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Hyukjin Kwon commented on SPARK-20784: -------------------------------------- Thank you for checking this out. > Spark hangs (v2.0) or Futures timed out (v2.1) after a joinWith() and cache() > in YARN client mode > ------------------------------------------------------------------------------------------------- > > Key: SPARK-20784 > URL: https://issues.apache.org/jira/browse/SPARK-20784 > Project: Spark > Issue Type: Bug > Components: Spark Core > Affects Versions: 2.0.2, 2.1.1 > Reporter: Mathieu D > > Spark hangs and stop executing any job or task (v2.0.2). > Web UI shows *0 active stages* and *0 active task* on executors, although a > driver thread is clearly working/finishing a stage (see below). > Our application runs several spark contexts for several users in parallel in > threads. spark version 2.0.2, yarn-client > Extract of thread stack below. > {noformat} > "ForkJoinPool-1-worker-0" #107 daemon prio=5 os_prio=0 tid=0x00007fddf0005800 > nid=0x484 waiting on condition [0x00007fddd0bf > 6000] > java.lang.Thread.State: WAITING (parking) > at sun.misc.Unsafe.park(Native Method) > - parking to wait for <0x000000078c232760> (a > scala.concurrent.impl.Promise$CompletionLatch) > at java.util.concurrent.locks.LockSupport.park(LockSupport.java:175) > at > java.util.concurrent.locks.AbstractQueuedSynchronizer.parkAndCheckInterrupt(AbstractQueuedSynchronizer.java:836) > at > java.util.concurrent.locks.AbstractQueuedSynchronizer.doAcquireSharedInterruptibly(AbstractQueuedSynchronizer.java:997) > at > java.util.concurrent.locks.AbstractQueuedSynchronizer.acquireSharedInterruptibly(AbstractQueuedSynchronizer.java:1304) > at > scala.concurrent.impl.Promise$DefaultPromise.tryAwait(Promise.scala:202) > at > scala.concurrent.impl.Promise$DefaultPromise.ready(Promise.scala:218) > at > scala.concurrent.impl.Promise$DefaultPromise.result(Promise.scala:223) > at > org.apache.spark.util.ThreadUtils$.awaitResultInForkJoinSafely(ThreadUtils.scala:212) > at > org.apache.spark.sql.execution.exchange.BroadcastExchangeExec.doExecuteBroadcast(BroadcastExchangeExec.scala:120) > at > org.apache.spark.sql.execution.InputAdapter.doExecuteBroadcast(WholeStageCodegenExec.scala:229) > at > org.apache.spark.sql.execution.SparkPlan$$anonfun$executeBroadcast$1.apply(SparkPlan.scala:125) > at > org.apache.spark.sql.execution.SparkPlan$$anonfun$executeBroadcast$1.apply(SparkPlan.scala:125) > at > org.apache.spark.sql.execution.SparkPlan$$anonfun$executeQuery$1.apply(SparkPlan.scala:136) > at > org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151) > at > org.apache.spark.sql.execution.SparkPlan.executeQuery(SparkPlan.scala:133) > at > org.apache.spark.sql.execution.SparkPlan.executeBroadcast(SparkPlan.scala:124) > at > org.apache.spark.sql.execution.joins.BroadcastHashJoinExec.prepareBroadcast(BroadcastHashJoinExec.scala:98) > at > org.apache.spark.sql.execution.joins.BroadcastHashJoinExec.codegenInner(BroadcastHashJoinExec.scala:197) > at > org.apache.spark.sql.execution.joins.BroadcastHashJoinExec.doConsume(BroadcastHashJoinExec.scala:82) > at > org.apache.spark.sql.execution.CodegenSupport$class.consume(WholeStageCodegenExec.scala:153) > at > org.apache.spark.sql.execution.ProjectExec.consume(basicPhysicalOperators.scala:30) > at > org.apache.spark.sql.execution.ProjectExec.doConsume(basicPhysicalOperators.scala:62) > at > org.apache.spark.sql.execution.CodegenSupport$class.consume(WholeStageCodegenExec.scala:153) > at > org.apache.spark.sql.execution.InputAdapter.consume(WholeStageCodegenExec.scala:218) > at > org.apache.spark.sql.execution.InputAdapter.doProduce(WholeStageCodegenExec.scala:244) > at > org.apache.spark.sql.execution.CodegenSupport$$anonfun$produce$1.apply(WholeStageCodegenExec.scala:83) > at > org.apache.spark.sql.execution.CodegenSupport$$anonfun$produce$1.apply(WholeStageCodegenExec.scala:78) > at > org.apache.spark.sql.execution.SparkPlan$$anonfun$executeQuery$1.apply(SparkPlan.scala:136) > at > org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151) > at > org.apache.spark.sql.execution.SparkPlan.executeQuery(SparkPlan.scala:133) > at > org.apache.spark.sql.execution.CodegenSupport$class.produce(WholeStageCodegenExec.scala:78) > at > org.apache.spark.sql.execution.InputAdapter.produce(WholeStageCodegenExec.scala:218) > at > org.apache.spark.sql.execution.ProjectExec.doProduce(basicPhysicalOperators.scala:40) > at > org.apache.spark.sql.execution.CodegenSupport$$anonfun$produce$1.apply(WholeStageCodegenExec.scala:83) > at > org.apache.spark.sql.execution.CodegenSupport$$anonfun$produce$1.apply(WholeStageCodegenExec.scala:78) > at > org.apache.spark.sql.execution.SparkPlan$$anonfun$executeQuery$1.apply(SparkPlan.scala:136) > at > org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151) > at > org.apache.spark.sql.execution.SparkPlan.executeQuery(SparkPlan.scala:133) > at > org.apache.spark.sql.execution.CodegenSupport$class.produce(WholeStageCodegenExec.scala:78) > at > org.apache.spark.sql.execution.ProjectExec.produce(basicPhysicalOperators.scala:30) > at > org.apache.spark.sql.execution.joins.BroadcastHashJoinExec.doProduce(BroadcastHashJoinExec.scala:77) > at > org.apache.spark.sql.execution.CodegenSupport$$anonfun$produce$1.apply(WholeStageCodegenExec.scala:83) > at > org.apache.spark.sql.execution.CodegenSupport$$anonfun$produce$1.apply(WholeStageCodegenExec.scala:78) > at > org.apache.spark.sql.execution.SparkPlan$$anonfun$executeQuery$1.apply(SparkPlan.scala:136) > at > org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151) > at > org.apache.spark.sql.execution.SparkPlan.executeQuery(SparkPlan.scala:133) > at > org.apache.spark.sql.execution.CodegenSupport$class.produce(WholeStageCodegenExec.scala:78) > at > org.apache.spark.sql.execution.joins.BroadcastHashJoinExec.produce(BroadcastHashJoinExec.scala:38) > at > org.apache.spark.sql.execution.ProjectExec.doProduce(basicPhysicalOperators.scala:40) > at > org.apache.spark.sql.execution.CodegenSupport$$anonfun$produce$1.apply(WholeStageCodegenExec.scala:83) > at > org.apache.spark.sql.execution.CodegenSupport$$anonfun$produce$1.apply(WholeStageCodegenExec.scala:78) > at > org.apache.spark.sql.execution.SparkPlan$$anonfun$executeQuery$1.apply(SparkPlan.scala:136) > at > org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151) > at > org.apache.spark.sql.execution.SparkPlan.executeQuery(SparkPlan.scala:133) > at > org.apache.spark.sql.execution.CodegenSupport$class.produce(WholeStageCodegenExec.scala:78) > at > org.apache.spark.sql.execution.ProjectExec.produce(basicPhysicalOperators.scala:30) > at > org.apache.spark.sql.execution.WholeStageCodegenExec.doCodeGen(WholeStageCodegenExec.scala:309) > at > org.apache.spark.sql.execution.WholeStageCodegenExec.doExecute(WholeStageCodegenExec.scala:347) > at > org.apache.spark.sql.execution.SparkPlan$$anonfun$execute$1.apply(SparkPlan.scala:115) > at > org.apache.spark.sql.execution.SparkPlan$$anonfun$execute$1.apply(SparkPlan.scala:115) > at > org.apache.spark.sql.execution.SparkPlan$$anonfun$executeQuery$1.apply(SparkPlan.scala:136) > at > org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151) > at > org.apache.spark.sql.execution.SparkPlan.executeQuery(SparkPlan.scala:133) > at > org.apache.spark.sql.execution.SparkPlan.execute(SparkPlan.scala:114) > at > org.apache.spark.sql.execution.exchange.ShuffleExchange.prepareShuffleDependency(ShuffleExchange.scala:87) > at > org.apache.spark.sql.execution.exchange.ShuffleExchange$$anonfun$doExecute$1.apply(ShuffleExchange.scala:123) > at > org.apache.spark.sql.execution.exchange.ShuffleExchange$$anonfun$doExecute$1.apply(ShuffleExchange.scala:114) > at > org.apache.spark.sql.catalyst.errors.package$.attachTree(package.scala:52) > at > org.apache.spark.sql.execution.exchange.ShuffleExchange.doExecute(ShuffleExchange.scala:114) > at > org.apache.spark.sql.execution.SparkPlan$$anonfun$execute$1.apply(SparkPlan.scala:115) > at > org.apache.spark.sql.execution.SparkPlan$$anonfun$execute$1.apply(SparkPlan.scala:115) > at > org.apache.spark.sql.execution.SparkPlan$$anonfun$executeQuery$1.apply(SparkPlan.scala:136) > at > org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151) > at > org.apache.spark.sql.execution.SparkPlan.executeQuery(SparkPlan.scala:133) > at > org.apache.spark.sql.execution.SparkPlan.execute(SparkPlan.scala:114) > at > org.apache.spark.sql.execution.InputAdapter.inputRDDs(WholeStageCodegenExec.scala:233) > at > org.apache.spark.sql.execution.SortExec.inputRDDs(SortExec.scala:111) > at > org.apache.spark.sql.execution.WholeStageCodegenExec.doExecute(WholeStageCodegenExec.scala:361) > at > org.apache.spark.sql.execution.SparkPlan$$anonfun$execute$1.apply(SparkPlan.scala:115) > at > org.apache.spark.sql.execution.SparkPlan$$anonfun$execute$1.apply(SparkPlan.scala:115) > at > org.apache.spark.sql.execution.SparkPlan$$anonfun$executeQuery$1.apply(SparkPlan.scala:136) > at > org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:151) > at > org.apache.spark.sql.execution.SparkPlan.executeQuery(SparkPlan.scala:133) > at > org.apache.spark.sql.execution.SparkPlan.execute(SparkPlan.scala:114) > at > org.apache.spark.sql.execution.columnar.InMemoryRelation.buildBuffers(InMemoryRelation.scala:97) > at > org.apache.spark.sql.execution.columnar.InMemoryRelation.<init>(InMemoryRelation.scala:86) > at > org.apache.spark.sql.execution.columnar.InMemoryRelation$.apply(InMemoryRelation.scala:42) > at > org.apache.spark.sql.execution.CacheManager$$anonfun$cacheQuery$1.apply(CacheManager.scala:98) > at > org.apache.spark.sql.execution.CacheManager.writeLock(CacheManager.scala:65) > at > org.apache.spark.sql.execution.CacheManager.cacheQuery(CacheManager.scala:89) > at org.apache.spark.sql.Dataset.persist(Dataset.scala:2301) > at org.apache.spark.sql.Dataset.cache(Dataset.scala:2311) > at > com.bluedme.woda.ng.matcher.StrictMatchStrategy.buildJoinMap(StrictMatchStrategy.scala:172) > at > com.bluedme.woda.ng.matcher.Matcher$$anonfun$evaluateMatching$1$$anonfun$apply$5$$anonfun$apply$6.apply(Matcher.scala:137) > at > com.bluedme.woda.ng.matcher.Matcher$$anonfun$evaluateMatching$1$$anonfun$apply$5$$anonfun$apply$6.apply(Matcher.scala:137) > at > scala.concurrent.impl.Future$PromiseCompletingRunnable.liftedTree1$1(Future.scala:24) > at > scala.concurrent.impl.Future$PromiseCompletingRunnable.run(Future.scala:24) > at > java.util.concurrent.ForkJoinTask$RunnableExecuteAction.exec(ForkJoinTask.java:1402) > at java.util.concurrent.ForkJoinTask.doExec(ForkJoinTask.java:289) > at > java.util.concurrent.ForkJoinPool$WorkQueue.runTask(ForkJoinPool.java:1056) > at java.util.concurrent.ForkJoinPool.runWorker(ForkJoinPool.java:1692) > at > java.util.concurrent.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:157) > {noformat} > jstack -F does not mention any deadlock. > It already happened a couple of times, and is related to this block of code > of our app > {code} > val matchedRowsDF = rfqDF.joinWith(rfsDF, rfqDF(m.rfqColName) === > rfsDF(m.rfsColName)) > .select($"_1.$id".alias("RFQ" + id), $"_2.$id".alias("RFS" + id)) > .repartition(rfqIDS.numPartitions, $"RFQ$id") > .sortWithinPartitions($"RFQ$id") > .as[(Long, Long)] > .cache > {code} > UPDATE: > On spark 2.1.1, the job times out thanks to SPARK-18843, and instead we get > the exception {noformat} java.util.concurrent.TimeoutException: Futures timed > out after [300 seconds] {noformat}. 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