[SPARK-22618] RDD.unpersist can cause fatal exception when used with dynamic allocation

• Type: Bug
• Status: Resolved
• Priority: Minor
• Resolution: Fixed
• Affects Version/s: 2.3.0
• Fix Version/s: 2.3.0
• Component/s: Spark Core
• Assignee: Brad
• Reporter: Brad
• Created: 27/Nov/17 18:39
• Updated: 29/Mar/18 14:11
• Resolved: 07/Dec/17 13:05

Description

If you use rdd.unpersist() with dynamic allocation, then an executor can be deallocated while your rdd is being removed, which will throw an uncaught exception killing your job.

I looked into different ways of preventing this error from occurring but couldn't come up with anything that wouldn't require a big change. I propose the best fix is just to catch and log IOExceptions in unpersist() so they don't kill your job. This will match the effective behavior when executors are lost from dynamic allocation in other parts of the code.

In the worst case scenario I think this could lead to RDD partitions getting left on executors after they were unpersisted, but this is probably better than the whole job failing. I think in most cases the IOException would be due to the executor dieing for some reason, which is effectively the same result as unpersisting the rdd from that executor anyway.

I noticed this exception in a job that loads a 100GB dataset on a cluster where we use dynamic allocation heavily. Here is the relevant stack trace

java.io.IOException: Connection reset by peer
at sun.nio.ch.FileDispatcherImpl.read0(Native Method)
at sun.nio.ch.SocketDispatcher.read(SocketDispatcher.java:39)
at sun.nio.ch.IOUtil.readIntoNativeBuffer(IOUtil.java:223)
at sun.nio.ch.IOUtil.read(IOUtil.java:192)
at sun.nio.ch.SocketChannelImpl.read(SocketChannelImpl.java:380)
at io.netty.buffer.PooledUnsafeDirectByteBuf.setBytes(PooledUnsafeDirectByteBuf.java:221)
at io.netty.buffer.AbstractByteBuf.writeBytes(AbstractByteBuf.java:899)
at io.netty.channel.socket.nio.NioSocketChannel.doReadBytes(NioSocketChannel.java:276)
at io.netty.channel.nio.AbstractNioByteChannel$NioByteUnsafe.read(AbstractNioByteChannel.java:119)
at io.netty.channel.nio.NioEventLoop.processSelectedKey(NioEventLoop.java:645)
at io.netty.channel.nio.NioEventLoop.processSelectedKeysOptimized(NioEventLoop.java:580)
at io.netty.channel.nio.NioEventLoop.processSelectedKeys(NioEventLoop.java:497)
at io.netty.channel.nio.NioEventLoop.run(NioEventLoop.java:459)
at io.netty.util.concurrent.SingleThreadEventExecutor$2.run(SingleThreadEventExecutor.java:131)
at io.netty.util.concurrent.DefaultThreadFactory$DefaultRunnableDecorator.run(DefaultThreadFactory.java:138)
at java.lang.Thread.run(Thread.java:748)
Exception in thread "main" org.apache.spark.SparkException: Exception thrown in awaitResult:
at org.apache.spark.util.ThreadUtils$.awaitResult(ThreadUtils.scala:205)
at org.apache.spark.rpc.RpcTimeout.awaitResult(RpcTimeout.scala:75)
at org.apache.spark.storage.BlockManagerMaster.removeRdd(BlockManagerMaster.scala:131)
at org.apache.spark.SparkContext.unpersistRDD(SparkContext.scala:1806)
at org.apache.spark.rdd.RDD.unpersist(RDD.scala:217)
at com.ibm.sparktc.sparkbench.workload.exercise.CacheTest.doWorkload(CacheTest.scala:62)
at com.ibm.sparktc.sparkbench.workload.Workload$class.run(Workload.scala:40)
at com.ibm.sparktc.sparkbench.workload.exercise.CacheTest.run(CacheTest.scala:33)
at com.ibm.sparktc.sparkbench.workload.SuiteKickoff$$anonfun$com$ibm$sparktc$sparkbench$workload$SuiteKickoff$$runSerially$1.apply(SuiteKickoff.scala:78)
at com.ibm.sparktc.sparkbench.workload.SuiteKickoff$$anonfun$com$ibm$sparktc$sparkbench$workload$SuiteKickoff$$runSerially$1.apply(SuiteKickoff.scala:78)
at scala.collection.TraversableLike$$anonfun$map$1.apply(TraversableLike.scala:234)
at scala.collection.TraversableLike$$anonfun$map$1.apply(TraversableLike.scala:234)
at scala.collection.immutable.List.foreach(List.scala:381)
at scala.collection.TraversableLike$class.map(TraversableLike.scala:234)
at scala.collection.immutable.List.map(List.scala:285)
at com.ibm.sparktc.sparkbench.workload.SuiteKickoff$.com$ibm$sparktc$sparkbench$workload$SuiteKickoff$$runSerially(SuiteKickoff.scala:78)
at com.ibm.sparktc.sparkbench.workload.SuiteKickoff$$anonfun$2.apply(SuiteKickoff.scala:52)
at com.ibm.sparktc.sparkbench.workload.SuiteKickoff$$anonfun$2.apply(SuiteKickoff.scala:47)
at scala.collection.TraversableLike$$anonfun$flatMap$1.apply(TraversableLike.scala:241)
at scala.collection.TraversableLike$$anonfun$flatMap$1.apply(TraversableLike.scala:241)
at scala.collection.immutable.Range.foreach(Range.scala:160)
at scala.collection.TraversableLike$class.flatMap(TraversableLike.scala:241)
at scala.collection.AbstractTraversable.flatMap(Traversable.scala:104)
at com.ibm.sparktc.sparkbench.workload.SuiteKickoff$.run(SuiteKickoff.scala:47)
at com.ibm.sparktc.sparkbench.workload.MultipleSuiteKickoff$$anonfun$com$ibm$sparktc$sparkbench$workload$MultipleSuiteKickoff$$runSuitesSerially$1.apply(MultipleSuiteKickoff.scala:24)
at com.ibm.sparktc.sparkbench.workload.MultipleSuiteKickoff$$anonfun$com$ibm$sparktc$sparkbench$workload$MultipleSuiteKickoff$$runSuitesSerially$1.apply(MultipleSuiteKickoff.scala:24)
at scala.collection.immutable.List.foreach(List.scala:381)
at com.ibm.sparktc.sparkbench.workload.MultipleSuiteKickoff$.com$ibm$sparktc$sparkbench$workload$MultipleSuiteKickoff$$runSuitesSerially(MultipleSuiteKickoff.scala:24)
at com.ibm.sparktc.sparkbench.workload.MultipleSuiteKickoff$$anonfun$run$1.apply(MultipleSuiteKickoff.scala:13)
at com.ibm.sparktc.sparkbench.workload.MultipleSuiteKickoff$$anonfun$run$1.apply(MultipleSuiteKickoff.scala:10)
at scala.collection.immutable.List.foreach(List.scala:381)
at com.ibm.sparktc.sparkbench.workload.MultipleSuiteKickoff$.run(MultipleSuiteKickoff.scala:10)
at com.ibm.sparktc.sparkbench.cli.CLIKickoff$.main(CLIKickoff.scala:16)
at com.ibm.sparktc.sparkbench.cli.CLIKickoff.main(CLIKickoff.scala)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:498)
at org.apache.spark.deploy.JavaMainApplication.start(SparkApplication.scala:52)
at org.apache.spark.deploy.SparkSubmit$.org$apache$spark$deploy$SparkSubmit$$runMain(SparkSubmit.scala:843)
at org.apache.spark.deploy.SparkSubmit$.doRunMain$1(SparkSubmit.scala:188)
at org.apache.spark.deploy.SparkSubmit$.submit(SparkSubmit.scala:218)
at org.apache.spark.deploy.SparkSubmit$.main(SparkSubmit.scala:127)
at org.apache.spark.deploy.SparkSubmit.main(SparkSubmit.scala)
Caused by: java.io.IOException: Connection reset by peer
at sun.nio.ch.FileDispatcherImpl.read0(Native Method)
at sun.nio.ch.SocketDispatcher.read(SocketDispatcher.java:39)
at sun.nio.ch.IOUtil.readIntoNativeBuffer(IOUtil.java:223)
at sun.nio.ch.IOUtil.read(IOUtil.java:192)
at sun.nio.ch.SocketChannelImpl.read(SocketChannelImpl.java:380)
at io.netty.buffer.PooledUnsafeDirectByteBuf.setBytes(PooledUnsafeDirectByteBuf.java:221)
at io.netty.buffer.AbstractByteBuf.writeBytes(AbstractByteBuf.java:899)
at io.netty.channel.socket.nio.NioSocketChannel.doReadBytes(NioSocketChannel.java:276)
at io.netty.channel.nio.AbstractNioByteChannel$NioByteUnsafe.read(AbstractNioByteChannel.java:119)
at io.netty.channel.nio.NioEventLoop.processSelectedKey(NioEventLoop.java:645)
at io.netty.channel.nio.NioEventLoop.processSelectedKeysOptimized(NioEventLoop.java:580)
at io.netty.channel.nio.NioEventLoop.processSelectedKeys(NioEventLoop.java:497)
at io.netty.channel.nio.NioEventLoop.run(NioEventLoop.java:459)
at io.netty.util.concurrent.SingleThreadEventExecutor$2.run(SingleThreadEventExecutor.java:131)
at io.netty.util.concurrent.DefaultThreadFactory$DefaultRunnableDecorator.run(DefaultThreadFactory.java:138)
at java.lang.Thread.run(Thread.java:748)

Issue Links

• is related to: SPARK-23806 Broadcast. unpersist can cause fatal exception when used with dynamic allocation
• links to: [Github] Pull Request #19836 (brad-kaiser)