass()
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.getResource(
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"/eu/dnetlib/dhp/projecttoresult/preparedInfo/updatesmixed/potentialUpdates")
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.getPath();
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final String alreadyLinkedPath = getClass()
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.getResource(
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"/eu/dnetlib/dhp/projecttoresult/preparedInfo/alreadyLinked")
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.getPath();
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SparkResultToProjectThroughSemRelJob
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.main(
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new String[] {
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"-isSparkSessionManaged", Boolean.FALSE.toString(),
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"-hive_metastore_uris", "",
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"-outputPath", workingDir.toString() + "/relation",
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"-potentialUpdatePath", potentialUpdatepath,
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"-alreadyLinkedPath", alreadyLinkedPath,
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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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// 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(8, tmp.count());
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Dataset<Relation> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(Relation.class));
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Assertions.assertEquals(4, verificationDs.filter("relClass = 'produces'").count());
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Assertions.assertEquals(4, verificationDs.filter("relClass = 'isProducedBy'").count());
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Assertions
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.assertEquals(
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4,
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verificationDs
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.filter(
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(FilterFunction<Relation>) r -> r.getSource().startsWith("50")
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&& r.getTarget().startsWith("40")
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&& r.getRelClass().equals("isProducedBy"))
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.count());
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Assertions
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.assertEquals(
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4,
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verificationDs
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.filter(
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(FilterFunction<Relation>) r -> r.getSource().startsWith("40")
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&& r.getTarget().startsWith("50")
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&& r.getRelClass().equals("produces"))
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.count());
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verificationDs.createOrReplaceTempView("temporary");
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Assertions
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.assertEquals(
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8,
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spark
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.sql(
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"Select * from temporary where datainfo.inferenceprovenance = 'propagation'")
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.count());
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FileUtils.deleteDirectory(workingDir.toFile());
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}
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}
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