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From "Dongjoon Hyun (JIRA)" <j...@apache.org>
Subject [jira] [Commented] (SPARK-23458) Flaky test: OrcQuerySuite
Date Thu, 10 May 2018 17:01:00 GMT

    [ https://issues.apache.org/jira/browse/SPARK-23458?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=16470735#comment-16470735
] 

Dongjoon Hyun commented on SPARK-23458:
---------------------------------------

Oh, I missed your ping here, [~smilegator]. According to the given log, the remaining flakiness
of HiveExternalCatalogVersionsSuite seems to be `Py4JJavaError`. It's weird.
{code}
2018-05-07 23:14:55.233 - stderr> SLF4J: Class path contains multiple SLF4J bindings.
2018-05-07 23:14:55.233 - stderr> SLF4J: Found binding in [jar:file:/tmp/test-spark/spark-2.0.2/jars/slf4j-log4j12-1.7.16.jar!/org/slf4j/impl/StaticLoggerBinder.class]
2018-05-07 23:14:55.233 - stderr> SLF4J: Found binding in [jar:file:/home/sparkivy/per-executor-caches/4/.ivy2/cache/org.slf4j/slf4j-log4j12/jars/slf4j-log4j12-1.7.16.jar!/org/slf4j/impl/StaticLoggerBinder.class]
2018-05-07 23:14:55.233 - stderr> SLF4J: See http://www.slf4j.org/codes.html#multiple_bindings
for an explanation.
2018-05-07 23:14:55.233 - stderr> SLF4J: Actual binding is of type [org.slf4j.impl.Log4jLoggerFactory]
2018-05-07 23:14:55.532 - stdout> 23:14:55.532 WARN org.apache.hadoop.util.NativeCodeLoader:
Unable to load native-hadoop library for your platform... using builtin-java classes where
applicable
2018-05-07 23:14:57.982 - stdout> 23:14:57.982 WARN DataNucleus.General: Plugin (Bundle)
"org.datanucleus" is already registered. Ensure you dont have multiple JAR versions of the
same plugin in the classpath. The URL "file:/tmp/test-spark/spark-2.0.2/jars/datanucleus-core-3.2.10.jar"
is already registered, and you are trying to register an identical plugin located at URL "file:/home/sparkivy/per-executor-caches/4/.ivy2/cache/org.datanucleus/datanucleus-core/jars/datanucleus-core-3.2.10.jar."
2018-05-07 23:14:57.988 - stdout> 23:14:57.988 WARN DataNucleus.General: Plugin (Bundle)
"org.datanucleus.api.jdo" is already registered. Ensure you dont have multiple JAR versions
of the same plugin in the classpath. The URL "file:/tmp/test-spark/spark-2.0.2/jars/datanucleus-api-jdo-3.2.6.jar"
is already registered, and you are trying to register an identical plugin located at URL "file:/home/sparkivy/per-executor-caches/4/.ivy2/cache/org.datanucleus/datanucleus-api-jdo/jars/datanucleus-api-jdo-3.2.6.jar."
2018-05-07 23:14:57.99 - stdout> 23:14:57.990 WARN DataNucleus.General: Plugin (Bundle)
"org.datanucleus.store.rdbms" is already registered. Ensure you dont have multiple JAR versions
of the same plugin in the classpath. The URL "file:/home/sparkivy/per-executor-caches/4/.ivy2/cache/org.datanucleus/datanucleus-rdbms/jars/datanucleus-rdbms-3.2.9.jar"
is already registered, and you are trying to register an identical plugin located at URL "file:/tmp/test-spark/spark-2.0.2/jars/datanucleus-rdbms-3.2.9.jar."
2018-05-07 23:15:17.844 - stdout> 23:15:17.843 WARN org.apache.hadoop.hive.metastore.ObjectStore:
Version information not found in metastore. hive.metastore.schema.verification is not enabled
so recording the schema version 1.2.0
2018-05-07 23:15:18.152 - stdout> 23:15:18.152 WARN org.apache.hadoop.hive.metastore.ObjectStore:
Failed to get database default, returning NoSuchObjectException
2018-05-07 23:15:22.32 - stdout> Traceback (most recent call last):
2018-05-07 23:15:22.32 - stdout>   File "/home/jenkins/workspace/spark-master-test-sbt-hadoop-2.7/target/tmp/test8334480132298691726.py",
line 8, in <module>
2018-05-07 23:15:22.32 - stdout>     spark.sql("create table data_source_tbl_{} using json
as select 1 i".format(version_index))
2018-05-07 23:15:22.32 - stdout>   File "/tmp/test-spark/spark-2.0.2/python/lib/pyspark.zip/pyspark/sql/session.py",
line 543, in sql
2018-05-07 23:15:22.321 - stdout>   File "/tmp/test-spark/spark-2.0.2/python/lib/py4j-0.10.3-src.zip/py4j/java_gateway.py",
line 1133, in __call__
2018-05-07 23:15:22.321 - stdout>   File "/tmp/test-spark/spark-2.0.2/python/lib/pyspark.zip/pyspark/sql/utils.py",
line 63, in deco
2018-05-07 23:15:22.321 - stdout>   File "/tmp/test-spark/spark-2.0.2/python/lib/py4j-0.10.3-src.zip/py4j/protocol.py",
line 319, in get_return_value
2018-05-07 23:15:22.322 - stdout> py4j.protocol.Py4JJavaError: An error occurred while
calling o28.sql.
2018-05-07 23:15:22.322 - stdout> : java.lang.ExceptionInInitializerError
2018-05-07 23:15:22.322 - stdout> 	at org.apache.spark.sql.execution.SparkPlan.executeQuery(SparkPlan.scala:133)
{code}

Previously, I've been monitoring [Spark QA Dashboard|https://amplab.cs.berkeley.edu/jenkins/view/Spark%20QA%20Test%20(Dashboard)].
I'll take a look at test branches, too.

>  Flaky test: OrcQuerySuite
> --------------------------
>
>                 Key: SPARK-23458
>                 URL: https://issues.apache.org/jira/browse/SPARK-23458
>             Project: Spark
>          Issue Type: Bug
>          Components: SQL, Tests
>    Affects Versions: 2.4.0
>         Environment: AMPLab Jenkins
>            Reporter: Marco Gaido
>            Priority: Major
>
> Sometimes we have UT failures with the following stacktrace:
> {code:java}
> sbt.ForkMain$ForkError: org.scalatest.exceptions.TestFailedDueToTimeoutException: The
code passed to eventually never returned normally. Attempted 15 times over 10.013962218000001
seconds. Last failure message: There are 1 possibly leaked file streams..
> 	at org.scalatest.concurrent.Eventually$class.tryTryAgain$1(Eventually.scala:421)
> 	at org.scalatest.concurrent.Eventually$class.eventually(Eventually.scala:439)
> 	at org.apache.spark.sql.execution.datasources.orc.OrcTest.eventually(OrcTest.scala:45)
> 	at org.scalatest.concurrent.Eventually$class.eventually(Eventually.scala:308)
> 	at org.apache.spark.sql.execution.datasources.orc.OrcTest.eventually(OrcTest.scala:45)
> 	at org.apache.spark.sql.test.SharedSparkSession$class.afterEach(SharedSparkSession.scala:114)
> 	at org.apache.spark.sql.execution.datasources.orc.OrcQuerySuite.afterEach(OrcQuerySuite.scala:583)
> 	at org.scalatest.BeforeAndAfterEach$$anonfun$1.apply$mcV$sp(BeforeAndAfterEach.scala:234)
> 	at org.scalatest.Status$$anonfun$withAfterEffect$1.apply(Status.scala:379)
> 	at org.scalatest.Status$$anonfun$withAfterEffect$1.apply(Status.scala:375)
> 	at org.scalatest.SucceededStatus$.whenCompleted(Status.scala:454)
> 	at org.scalatest.Status$class.withAfterEffect(Status.scala:375)
> 	at org.scalatest.SucceededStatus$.withAfterEffect(Status.scala:426)
> 	at org.scalatest.BeforeAndAfterEach$class.runTest(BeforeAndAfterEach.scala:232)
> 	at org.apache.spark.sql.execution.datasources.orc.OrcQuerySuite.runTest(OrcQuerySuite.scala:583)
> 	at org.scalatest.FunSuiteLike$$anonfun$runTests$1.apply(FunSuiteLike.scala:229)
> 	at org.scalatest.FunSuiteLike$$anonfun$runTests$1.apply(FunSuiteLike.scala:229)
> 	at org.scalatest.SuperEngine$$anonfun$traverseSubNodes$1$1.apply(Engine.scala:396)
> 	at org.scalatest.SuperEngine$$anonfun$traverseSubNodes$1$1.apply(Engine.scala:384)
> 	at scala.collection.immutable.List.foreach(List.scala:381)
> 	at org.scalatest.SuperEngine.traverseSubNodes$1(Engine.scala:384)
> 	at org.scalatest.SuperEngine.org$scalatest$SuperEngine$$runTestsInBranch(Engine.scala:379)
> 	at org.scalatest.SuperEngine.runTestsImpl(Engine.scala:461)
> 	at org.scalatest.FunSuiteLike$class.runTests(FunSuiteLike.scala:229)
> 	at org.scalatest.FunSuite.runTests(FunSuite.scala:1560)
> 	at org.scalatest.Suite$class.run(Suite.scala:1147)
> 	at org.scalatest.FunSuite.org$scalatest$FunSuiteLike$$super$run(FunSuite.scala:1560)
> 	at org.scalatest.FunSuiteLike$$anonfun$run$1.apply(FunSuiteLike.scala:233)
> 	at org.scalatest.FunSuiteLike$$anonfun$run$1.apply(FunSuiteLike.scala:233)
> 	at org.scalatest.SuperEngine.runImpl(Engine.scala:521)
> 	at org.scalatest.FunSuiteLike$class.run(FunSuiteLike.scala:233)
> 	at org.apache.spark.SparkFunSuite.org$scalatest$BeforeAndAfterAll$$super$run(SparkFunSuite.scala:52)
> 	at org.scalatest.BeforeAndAfterAll$class.liftedTree1$1(BeforeAndAfterAll.scala:213)
> 	at org.scalatest.BeforeAndAfterAll$class.run(BeforeAndAfterAll.scala:210)
> 	at org.apache.spark.SparkFunSuite.run(SparkFunSuite.scala:52)
> 	at org.scalatest.tools.Framework.org$scalatest$tools$Framework$$runSuite(Framework.scala:314)
> 	at org.scalatest.tools.Framework$ScalaTestTask.execute(Framework.scala:480)
> 	at sbt.ForkMain$Run$2.call(ForkMain.java:296)
> 	at sbt.ForkMain$Run$2.call(ForkMain.java:286)
> 	at java.util.concurrent.FutureTask.run(FutureTask.java:266)
> 	at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
> 	at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
> 	at java.lang.Thread.run(Thread.java:745)
> Caused by: sbt.ForkMain$ForkError: java.lang.IllegalStateException: There are 1 possibly
leaked file streams.
> 	at org.apache.spark.DebugFilesystem$.assertNoOpenStreams(DebugFilesystem.scala:54)
> 	at org.apache.spark.sql.test.SharedSparkSession$$anonfun$afterEach$1.apply$mcV$sp(SharedSparkSession.scala:115)
> 	at org.apache.spark.sql.test.SharedSparkSession$$anonfun$afterEach$1.apply(SharedSparkSession.scala:115)
> 	at org.apache.spark.sql.test.SharedSparkSession$$anonfun$afterEach$1.apply(SharedSparkSession.scala:115)
> 	at org.scalatest.concurrent.Eventually$class.makeAValiantAttempt$1(Eventually.scala:395)
> 	at org.scalatest.concurrent.Eventually$class.tryTryAgain$1(Eventually.scala:409)
> 	... 42 more
> Caused by: sbt.ForkMain$ForkError: java.lang.Throwable: null
> 	at org.apache.spark.DebugFilesystem$.addOpenStream(DebugFilesystem.scala:36)
> 	at org.apache.spark.DebugFilesystem.open(DebugFilesystem.scala:70)
> 	at org.apache.hadoop.fs.FileSystem.open(FileSystem.java:766)
> 	at org.apache.orc.impl.RecordReaderUtils$DefaultDataReader.open(RecordReaderUtils.java:173)
> 	at org.apache.orc.impl.RecordReaderImpl.<init>(RecordReaderImpl.java:254)
> 	at org.apache.orc.impl.ReaderImpl.rows(ReaderImpl.java:633)
> 	at org.apache.spark.sql.execution.datasources.orc.OrcColumnarBatchReader.initialize(OrcColumnarBatchReader.java:140)
> 	at org.apache.spark.sql.execution.datasources.orc.OrcFileFormat$$anonfun$buildReaderWithPartitionValues$2.apply(OrcFileFormat.scala:197)
> 	at org.apache.spark.sql.execution.datasources.orc.OrcFileFormat$$anonfun$buildReaderWithPartitionValues$2.apply(OrcFileFormat.scala:161)
> 	at org.apache.spark.sql.execution.datasources.FileScanRDD$$anon$1.org$apache$spark$sql$execution$datasources$FileScanRDD$$anon$$readCurrentFile(FileScanRDD.scala:125)
> 	at org.apache.spark.sql.execution.datasources.FileScanRDD$$anon$1.nextIterator(FileScanRDD.scala:179)
> 	at org.apache.spark.sql.execution.datasources.FileScanRDD$$anon$1.hasNext(FileScanRDD.scala:106)
> 	at org.apache.spark.sql.catalyst.expressions.GeneratedClass$GeneratedIteratorForCodegenStage1.scan_nextBatch$(Unknown
Source)
> 	at org.apache.spark.sql.catalyst.expressions.GeneratedClass$GeneratedIteratorForCodegenStage1.processNext(Unknown
Source)
> 	at org.apache.spark.sql.execution.BufferedRowIterator.hasNext(BufferedRowIterator.java:43)
> 	at org.apache.spark.sql.execution.WholeStageCodegenExec$$anonfun$10$$anon$1.hasNext(WholeStageCodegenExec.scala:614)
> 	at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:408)
> 	at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:408)
> 	at org.apache.spark.util.Utils$.getIteratorSize(Utils.scala:1834)
> 	at org.apache.spark.rdd.RDD$$anonfun$count$1.apply(RDD.scala:1162)
> 	at org.apache.spark.rdd.RDD$$anonfun$count$1.apply(RDD.scala:1162)
> 	at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:2063)
> 	at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:2063)
> 	at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:87)
> 	at org.apache.spark.scheduler.Task.run(Task.scala:109)
> 	at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:345)
> 	... 3 more
> {code}
> Please see https://amplab.cs.berkeley.edu/jenkins/job/SparkPullRequestBuilder/87486/testReport/org.apache.spark.sql.execution.datasources.orc/OrcQuerySuite/_It_is_not_a_test_it_is_a_sbt_testing_SuiteSelector_/.
> - https://amplab.cs.berkeley.edu/jenkins/view/Spark%20QA%20Test/job/spark-master-test-sbt-hadoop-2.6/4455/testReport/junit/org.apache.spark.sql.execution.datasources.orc/OrcQuerySuite/_It_is_not_a_test_it_is_a_sbt_testing_SuiteSelector_/



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