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first tests for the pid graph dump

This commit is contained in:
Miriam Baglioni 2020-08-24 16:51:26 +02:00
parent 40c8d2de7b
commit 630a6a1fe7
5 changed files with 781 additions and 0 deletions
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96
dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/dump/pid/DumpAuthorTest.java Normal file
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package eu.dnetlib.dhp.oa.graph.dump.pid;
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.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.dump.pidgraph.Entity;
public class DumpAuthorTest {
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
private static SparkSession spark;
private static Path workingDir;
private static final Logger log = LoggerFactory.getLogger(DumpAuthorTest.class);
@BeforeAll
public static void beforeAll() throws IOException {
workingDir = Files.createTempDirectory(DumpAuthorTest.class.getSimpleName());
log.info("using work dir {}", workingDir);
SparkConf conf = new SparkConf();
conf.setAppName(DumpAuthorTest.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(DumpAuthorTest.class.getSimpleName())
.config(conf)
.getOrCreate();
}
@AfterAll
public static void afterAll() throws IOException {
FileUtils.deleteDirectory(workingDir.toFile());
spark.stop();
}
@Test
public void testDumpAuthorPids() throws Exception {
final String sourcePath = getClass()
.getResource("/eu/dnetlib/dhp/oa/graph/dump/pid/result")
.getPath();
SparkDumpPidAuthor.main(new String[] {
"-isSparkSessionManaged", Boolean.FALSE.toString(),
"-outputPath", workingDir.toString(),
"-sourcePath", sourcePath,
"-allowedAuthorPids", "[\"orcid\", \"mag\"]"
});
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
JavaRDD<Entity> tmp = sc
.textFile(workingDir.toString() + "/author")
.map(item -> OBJECT_MAPPER.readValue(item, Entity.class));
org.apache.spark.sql.Dataset<Entity> verificationDataset = spark
.createDataset(tmp.rdd(), Encoders.bean(Entity.class));
verificationDataset.show(false);
Assertions.assertEquals(3, verificationDataset.count());
Assertions.assertEquals(1, verificationDataset.filter("id = 'mag:fakemag'").count());
Assertions.assertEquals(2, verificationDataset.filter("substr(id,1,5) = 'orcid'").count());
}
}

161
dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/dump/pid/DumpResultRelationTest.java Normal file
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package eu.dnetlib.dhp.oa.graph.dump.pid;
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.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;
import com.fasterxml.jackson.databind.ObjectMapper;
import eu.dnetlib.dhp.schema.dump.oaf.graph.Relation;
import eu.dnetlib.dhp.schema.dump.pidgraph.Entity;
public class DumpResultRelationTest {
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
private static SparkSession spark;
private static Path workingDir;
private static final Logger log = LoggerFactory.getLogger(DumpResultRelationTest.class);
@BeforeAll
public static void beforeAll() throws IOException {
workingDir = Files.createTempDirectory(DumpResultRelationTest.class.getSimpleName());
log.info("using work dir {}", workingDir);
SparkConf conf = new SparkConf();
conf.setAppName(DumpResultRelationTest.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(DumpAuthorTest.class.getSimpleName())
.config(conf)
.getOrCreate();
}
@AfterAll
public static void afterAll() throws IOException {
FileUtils.deleteDirectory(workingDir.toFile());
spark.stop();
}
@Test
public void testDumpResultRelationPids() throws Exception {
final String sourcePath = getClass()
.getResource("/eu/dnetlib/dhp/oa/graph/dump/pid/preparedInfoDR")
.getPath();
SparkDumpResultRelation.main(new String[] {
"-isSparkSessionManaged", Boolean.FALSE.toString(),
"-outputPath", workingDir.toString(),
"-preparedInfoPath", sourcePath
});
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
JavaRDD<Relation> tmp = sc
.textFile(workingDir.toString() + "/relation")
.map(item -> OBJECT_MAPPER.readValue(item, Relation.class));
org.apache.spark.sql.Dataset<Relation> verificationDataset = spark
.createDataset(tmp.rdd(), Encoders.bean(Relation.class));
verificationDataset.show(100, false);
Assertions.assertEquals(32, verificationDataset.count());
Assertions
.assertEquals(
1, verificationDataset
.filter(
"source.id = 'orcid:0000-0001-9317-9350' and " +
"relType.name = 'sameAs' and target.id = 'mag:fakeMag'")
.count());
Assertions
.assertEquals(
4, verificationDataset
.filter(
"source.id = 'orcid:0000-0001-9317-9350' and " +
"relType.name = 'isAuthorOf'")
.count());
Assertions
.assertEquals(
4, verificationDataset
.filter(
"target.id = 'orcid:0000-0001-9317-9350' and " +
"relType.name = 'hasAuthor'")
.count());
Assertions
.assertEquals(
1, verificationDataset
.filter(
"source.id = 'orcid:0000-0001-9317-9350' and " +
"relType.name = 'hasCoAuthor'")
.count());
Assertions
.assertEquals(
1, verificationDataset
.filter(
"source.id = 'orcid:0000-0001-9317-9350' and " +
"relType.name = 'hasCoAuthor' and target.id = 'orcid:0000-0002-1114-4216'")
.count());
Assertions
.assertEquals(
2, verificationDataset
.filter(
"source.id = 'orcid:0000-0002-1114-4216' and " +
"relType.name = 'hasCoAuthor'")
.count());
Assertions
.assertEquals(
1, verificationDataset
.filter(
"target.id = 'orcid:0000-0001-9317-9350' and " +
"relType.name = 'hasCoAuthor' and source.id = 'orcid:0000-0002-1114-4216'")
.count());
Assertions
.assertEquals(
1, verificationDataset
.filter(
"target.id = 'mag:fakeMag' and " +
"relType.name = 'hasCoAuthor' and source.id = 'orcid:0000-0002-1114-4216'")
.count());
Assertions.assertEquals(4, verificationDataset.filter("relType.name = 'hasOtherManifestation'").count());
//
// Assertions.assertEquals(1, verificationDataset.filter("id = 'mag:fakemag'").count());
//
// Assertions.assertEquals(2, verificationDataset.filter("substr(id,1,5) = 'orcid'").count());
}
}

96
dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/dump/pid/DumpResultTest.java Normal file
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package eu.dnetlib.dhp.oa.graph.dump.pid;
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.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;
import com.fasterxml.jackson.databind.ObjectMapper;
import eu.dnetlib.dhp.schema.dump.pidgraph.Entity;
public class DumpResultTest {
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
private static SparkSession spark;
private static Path workingDir;
private static final Logger log = LoggerFactory.getLogger(DumpResultTest.class);
@BeforeAll
public static void beforeAll() throws IOException {
workingDir = Files.createTempDirectory(DumpResultTest.class.getSimpleName());
log.info("using work dir {}", workingDir);
SparkConf conf = new SparkConf();
conf.setAppName(DumpAuthorTest.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(DumpResultTest.class.getSimpleName())
.config(conf)
.getOrCreate();
}
@AfterAll
public static void afterAll() throws IOException {
FileUtils.deleteDirectory(workingDir.toFile());
spark.stop();
}
@Test
public void testDumpResultPids() throws Exception {
final String sourcePath = getClass()
.getResource("/eu/dnetlib/dhp/oa/graph/dump/pid/preparedInfo")
.getPath();
SparkDumpPidResult.main(new String[] {
"-isSparkSessionManaged", Boolean.FALSE.toString(),
"-outputPath", workingDir.toString(),
"-preparedInfoPath", sourcePath
});
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
JavaRDD<Entity> tmp = sc
.textFile(workingDir.toString() + "/result")
.map(item -> OBJECT_MAPPER.readValue(item, Entity.class));
org.apache.spark.sql.Dataset<Entity> verificationDataset = spark
.createDataset(tmp.rdd(), Encoders.bean(Entity.class));
Assertions.assertEquals(35, verificationDataset.count());
Assertions.assertEquals(32, verificationDataset.filter("substr(id,1,3) = 'doi'").count());
Assertions.assertEquals(1, verificationDataset.filter("substr(id,1,3) = 'pdb'").count());
Assertions.assertEquals(1, verificationDataset.filter("substr(id,1,4) = 'pmid'").count());
Assertions.assertEquals(1, verificationDataset.filter("substr(id,1,5) = 'arXiv'").count());
}
}

168
dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/dump/pid/PreparedInfoCollectTest.java Normal file
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package eu.dnetlib.dhp.oa.graph.dump.pid;
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.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;
public class PreparedInfoCollectTest {
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
private static SparkSession spark;
private static Path workingDir;
private static final Logger log = LoggerFactory.getLogger(PreparedInfoCollectTest.class);
@BeforeAll
public static void beforeAll() throws IOException {
workingDir = Files.createTempDirectory(PreparedInfoCollectTest.class.getSimpleName());
log.info("using work dir {}", workingDir);
SparkConf conf = new SparkConf();
conf.setAppName(PreparedInfoCollectTest.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(PreparedInfoCollectTest.class.getSimpleName())
.config(conf)
.getOrCreate();
}
@AfterAll
public static void afterAll() throws IOException {
FileUtils.deleteDirectory(workingDir.toFile());
spark.stop();
}
@Test
public void testCollectAndSave() throws Exception {
//software and otherresearchproduct associated preparedInfo files intended to be empty
final String sourcePath = getClass()
.getResource("/eu/dnetlib/dhp/oa/graph/dump/pid/preparedInfoSplit")
.getPath();
SparkCollectPreparedInfo.main(new String[] {
"-isSparkSessionManaged", Boolean.FALSE.toString(),
"-outputPath", workingDir.toString() + "/preparedInfo",
"-preparedInfoPath", sourcePath
});
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
JavaRDD<ResultPidsList> tmp = sc
.textFile(workingDir.toString() + "/preparedInfo")
.map(item -> OBJECT_MAPPER.readValue(item, ResultPidsList.class));
org.apache.spark.sql.Dataset<ResultPidsList> verificationDataset = spark
.createDataset(tmp.rdd(), Encoders.bean(ResultPidsList.class));
Assertions.assertEquals(34, verificationDataset.count());
verificationDataset.createOrReplaceTempView("check");
Assertions
.assertEquals(
33, spark
.sql(
"Select resultId " +
"from check " +
"lateral view explode (resultAllowedPids) r as resallowed " +
" where resallowed.key = 'doi'")
.count());
Assertions
.assertEquals(
4, spark
.sql(
"SELECT pids.value " +
"FROM check " +
"LATERAL VIEW EXPLODE (authorAllowedPids) a as authallowed " +
"LATERAL VIEW EXPLODE (authallowed) a as pids " +
"WHERE pids.key = 'orcid'")
.count());
Assertions
.assertEquals(
1, spark
.sql(
"SELECT pids.value " +
"FROM check " +
"LATERAL VIEW EXPLODE (authorAllowedPids) a as authallowed " +
"LATERAL VIEW EXPLODE (authallowed) a as pids " +
"WHERE pids.key = 'mag'")
.count());
Dataset<Row> check = spark
.sql(
"Select resultId, pids.value orcid, resallowed.key pid_type, resallowed.value pid " +
"from check" +
" lateral view explode(authorAllowedPids) a as authallowed " +
" lateral view explode(authallowed) p as pids " +
" lateral view explode (resultAllowedPids) r as resallowed " +
"where pids.key = 'orcid'");
Assertions.assertEquals(6, check.count());
Assertions
.assertEquals(1, check.filter("resultId = '50|base_oa_____::1a700385222228181f20835bae60a71e'").count());
Assertions
.assertEquals(
1, check
.filter(
"resultId = '50|base_oa_____::1a700385222228181f20835bae60a71e' " +
"and orcid = '0000-0002-1114-4216'")
.count());
Assertions
.assertEquals(
1, check
.filter(
"resultId = '50|base_oa_____::1a700385222228181f20835bae60a71e' " +
"and pid = '10.1016/j.jrmge.2016.11.005'")
.count());
Assertions
.assertEquals(1, check.filter("resultId = '50|base_oa_____::06546a1ad6b1c71e5e366ef15b9ade1f'").count());
Assertions
.assertEquals(
1, check
.filter(
"resultId = '50|base_oa_____::06546a1ad6b1c71e5e366ef15b9ade1f' " +
"and orcid = '0000-0001-9317-9350'")
.count());
Assertions
.assertEquals(
1, check
.filter(
"resultId = '50|base_oa_____::06546a1ad6b1c71e5e366ef15b9ade1f' " +
"and pid = '10.1016/j.jotr.2014.10.003'")
.count());
}
}

260
dhp-workflows/dhp-graph-mapper/src/test/java/eu/dnetlib/dhp/oa/graph/dump/pid/PreparedInfoPidTest.java Normal file
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package eu.dnetlib.dhp.oa.graph.dump.pid;
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.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;
public class PreparedInfoPidTest {
private static final ObjectMapper OBJECT_MAPPER = new ObjectMapper();
private static SparkSession spark;
private static Path workingDir;
private static final Logger log = LoggerFactory.getLogger(PreparedInfoPidTest.class);
@BeforeAll
public static void beforeAll() throws IOException {
workingDir = Files.createTempDirectory(PreparedInfoPidTest.class.getSimpleName());
log.info("using work dir {}", workingDir);
SparkConf conf = new SparkConf();
conf.setAppName(PreparedInfoPidTest.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(PreparedInfoPidTest.class.getSimpleName())
.config(conf)
.getOrCreate();
}
@AfterAll
public static void afterAll() throws IOException {
FileUtils.deleteDirectory(workingDir.toFile());
spark.stop();
}
@Test
public void testPublication() throws Exception {
final String sourcePath = getClass()
.getResource("/eu/dnetlib/dhp/oa/graph/dump/pid/result/publication")
.getPath();
SparkPrepareResultPids.main(new String[] {
"-isSparkSessionManaged", Boolean.FALSE.toString(),
"-outputPath", workingDir.toString() + "/preparedInfo",
"-sourcePath", sourcePath,
"-allowedResultPids", "[\"doi\",\"arxiv\",\"pmc\",\"pmid\",\"pdb\"]",
"-allowedAuthorPids", "[\"orcid\"]",
"-resultTableName", "eu.dnetlib.dhp.schema.oaf.Publication"
});
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
JavaRDD<ResultPidsList> tmp = sc
.textFile(workingDir.toString() + "/preparedInfo/publication")
.map(item -> OBJECT_MAPPER.readValue(item, ResultPidsList.class));
org.apache.spark.sql.Dataset<ResultPidsList> verificationDataset = spark
.createDataset(tmp.rdd(), Encoders.bean(ResultPidsList.class));
Assertions.assertEquals(31, verificationDataset.count());
verificationDataset.createOrReplaceTempView("check");
Assertions
.assertEquals(
31, spark
.sql(
"Select resultId " +
"from check " +
"lateral view explode (resultAllowedPids) r as resallowed " +
" where resallowed.key = 'doi'")
.count());
Dataset<Row> check = spark
.sql(
"Select resultId, pids.value orcid, resallowed.key pid_type, resallowed.value pid " +
"from check" +
" lateral view explode(authorAllowedPids) a as authallowed " +
" lateral view explode(authallowed) p as pids " +
" lateral view explode (resultAllowedPids) r as resallowed " +
"where pids.key = 'orcid'");
Assertions.assertEquals(2, check.count());
Assertions
.assertEquals(1, check.filter("resultId = '50|base_oa_____::1a700385222228181f20835bae60a71e'").count());
Assertions
.assertEquals(
1, check
.filter(
"resultId = '50|base_oa_____::1a700385222228181f20835bae60a71e' " +
"and orcid = '0000-0002-1114-4216'")
.count());
Assertions
.assertEquals(
1, check
.filter(
"resultId = '50|base_oa_____::1a700385222228181f20835bae60a71e' " +
"and pid = '10.1016/j.jrmge.2016.11.005'")
.count());
Assertions
.assertEquals(1, check.filter("resultId = '50|base_oa_____::06546a1ad6b1c71e5e366ef15b9ade1f'").count());
Assertions
.assertEquals(
1, check
.filter(
"resultId = '50|base_oa_____::06546a1ad6b1c71e5e366ef15b9ade1f' " +
"and orcid = '0000-0001-9317-9350'")
.count());
Assertions
.assertEquals(
1, check
.filter(
"resultId = '50|base_oa_____::06546a1ad6b1c71e5e366ef15b9ade1f' " +
"and pid = '10.1016/j.jotr.2014.10.003'")
.count());
}
@Test
public void testDataset() throws Exception {
final String sourcePath = getClass()
.getResource("/eu/dnetlib/dhp/oa/graph/dump/pid/result/dataset")
.getPath();
SparkPrepareResultPids.main(new String[] {
"-isSparkSessionManaged", Boolean.FALSE.toString(),
"-outputPath", workingDir.toString() + "/preparedInfo",
"-sourcePath", sourcePath,
"-allowedResultPids", "[\"doi\",\"arxiv\",\"pmc\",\"pmid\",\"pdb\"]",
"-allowedAuthorPids", "[\"orcid\"]",
"-resultTableName", "eu.dnetlib.dhp.schema.oaf.Dataset"
});
final JavaSparkContext sc = JavaSparkContext.fromSparkContext(spark.sparkContext());
JavaRDD<ResultPidsList> tmp = sc
.textFile(workingDir.toString() + "/preparedInfo/dataset")
.map(item -> OBJECT_MAPPER.readValue(item, ResultPidsList.class));
org.apache.spark.sql.Dataset<ResultPidsList> verificationDataset = spark
.createDataset(tmp.rdd(), Encoders.bean(ResultPidsList.class));
Assertions.assertEquals(3, verificationDataset.count());
verificationDataset.createOrReplaceTempView("check");
Dataset<Row> check = spark
.sql(
"Select resultId, pids.value orcid, resallowed.key pid_type, resallowed.value pid " +
"from check" +
" lateral view explode(authorAllowedPids) a as authallowed " +
" lateral view explode(authallowed) p as pids " +
" lateral view explode (resultAllowedPids) r as resallowed ");
Assertions.assertEquals(4, check.count());
Assertions
.assertEquals(4, check.filter("resultId = '50|_____OmicsDI::00899d9cb1163754943a3277365adc02'").count());
Assertions
.assertEquals(
2, check
.filter(
"resultId = '50|_____OmicsDI::00899d9cb1163754943a3277365adc02' " +
"and (orcid = '0000-0001-9317-9350' or orcid = '0000-0002-1114-4216') and " +
"pid = '10.1016/fake' and pid_type = 'doi' ")
.count());
Assertions
.assertEquals(
2, check
.filter(
"resultId = '50|_____OmicsDI::00899d9cb1163754943a3277365adc02' " +
"and (orcid = '0000-0001-9317-9350' or orcid = '0000-0002-1114-4216') and " +
"pid = '10443fake' and pid_type = 'pmid' ")
.count());
check = spark
.sql(
"Select resultId, authorAllowedPids, resallowed.key pid_type, resallowed.value pid " +
"from check" +
" lateral view explode (resultAllowedPids) r as resallowed ");
Assertions.assertEquals(5, check.count());
Assertions
.assertEquals(2, check.filter("resultId = '50|_____OmicsDI::00899d9cb1163754943a3277365adc02'").count());
Assertions
.assertEquals(
1, check
.filter(
"resultId = '50|_____OmicsDI::00899d9cb1163754943a3277365adc02' " +
" and pid = '10.1016/fake' and pid_type = 'doi' ")
.count());
Assertions
.assertEquals(
1, check
.filter(
"resultId = '50|_____OmicsDI::00899d9cb1163754943a3277365adc02' " +
" and pid = '10443fake' and pid_type = 'pmid' ")
.count());
Assertions
.assertEquals(1, check.filter("resultId = '50|_____OmicsDI::023fd1fcbb64f0f7df0671798a62f379'").count());
Assertions
.assertEquals(
1, check
.filter(
"resultId = '50|_____OmicsDI::023fd1fcbb64f0f7df0671798a62f379' " +
" and pid = 'fakepdb' and pid_type = 'pdb' ")
.count());
Assertions
.assertEquals(2, check.filter("resultId = '50|_____OmicsDI::036d65211a6ac14237c6e2d7cc223386'").count());
Assertions
.assertEquals(
1, check
.filter(
"resultId = '50|_____OmicsDI::036d65211a6ac14237c6e2d7cc223386' " +
" and pid = '10.1016/j.tcs.2012.06.029' and pid_type = 'doi' ")
.count());
Assertions
.assertEquals(
1, check
.filter(
"resultId = '50|_____OmicsDI::036d65211a6ac14237c6e2d7cc223386' " +
" and pid = 'fake_arxiv' and pid_type = 'arXiv' ")
.count());
}
}