dnet-hadoop/dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/clean/CleanCountryTest.java

package eu.dnetlib.dhp.oa.graph.clean;

import java.io.IOException;
import java.nio.file.Files;
import java.nio.file.Path;

import org.apache.commons.io.FileUtils;
import org.apache.spark.SparkConf;
import org.apache.spark.api.java.JavaRDD;
import org.apache.spark.api.java.JavaSparkContext;
import org.apache.spark.api.java.function.MapFunction;
import org.apache.spark.sql.Encoders;
import org.apache.spark.sql.SparkSession;
import org.junit.jupiter.api.AfterAll;
import org.junit.jupiter.api.Assertions;
import org.junit.jupiter.api.BeforeAll;
import org.junit.jupiter.api.Test;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;

/**
 * @author miriam.baglioni
 * @Date 20/07/22
 */
import com.fasterxml.jackson.databind.ObjectMapper;

import eu.dnetlib.dhp.oa.graph.clean.country.CleanCountrySparkJob;
import eu.dnetlib.dhp.schema.oaf.Publication;

public class CleanCountryTest {
	private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();

	private static SparkSession spark;

	private static Path workingDir;

	private static final Logger log = LoggerFactory.getLogger(CleanContextTest.class);

	@BeforeAll
	public static void beforeAll() throws IOException {
		workingDir = Files.createTempDirectory(CleanCountryTest.class.getSimpleName());
		log.info("using work dir {}", workingDir);

		SparkConf conf = new SparkConf();
		conf.setAppName(CleanCountryTest.class.getSimpleName());

		conf.setMaster("local[*]");
		conf.set("spark.driver.host", "localhost");
		conf.set("hive.metastore.local", "true");
		conf.set("spark.ui.enabled", "false");
		conf.set("spark.sql.warehouse.dir", workingDir.toString());
		conf.set("hive.metastore.warehouse.dir", workingDir.resolve("warehouse").toString());

		spark = SparkSession
			.builder()
			.appName(CleanCountryTest.class.getSimpleName())
			.config(conf)
			.getOrCreate();
	}

	@AfterAll
	public static void afterAll() throws IOException {
		FileUtils.deleteDirectory(workingDir.toFile());
		spark.stop();
	}

	@Test
	public void testResultClean() throws Exception {
		final String sourcePath = getClass()
			.getResource("/eu/dnetlib/dhp/oa/graph/clean/publication_clean_country.json")
			.getPath();

		spark
			.read()
			.textFile(sourcePath)
			.map(
				(MapFunction<String, Publication>) r -> OBJECT_MAPPER.readValue(r, Publication.class),
				Encoders.bean(Publication.class))
			.write()
			.json(workingDir.toString() + "/publication");

		CleanCountrySparkJob.main(new String[] {
			"--isSparkSessionManaged", Boolean.FALSE.toString(),
			"--inputPath", workingDir.toString() + "/publication",
			"-graphTableClassName", Publication.class.getCanonicalName(),
			"-workingPath", workingDir.toString() + "/working",
			"-country", "NL",
			"-verifyParam", "10.17632",
			"-collectedfrom", "NARCIS",
			"-hostedBy", getClass()
				.getResource("/eu/dnetlib/dhp/oa/graph/clean/hostedBy")
				.getPath()
		});

		final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
		JavaRDD<Publication> tmp = sc
			.textFile(workingDir.toString() + "/publication")
			.map(item -> OBJECT_MAPPER.readValue(item, Publication.class));

		Assertions.assertEquals(8, tmp.count());

		// original result with NL country and doi starting with Mendely prefix, but not collectedfrom NARCIS
		Assertions
			.assertEquals(
				1,
				tmp
					.filter(p -> p.getId().equals("50|DansKnawCris::0224aae28af558f21768dbc6439c7a95"))
					.collect()
					.get(0)
					.getCountry()
					.size());

		// original result with NL country and pid not starting with Mendely prefix
		Assertions
			.assertEquals(
				1,
				tmp
					.filter(p -> p.getId().equals("50|DansKnawCris::20c414a3b1c742d5dd3851f1b67df2d9"))
					.collect()
					.get(0)
					.getCountry()
					.size());

		// original result with NL country and doi starting with Mendely prefix and collectedfrom NARCIS but not
		// inserted with propagation
		Assertions
			.assertEquals(
				1,
				tmp
					.filter(p -> p.getId().equals("50|DansKnawCris::3c81248c335f0aa07e06817ece6fa6af"))
					.collect()
					.get(0)
					.getCountry()
					.size());

		// original result with NL country and doi starting with Mendely prefix and collectedfrom NARCIS inserted with
		// propagation
		Assertions
			.assertEquals(
				0,
				tmp
					.filter(p -> p.getId().equals("50|DansKnawCris::3c81248c335f0aa07e06817ece6fa6ag"))
					.collect()
					.get(0)
					.getCountry()
					.size());
	}

}