package eu.dnetlib.dhp.actionmanager.bipfinder; import static org.junit.jupiter.api.Assertions.*; import java.io.IOException; import java.nio.file.Files; import java.nio.file.Path; import java.util.List; import org.apache.commons.io.FileUtils; import org.apache.hadoop.io.Text; import org.apache.spark.SparkConf; import org.apache.spark.api.java.JavaRDD; import org.apache.spark.api.java.JavaSparkContext; import org.apache.spark.sql.Dataset; 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 com.fasterxml.jackson.databind.ObjectMapper; import eu.dnetlib.dhp.schema.action.AtomicAction; import eu.dnetlib.dhp.schema.oaf.Publication; import eu.dnetlib.dhp.schema.oaf.Result; public class SparkAtomicActionScoreJobTest { private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper(); private static SparkSession spark; private static Path workingDir; private static final Logger log = LoggerFactory .getLogger(SparkAtomicActionScoreJobTest.class); @BeforeAll public static void beforeAll() throws IOException { workingDir = Files .createTempDirectory(SparkAtomicActionScoreJobTest.class.getSimpleName()); log.info("using work dir {}", workingDir); SparkConf conf = new SparkConf(); conf.setAppName(SparkAtomicActionScoreJobTest.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(SparkAtomicActionScoreJobTest.class.getSimpleName()) .config(conf) .getOrCreate(); } @AfterAll public static void afterAll() throws IOException { FileUtils.deleteDirectory(workingDir.toFile()); spark.stop(); } @Test void testMatch() throws Exception { String bipScoresPath = getClass() .getResource("/eu/dnetlib/dhp/actionmanager/bipfinder/bip_scores_oid.json") .getPath(); String inputPath = getClass() .getResource( "/eu/dnetlib/dhp/actionmanager/bipfinder/publicationoaid.json") .getPath(); SparkAtomicActionScoreJob .main( new String[] { "-isSparkSessionManaged", Boolean.FALSE.toString(), "-inputPath", bipScoresPath, "-outputPath", workingDir.toString() + "/actionSet" }); final JavaSparkContext sc = new JavaSparkContext(spark.sparkContext()); JavaRDD tmp = sc .sequenceFile(workingDir.toString() + "/actionSet", Text.class, Text.class) .map(value -> OBJECT_MAPPER.readValue(value._2().toString(), AtomicAction.class)) .map(aa -> ((Result) aa.getPayload())); assertEquals(4, tmp.count()); Dataset verificationDataset = spark.createDataset(tmp.rdd(), Encoders.bean(Result.class)); verificationDataset.createOrReplaceTempView("result"); Dataset execVerification = spark .sql( "Select p.id oaid, mes.id, mUnit.value from result p " + "lateral view explode(measures) m as mes " + "lateral view explode(mes.unit) u as mUnit "); Assertions.assertEquals(12, execVerification.count()); Assertions .assertEquals( "6.63451994567e-09", execVerification .filter( "oaid='50|arXiv_dedup_::4a2d5fd8d71daec016c176ec71d957b1' " + "and id = 'influence'") .select("value") .collectAsList() .get(0) .getString(0)); Assertions .assertEquals( "0.348694533145", execVerification .filter( "oaid='50|arXiv_dedup_::4a2d5fd8d71daec016c176ec71d957b1' " + "and id = 'popularity_alt'") .select("value") .collectAsList() .get(0) .getString(0)); Assertions .assertEquals( "2.16094680115e-09", execVerification .filter( "oaid='50|arXiv_dedup_::4a2d5fd8d71daec016c176ec71d957b1' " + "and id = 'popularity'") .select("value") .collectAsList() .get(0) .getString(0)); } }