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Test for country propagation

This commit is contained in:
Miriam Baglioni 2020-04-11 16:28:09 +02:00
parent 7783b09c5b
commit 1822476613
1 changed files with 159 additions and 0 deletions
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dhp-workflows/dhp-propagation/src/test/java/eu/dnetlib/dhp/countrypropagation/CountryPropagationJobTest.java
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package eu.dnetlib.dhp.countrypropagation;
import com.google.gson.Gson;
import eu.dnetlib.dhp.schema.common.ModelSupport;
import eu.dnetlib.dhp.schema.oaf.Country;
import eu.dnetlib.dhp.schema.oaf.Datasource;
import eu.dnetlib.dhp.schema.oaf.Software;
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.sql.*;
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;
import com.fasterxml.jackson.databind.ObjectMapper;
import scala.Array;
import scala.Tuple2;
import java.io.IOException;
import java.nio.file.Files;
import java.nio.file.Path;
import java.util.ArrayList;
import java.util.List;
import java.util.stream.Collectors;
public class CountryPropagationJobTest {
private static final Logger log = LoggerFactory.getLogger(CountryPropagationJobTest.class);
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
private static final ClassLoader cl = CountryPropagationJobTest.class.getClassLoader();
private static SparkSession spark;
private static Path workingDir;
@BeforeAll
public static void beforeAll() throws IOException {
workingDir = Files.createTempDirectory(CountryPropagationJobTest.class.getSimpleName());
log.info("using work dir {}", workingDir);
SparkConf conf = new SparkConf();
conf.setAppName(CountryPropagationJobTest.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(CountryPropagationJobTest.class.getSimpleName())
.config(conf)
.getOrCreate();
}
@AfterAll
public static void afterAll() throws IOException {
FileUtils.deleteDirectory(workingDir.toFile());
spark.stop();
}
@Test
public void testCountryPropagationSoftware() throws Exception {
SparkCountryPropagationJob2.main(new String[]{
"-isSparkSessionManaged", Boolean.FALSE.toString(),
"-sourcePath", getClass().getResource("/eu/dnetlib/dhp/countrypropagation/sample/software").getPath(),
"-hive_metastore_uris", "",
"-writeUpdate","false",
"-saveGraph","true",
"-resultTableName","eu.dnetlib.dhp.schema.oaf.Software",
"-outputPath",workingDir.toString() + "/software",
"-preparedInfoPath", getClass().getResource("/eu/dnetlib/dhp/countrypropagation/preparedInfo").getPath(),
});
final JavaSparkContext sc = new JavaSparkContext(spark.sparkContext());
JavaRDD<Software> tmp = sc.textFile(workingDir.toString()+"/software")
.map(item -> OBJECT_MAPPER.readValue(item, Software.class));
//tmp.map(s -> new Gson().toJson(s)).foreach(s -> System.out.println(s));
Assertions.assertEquals(10, tmp.count());
Dataset<Software> verificationDs = spark.createDataset(tmp.rdd(), Encoders.bean(Software.class));
Assertions.assertEquals(6, verificationDs.filter("size(country) > 0").count());
Assertions.assertEquals(3, verificationDs.filter("size(country) = 1").count());
Assertions.assertEquals(3, verificationDs.filter("size(country) = 2").count());
Assertions.assertEquals(0, verificationDs.filter("size(country) > 2").count());
Dataset<String> countryExploded = verificationDs
.flatMap(row -> row.getCountry().iterator(), Encoders.bean(Country.class))
.map(c -> c.getClassid(), Encoders.STRING());
Assertions.assertEquals(9, countryExploded.count());
Assertions.assertEquals(1, countryExploded.filter("value = 'FR'").count());
Assertions.assertEquals(1, countryExploded.filter("value = 'TR'").count());
Assertions.assertEquals(2, countryExploded.filter("value = 'IT'").count());
Assertions.assertEquals(1, countryExploded.filter("value = 'US'").count());
Assertions.assertEquals(1, countryExploded.filter("value = 'MX'").count());
Assertions.assertEquals(1, countryExploded.filter("value = 'CH'").count());
Assertions.assertEquals(2, countryExploded.filter("value = 'JP'").count());
Dataset<Tuple2<String, String>> countryExplodedWithCountryclassid = verificationDs
.flatMap(row -> {
List<Tuple2<String, String>> prova = new ArrayList();
List<Country> country_list = row.getCountry();
country_list.stream().forEach(c -> prova.add(new Tuple2<>(row.getId(), c.getClassid())));
return prova.iterator();
}, Encoders.tuple(Encoders.STRING(), Encoders.STRING()));
Assertions.assertEquals(9, countryExplodedWithCountryclassid.count());
countryExplodedWithCountryclassid.show(false);
Assertions.assertEquals(1, countryExplodedWithCountryclassid.filter("_1 = '50|od______1582::6e7a9b21a2feef45673890432af34244' and _2 = 'FR' ").count());
Assertions.assertEquals(1, countryExplodedWithCountryclassid.filter("_1 = '50|dedup_wf_001::40ea2f24181f6ae77b866ebcbffba523' and _2 = 'TR' ").count());
Assertions.assertEquals(2, countryExplodedWithCountryclassid.filter("_1 = '50|od______1106::2b7ca9726230be8e862be224fd463ac4' and (_2 = 'IT' or _2 = 'MX') ").count());
Assertions.assertEquals(2, countryExplodedWithCountryclassid.filter("_1 = '50|od_______935::46a0ad9964171c3dd13373f5427b9a1c' and (_2 = 'IT' or _2 = 'US') ").count());
Assertions.assertEquals(1, countryExplodedWithCountryclassid.filter("_1 = '50|dedup_wf_001::b67bc915603fc01e445f2b5888ba7218' and _2 = 'JP'").count());
Assertions.assertEquals(2, countryExplodedWithCountryclassid.filter("_1 = '50|od_______109::f375befa62a741e9250e55bcfa88f9a6' and (_2 = 'CH' or _2 = 'JP') ").count());
Dataset<Tuple2<String, String>> countryExplodedWithCountryclassname = verificationDs
.flatMap(row -> {
List<Tuple2<String, String>> prova = new ArrayList();
List<Country> country_list = row.getCountry();
country_list.stream().forEach(c -> prova.add(new Tuple2<>(row.getId(), c.getClassname())));
return prova.iterator();
}, Encoders.tuple(Encoders.STRING(), Encoders.STRING()));
countryExplodedWithCountryclassname.show(false);
Assertions.assertEquals(1, countryExplodedWithCountryclassname.filter("_1 = '50|od______1582::6e7a9b21a2feef45673890432af34244' and _2 = 'France' ").count());
Assertions.assertEquals(1, countryExplodedWithCountryclassname.filter("_1 = '50|dedup_wf_001::40ea2f24181f6ae77b866ebcbffba523' and _2 = 'Turkey' ").count());
Assertions.assertEquals(2, countryExplodedWithCountryclassname.filter("_1 = '50|od______1106::2b7ca9726230be8e862be224fd463ac4' and (_2 = 'Italy' or _2 = 'Mexico') ").count());
Assertions.assertEquals(2, countryExplodedWithCountryclassname.filter("_1 = '50|od_______935::46a0ad9964171c3dd13373f5427b9a1c' and (_2 = 'Italy' or _2 = 'United States') ").count());
Assertions.assertEquals(1, countryExplodedWithCountryclassname.filter("_1 = '50|dedup_wf_001::b67bc915603fc01e445f2b5888ba7218' and _2 = 'Japan' ").count());
Assertions.assertEquals(2, countryExplodedWithCountryclassname.filter("_1 = '50|od_______109::f375befa62a741e9250e55bcfa88f9a6' and (_2 = 'Switzerland' or _2 = 'Japan') ").count());
Dataset<Tuple2<String, String>> countryExplodedWithCountryProvenance = verificationDs
.flatMap(row -> {
List<Tuple2<String, String>> prova = new ArrayList();
List<Country> country_list = row.getCountry();
country_list.stream().forEach(c -> prova.add(new Tuple2<>(row.getId(), c.getDataInfo().getInferenceprovenance())));
return prova.iterator();
}, Encoders.tuple(Encoders.STRING(), Encoders.STRING()));
Assertions.assertEquals(7, countryExplodedWithCountryProvenance.filter("_2 = 'propagation'").count());
}
}