209 lines
5.9 KiB
Java
209 lines
5.9 KiB
Java
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package eu.dnetlib.dhp.oa.graph.dump.eosc;
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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.HashMap;
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import java.util.List;
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import java.util.Optional;
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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.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.eosc.model.Affiliation;
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import eu.dnetlib.dhp.eosc.model.Organization;
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import eu.dnetlib.dhp.eosc.model.Relation;
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import eu.dnetlib.dhp.eosc.model.Result;
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/**
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* @author miriam.baglioni
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* @Date 25/10/23
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*/
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public class ExtendAffiliationTest {
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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 Logger log = LoggerFactory
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.getLogger(ExtendAffiliationTest.class);
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private static HashMap<String, String> map = new HashMap<>();
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@BeforeAll
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public static void beforeAll() throws IOException {
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workingDir = Files
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.createTempDirectory(ExtendAffiliationTest.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(ExtendAffiliationTest.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(ExtendAffiliationTest.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 ExtendEoscResultWithOrganizationTest() throws Exception {
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final String sourcePath = getClass()
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.getResource("/eu/dnetlib/dhp/oa/graph/dump/eosc/input")
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.getPath();
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final String workingPath = getClass()
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.getResource("/eu/dnetlib/dhp/oa/graph/dump/eosc/working/")
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.getPath();
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final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
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spark
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.read()
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.textFile(workingPath + "publication")
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.write()
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.text(workingDir.toString() + "/working/publication");
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ExtendEoscResultWithOrganizationStep2.main(new String[] {
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"-isSparkSessionManaged", Boolean.FALSE.toString(),
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"-outputPath", workingDir.toString() + "/",
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"-sourcePath", sourcePath,
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"-resultType", "publication",
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"-workingPath", workingDir.toString() + "/working/"
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});
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/*
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affiliation relationships
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20|13811704aa70::51a6ade52065e3b371d1ae822e07f1ff -> 50|06cdd3ff4700::93859bd27121c3ee7c6ee4bfb1790cba
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*/
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JavaRDD<Result> tmp = sc
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.textFile(workingDir.toString() + "/working/publicationextendedaffiliation")
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.map(item -> OBJECT_MAPPER.readValue(item, Result.class));
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Assertions.assertEquals(3, tmp.count());
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tmp.foreach(p->System.out.println(OBJECT_MAPPER.writeValueAsString(p)));
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Assertions
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.assertEquals(
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1,
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tmp
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.filter(r -> Optional.ofNullable(r.getAffiliation()).isPresent() && r.getAffiliation().size() > 0)
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.count());
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Assertions
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.assertEquals(
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1,
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tmp
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.filter(r -> r.getId().equalsIgnoreCase("50|06cdd3ff4700::93859bd27121c3ee7c6ee4bfb1790cba"))
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.first()
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.getAffiliation()
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.size());
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List<Affiliation> affiliations = tmp
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.filter(r -> r.getId().equalsIgnoreCase("50|06cdd3ff4700::93859bd27121c3ee7c6ee4bfb1790cba"))
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.first()
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.getAffiliation();
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Assertions
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.assertTrue(
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affiliations.stream().anyMatch(a -> a.getName().equalsIgnoreCase("Doris Engineering (France)")));
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Affiliation organization = affiliations
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.stream()
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.filter(a -> a.getId().equalsIgnoreCase("20|13811704aa70::51a6ade52065e3b371d1ae822e07f1ff"))
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.findFirst()
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.get();
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Assertions.assertEquals("Doris Engineering (France)", organization.getName());
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Assertions
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.assertTrue(
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organization
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.getPid()
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.stream()
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.anyMatch(
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p -> p.getValue().equalsIgnoreCase("grid.432986.2") && p.getType().equalsIgnoreCase("grid")));
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Assertions
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.assertTrue(
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organization
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.getPid()
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.stream()
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.anyMatch(
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p -> p.getValue().equalsIgnoreCase("https://ror.org/03nd0ms94")
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&& p.getType().equalsIgnoreCase("ror")));
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Assertions.assertEquals(2, organization.getPid().size());
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}
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@Test
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public void selectEoscResults() throws Exception {
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final String sourcePath = getClass()
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.getResource("/eu/dnetlib/dhp/oa/graph/dump/eosc/input")
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.getPath();
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final String workingPath = getClass()
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.getResource("/eu/dnetlib/dhp/oa/graph/dump/eosc/working/")
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.getPath();
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ExtendEoscResultWithOrganizationStep2.main(new String[] {
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"-isSparkSessionManaged", Boolean.FALSE.toString(),
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"-outputPath", workingDir.toString() + "/",
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"-sourcePath", sourcePath,
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"-resultType", "publication",
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"-workingPath", workingPath
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});
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final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
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JavaRDD<Organization> tmp = sc
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.textFile(workingDir.toString() + "/organization")
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.map(item -> OBJECT_MAPPER.readValue(item, Organization.class));
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JavaRDD<Relation> rels = sc
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.textFile(workingDir.toString() + "/resultOrganization")
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.map(item -> OBJECT_MAPPER.readValue(item, Relation.class));
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System.out.println(tmp.count());
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Assertions.assertEquals(2, tmp.count());
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Assertions.assertEquals(2, rels.count());
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rels.foreach(r -> Assertions.assertTrue(r.getSource().startsWith("50|")));
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rels.foreach(r -> Assertions.assertTrue(r.getTarget().startsWith("20|")));
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}
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}
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