forked from D-Net/dnet-hadoop
275 lines
7.8 KiB
Java
275 lines
7.8 KiB
Java
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package eu.dnetlib.dhp.resulttocommunityfromsemrel;
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import static org.apache.spark.sql.functions.desc;
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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.List;
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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.Encoders;
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import org.apache.spark.sql.Row;
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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.schema.oaf.Dataset;
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public class ResultToCommunityJobTest {
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private static final Logger log = LoggerFactory.getLogger(ResultToCommunityJobTest.class);
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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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@BeforeAll
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public static void beforeAll() throws IOException {
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workingDir = Files.createTempDirectory(ResultToCommunityJobTest.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(ResultToCommunityJobTest.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(ResultToCommunityJobTest.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 testSparkResultToCommunityThroughSemRelJob() throws Exception {
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SparkResultToCommunityThroughSemRelJob
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.main(
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new String[] {
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"-isTest", Boolean.TRUE.toString(),
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"-isSparkSessionManaged", Boolean.FALSE.toString(),
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"-sourcePath", getClass()
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.getResource("/eu/dnetlib/dhp/resulttocommunityfromsemrel/sample")
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.getPath(),
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"-hive_metastore_uris", "",
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"-resultTableName", "eu.dnetlib.dhp.schema.oaf.Dataset",
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"-outputPath", workingDir.toString() + "/dataset",
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"-preparedInfoPath", getClass()
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.getResource("/eu/dnetlib/dhp/resulttocommunityfromsemrel/preparedInfo")
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.getPath()
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});
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final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
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JavaRDD<Dataset> tmp = sc
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.textFile(workingDir.toString() + "/dataset")
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.map(item -> OBJECT_MAPPER.readValue(item, Dataset.class));
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Assertions.assertEquals(10, tmp.count());
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org.apache.spark.sql.Dataset<Dataset> verificationDataset = spark
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.createDataset(tmp.rdd(), Encoders.bean(Dataset.class));
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verificationDataset.createOrReplaceTempView("dataset");
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String query = "select id, MyT.id community "
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+ "from dataset "
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+ "lateral view explode(context) c as MyT "
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+ "lateral view explode(MyT.datainfo) d as MyD "
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+ "where MyD.inferenceprovenance = 'propagation'";
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org.apache.spark.sql.Dataset<Row> resultExplodedProvenance = spark.sql(query);
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Assertions.assertEquals(5, resultExplodedProvenance.count());
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Assertions
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.assertEquals(
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0,
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resultExplodedProvenance
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.filter("id = '50|dedup_wf_001::2305908abeca9da37eaf3bddcaf81b7b'")
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.count());
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Assertions
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.assertEquals(
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1,
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resultExplodedProvenance
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.filter("id = '50|dedup_wf_001::0489ae524201eedaa775da282dce35e7'")
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.count());
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Assertions
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.assertEquals(
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"dh-ch",
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resultExplodedProvenance
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.select("community")
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.where(
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resultExplodedProvenance
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.col("id")
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.equalTo(
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"50|dedup_wf_001::0489ae524201eedaa775da282dce35e7"))
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.collectAsList()
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.get(0)
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.getString(0));
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Assertions
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.assertEquals(
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3,
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resultExplodedProvenance
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.filter("id = '50|dedup_wf_001::0a60e33b4f0986ebd9819451f2d87a28'")
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.count());
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List<Row> rowList = resultExplodedProvenance
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.select("community")
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.where(
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resultExplodedProvenance
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.col("id")
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.equalTo(
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"50|dedup_wf_001::0a60e33b4f0986ebd9819451f2d87a28"))
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.sort(desc("community"))
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.collectAsList();
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Assertions.assertEquals("mes", rowList.get(0).getString(0));
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Assertions.assertEquals("fam", rowList.get(1).getString(0));
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Assertions.assertEquals("ee", rowList.get(2).getString(0));
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Assertions
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.assertEquals(
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1,
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resultExplodedProvenance
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.filter("id = '50|dedup_wf_001::0ae02edb5598a5545d10b107fcf48dcc'")
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.count());
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Assertions
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.assertEquals(
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"aginfra",
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resultExplodedProvenance
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.select("community")
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.where(
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resultExplodedProvenance
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.col("id")
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.equalTo(
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"50|dedup_wf_001::0ae02edb5598a5545d10b107fcf48dcc"))
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.collectAsList()
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.get(0)
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.getString(0));
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query = "select id, MyT.id community "
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+ "from dataset "
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+ "lateral view explode(context) c as MyT "
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+ "lateral view explode(MyT.datainfo) d as MyD ";
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org.apache.spark.sql.Dataset<Row> resultCommunityId = spark.sql(query);
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Assertions.assertEquals(10, resultCommunityId.count());
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Assertions
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.assertEquals(
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2,
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resultCommunityId
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.filter("id = '50|dedup_wf_001::0489ae524201eedaa775da282dce35e7'")
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.count());
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rowList = resultCommunityId
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.select("community")
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.where(
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resultCommunityId
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.col("id")
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.equalTo(
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"50|dedup_wf_001::0489ae524201eedaa775da282dce35e7"))
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.sort(desc("community"))
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.collectAsList();
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Assertions.assertEquals("dh-ch", rowList.get(0).getString(0));
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Assertions.assertEquals("beopen", rowList.get(1).getString(0));
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Assertions
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.assertEquals(
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3,
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resultCommunityId
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.filter("id = '50|dedup_wf_001::0a60e33b4f0986ebd9819451f2d87a28'")
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.count());
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rowList = resultCommunityId
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.select("community")
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.where(
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resultCommunityId
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.col("id")
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.equalTo(
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"50|dedup_wf_001::0a60e33b4f0986ebd9819451f2d87a28"))
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.sort(desc("community"))
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.collectAsList();
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Assertions.assertEquals("mes", rowList.get(0).getString(0));
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Assertions.assertEquals("fam", rowList.get(1).getString(0));
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Assertions.assertEquals("ee", rowList.get(2).getString(0));
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Assertions
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.assertEquals(
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2,
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resultCommunityId
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.filter("id = '50|dedup_wf_001::0ae02edb5598a5545d10b107fcf48dcc'")
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.count());
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rowList = resultCommunityId
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.select("community")
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.where(
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resultCommunityId
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.col("id")
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.equalTo(
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"50|dedup_wf_001::0ae02edb5598a5545d10b107fcf48dcc"))
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.sort(desc("community"))
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.collectAsList();
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Assertions.assertEquals("beopen", rowList.get(0).getString(0));
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Assertions.assertEquals("aginfra", rowList.get(1).getString(0));
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Assertions
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.assertEquals(
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2,
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resultCommunityId
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.filter("id = '50|dedup_wf_001::2305908abeca9da37eaf3bddcaf81b7b'")
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.count());
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rowList = resultCommunityId
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.select("community")
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.where(
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resultCommunityId
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.col("id")
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.equalTo(
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"50|dedup_wf_001::2305908abeca9da37eaf3bddcaf81b7b"))
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.sort(desc("community"))
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.collectAsList();
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Assertions.assertEquals("euromarine", rowList.get(1).getString(0));
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Assertions.assertEquals("ni", rowList.get(0).getString(0));
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Assertions
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.assertEquals(
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1,
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resultCommunityId
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.filter("id = '50|doajarticles::8d817039a63710fcf97e30f14662c6c8'")
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.count());
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Assertions
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.assertEquals(
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"euromarine",
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resultCommunityId
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.select("community")
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.where(
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resultCommunityId
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.col("id")
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.equalTo(
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"50|doajarticles::8d817039a63710fcf97e30f14662c6c8"))
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.collectAsList()
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.get(0)
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.getString(0));
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}
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}
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