package eu.dnetlib.dhp.bulktag; import com.fasterxml.jackson.databind.ObjectMapper; import eu.dnetlib.dhp.schema.oaf.*; import org.apache.commons.io.FileUtils; import org.apache.commons.io.IOUtils; 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.Row; 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; import java.io.IOException; import java.nio.file.Files; import java.nio.file.Path; import java.util.List; import static eu.dnetlib.dhp.bulktag.community.TaggingConstants.ZENODO_COMMUNITY_INDICATOR; public class EOSCTagJobTest { private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper(); private static SparkSession spark; private static Path workingDir; private static final Logger log = LoggerFactory.getLogger(EOSCTagJobTest.class); @BeforeAll public static void beforeAll() throws IOException { workingDir = Files.createTempDirectory(EOSCTagJobTest.class.getSimpleName()); log.info("using work dir {}", workingDir); SparkConf conf = new SparkConf(); conf.setAppName(EOSCTagJobTest.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(EOSCTagJobTest.class.getSimpleName()) .config(conf) .getOrCreate(); } @AfterAll public static void afterAll() throws IOException { FileUtils.deleteDirectory(workingDir.toFile()); spark.stop(); } @Test void jupyterUpdatesTest() throws Exception { spark.read().textFile(getClass().getResource("/eu/dnetlib/dhp/eosctag/jupyter/software").getPath()) .map((MapFunction) value -> OBJECT_MAPPER.readValue(value, Software.class), Encoders.bean(Software.class)) .write() .option("compression","gzip") .json(workingDir.toString() + "/input/software"); spark.read().textFile(getClass().getResource("/eu/dnetlib/dhp/eosctag/jupyter/dataset").getPath()) .map((MapFunction) value -> OBJECT_MAPPER.readValue(value, Dataset.class), Encoders.bean(Dataset.class)) .write() .option("compression","gzip") .json(workingDir.toString() + "/input/dataset"); spark.read().textFile(getClass().getResource("/eu/dnetlib/dhp/eosctag/jupyter/otherresearchproduct").getPath()) .map((MapFunction) value -> OBJECT_MAPPER.readValue(value, OtherResearchProduct.class), Encoders.bean(OtherResearchProduct.class)) .write() .option("compression","gzip") .json(workingDir.toString() + "/input/otherresearchproduct"); SparkEoscTag .main( new String[] { "-isSparkSessionManaged", Boolean.FALSE.toString(), "-sourcePath", workingDir.toString() + "/input", "-workingPath", workingDir.toString() + "/working" }); final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext()); JavaRDD tmp = sc .textFile(workingDir.toString() + "/input/software") .map(item -> OBJECT_MAPPER.readValue(item, Software.class)); Assertions.assertEquals(10, tmp.count()); Assertions.assertEquals(4, tmp.filter(s -> s.getSubject().stream().anyMatch(sbj -> sbj.getValue().equals("EOSC::Jupyter Notebook"))).count()); Assertions.assertEquals(2, tmp.filter(sw -> sw.getId().equals("50|od______1582::4132f5ec9496f0d6adc7b00a50a56ff4")).collect() .get(0).getSubject().size()); Assertions.assertTrue(tmp.filter(sw -> sw.getId().equals("50|od______1582::4132f5ec9496f0d6adc7b00a50a56ff4")).collect() .get(0).getSubject().stream().anyMatch(s -> s.getValue().equals("EOSC::Jupyter Notebook"))); Assertions.assertEquals(5, tmp.filter(sw -> sw.getId().equals("50|od______1582::501b25d420f808c8eddcd9b16e917f11")).collect() .get(0).getSubject().size()); Assertions.assertFalse(tmp.filter(sw -> sw.getId().equals("50|od______1582::501b25d420f808c8eddcd9b16e917f11")).collect() .get(0).getSubject().stream().anyMatch(s -> s.getValue().equals("EOSC::Jupyter Notebook"))); Assertions.assertEquals(9, tmp.filter(sw -> sw.getId().equals("50|od______1582::581621232a561b7e8b4952b18b8b0e56")).collect() .get(0).getSubject().size()); Assertions.assertTrue(tmp.filter(sw -> sw.getId().equals("50|od______1582::581621232a561b7e8b4952b18b8b0e56")).collect() .get(0).getSubject().stream().anyMatch(s -> s.getValue().equals("EOSC::Jupyter Notebook"))); Assertions.assertEquals(5, tmp.filter(sw -> sw.getId().equals("50|od______1582::5aec1186054301b66c0c5dc35972a589")).collect() .get(0).getSubject().size()); Assertions.assertFalse(tmp.filter(sw -> sw.getId().equals("50|od______1582::5aec1186054301b66c0c5dc35972a589")).collect() .get(0).getSubject().stream().anyMatch(s -> s.getValue().equals("EOSC::Jupyter Notebook"))); Assertions.assertEquals(9, tmp.filter(sw -> sw.getId().equals("50|od______1582::639909adfad9d708308f2aedb733e4a0")).collect() .get(0).getSubject().size()); Assertions.assertTrue(tmp.filter(sw -> sw.getId().equals("50|od______1582::639909adfad9d708308f2aedb733e4a0")).collect() .get(0).getSubject().stream().anyMatch(s -> s.getValue().equals("EOSC::Jupyter Notebook"))); List subjects = tmp.filter(sw -> sw.getId().equals("50|od______1582::6e7a9b21a2feef45673890432af34244")).collect() .get(0).getSubject(); Assertions.assertEquals(8, subjects.size()); Assertions.assertTrue(subjects.stream().anyMatch(s -> s.getValue().equals("EOSC::Jupyter Notebook"))); Assertions.assertTrue(subjects.stream().anyMatch(s -> s.getValue().equals("jupyter"))); Assertions.assertTrue(subjects.stream().anyMatch(s -> s.getValue().equals("Modeling and Simulation"))); Assertions.assertTrue(subjects.stream().anyMatch(s -> s.getValue().equals("structure granulaire"))); Assertions.assertTrue(subjects.stream().anyMatch(s -> s.getValue().equals("algorithme"))); Assertions.assertTrue(subjects.stream().anyMatch(s -> s.getValue().equals("simulation numérique"))); Assertions.assertTrue(subjects.stream().anyMatch(s -> s.getValue().equals("flux de gaz"))); Assertions.assertTrue(subjects.stream().anyMatch(s -> s.getValue().equals("flux de liquide"))); Assertions.assertEquals(10, sc .textFile(workingDir.toString() + "/input/dataset") .map(item -> OBJECT_MAPPER.readValue(item, Dataset.class)).count()); Assertions.assertEquals(0, sc .textFile(workingDir.toString() + "/input/dataset") .map(item -> OBJECT_MAPPER.readValue(item, Dataset.class)).filter(ds -> ds.getSubject().stream().anyMatch(sbj -> sbj.getValue().equals("EOSC::Jupyter Notebook"))).count()); Assertions.assertEquals(10, sc .textFile(workingDir.toString() + "/input/otherresearchproduct") .map(item -> OBJECT_MAPPER.readValue(item, OtherResearchProduct.class)).count()); Assertions.assertEquals(0, sc .textFile(workingDir.toString() + "/input/otherresearchproduct") .map(item -> OBJECT_MAPPER.readValue(item, OtherResearchProduct.class)).filter(ds -> ds.getSubject().stream().anyMatch(sbj -> sbj.getValue().equals("EOSC::Jupyter Notebook"))).count()); } }