Hey all, We're working on setting up a Spark 1.6.1 cluster on Amazon EC2, and encountering some problems related to pre-emption. We have followed all the instructions for setting up dynamic allocation, including enabling the external spark shuffle service in the YARN NodeManagers.
When a container is pre-empted, we see lots of RPC calls continuing to be made to its host/port; obviously, these fail. Eventually, a combination of exceptions manages to actually kill our job. Interestingly, downgrading to 1.4.1 and switching the spark.shuffle.blocktransferservice to nio fixes the problem completely; but, we need functionality developed in later versions, so we can't actually go back to Spark 1.4.1. Is this a network configuration issue, or a resource allocation issue, or something to that effect? Or, is there actually a bug here? Have any of you set up a cluster for production use that runs Spark 1.6.1, Hadoop 2.7.2, Yarn FairScheduler with preemption, and dynamic allocation? Some examples of exceptions are below; thank you very much for any pointers you can provide. Thanks! Nick --------------------------- 16/06/22 08:13:30 ERROR spark.ContextCleaner: Error cleaning RDD 49 java.io.IOException: Failed to send RPC 5721681506291542850 to nodexx.xx.xxxx.ddns.xx.com/xx.xx.xx.xx:42857: java.nio.channels.ClosedChannelException at org.apache.spark.network.client.TransportClient$3.operationComplete(TransportClient.java:239) at org.apache.spark.network.client.TransportClient$3.operationComplete(TransportClient.java:226) at io.netty.util.concurrent.DefaultPromise.notifyListener0(DefaultPromise.java:680) at io.netty.util.concurrent.DefaultPromise.notifyListeners(DefaultPromise.java:567) at io.netty.util.concurrent.DefaultPromise.tryFailure(DefaultPromise.java:424) at io.netty.channel.AbstractChannel$AbstractUnsafe.safeSetFailure(AbstractChannel.java:801) at io.netty.channel.AbstractChannel$AbstractUnsafe.write(AbstractChannel.java:699) at io.netty.channel.DefaultChannelPipeline$HeadContext.write(DefaultChannelPipeline.java:1122) at io.netty.channel.AbstractChannelHandlerContext.invokeWrite(AbstractChannelHandlerContext.java:633) at io.netty.channel.AbstractChannelHandlerContext.access$1900(AbstractChannelHandlerContext.java:32) at io.netty.channel.AbstractChannelHandlerContext$AbstractWriteTask.write(AbstractChannelHandlerContext.java:908) at io.netty.channel.AbstractChannelHandlerContext$WriteAndFlushTask.write(AbstractChannelHandlerContext.java:960) at io.netty.channel.AbstractChannelHandlerContext$AbstractWriteTask.run(AbstractChannelHandlerContext.java:893) at io.netty.util.concurrent.SingleThreadEventExecutor.runAllTasks(SingleThreadEventExecutor.java:357) at io.netty.channel.nio.NioEventLoop.run(NioEventLoop.java:357) at io.netty.util.concurrent.SingleThreadEventExecutor$2.run(SingleThreadEventExecutor.java:111) at java.lang.Thread.run(Thread.java:745) Caused by: java.nio.channels.ClosedChannelException ------------ 16/06/19 22:33:14 INFO storage.BlockManager: Removing RDD 122 16/06/19 22:33:14 WARN server.TransportChannelHandler: Exception in connection from nodexx-xx-xx.xx.ddns.xx.com/xx.xx.xx.xx:56618 java.io.IOException: Connection reset by peer at sun.nio.ch.FileDispatcherImpl.read0(Native Method) at sun.nio.ch.SocketDispatcher.read(SocketDispatcher.java:39) at sun.nio.ch.IOUtil.readIntoNativeBuffer(IOUtil.java:223) at sun.nio.ch.IOUtil.read(IOUtil.java:192) at sun.nio.ch.SocketChannelImpl.read(SocketChannelImpl.java:379) at io.netty.buffer.PooledUnsafeDirectByteBuf.setBytes(PooledUnsafeDirectByteBuf.java:313) at io.netty.buffer.AbstractByteBuf.writeBytes(AbstractByteBuf.java:881) at io.netty.channel.socket.nio.NioSocketChannel.doReadBytes(NioSocketChannel.java:242) at io.netty.channel.nio.AbstractNioByteChannel$NioByteUnsafe.read(AbstractNioByteChannel.java:119) at io.netty.channel.nio.NioEventLoop.processSelectedKey(NioEventLoop.java:511) at io.netty.channel.nio.NioEventLoop.processSelectedKeysOptimized(NioEventLoop.java:468) at io.netty.channel.nio.NioEventLoop.processSelectedKeys(NioEventLoop.java:382) at io.netty.channel.nio.NioEventLoop.run(NioEventLoop.java:354) at io.netty.util.concurrent.SingleThreadEventExecutor$2.run(SingleThreadEventExecutor.java:111) at java.lang.Thread.run(Thread.java:745) 16/06/19 22:33:14 ERROR client.TransportResponseHandler: Still have 2 requests outstanding when connection from nodexx-xx-xx.xxxx.ddns.xx.com/xx.xx.xx.xx:56618 is closed.
