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From Stack <st...@duboce.net>
Subject Re: SocketTimeoutException on regionservers
Date Tue, 17 Jan 2017 05:29:36 GMT
Timeout after waiting ten seconds to read from HDFS is no fun. Tell us more
about your HDFS setup. You collect system metrics on disks? Machines are
healthy all around? How frequent does this occur?

Thanks for the question,
S

On Thu, Jan 12, 2017 at 10:18 AM, Tulasi Paradarami <
tulasi.krishna.p@gmail.com> wrote:

> Hi,
>
> I noticed that Regionservers are raising following exceptions
> intermittently that is manifesting itself as request timeouts on the client
> side. HDFS is in a healthy state and there are no corrupted blocks (from
> "hdfs fsck" results). Datanodes were not out of service when this error
> occurs and GC on datanodes is usually around 0.3sec.
>
> Also, when these exceptions occur, HDFS metric "Send Data Packet Blocked On
> Network Average Time" tends to go up.
>
> Here are the configured values for some of the relevant parameters:
> dfs.client.socket-timeout: 10s
> dfs.datanode.socket.write.timeout: 10s
> dfs.namenode.avoid.read.stale.datanode: true
> dfs.namenode.avoid.write.stale.datanode: true
> dfs.datanode.max.xcievers: 8192
>
> Any pointers towards what could be causing these exceptions is appreciated.
> Thanks.
>
> CDH 5.7.2
> HBase 1.2.0
>
> ---> Regionserver logs
>
> 2017-01-11 19:19:04,940 WARN
>  [PriorityRpcServer.handler=3,queue=1,port=60020] hdfs.BlockReaderFactory:
> I/O error constructing remote block reader.
> java.net.SocketTimeoutException: 10000 millis timeout while waiting for
> channel to be ready for read. ch :
> java.nio.channels.SocketChannel[connected local=/datanode3:27094
> remote=/datanode2:50010]
>         at
> org.apache.hadoop.net.SocketIOWithTimeout.doIO(
> SocketIOWithTimeout.java:164)
>         ...
>
> 2017-01-11 19:19:04,995 WARN
>  [PriorityRpcServer.handler=11,queue=1,port=60020] hdfs.DFSClient:
> Connection failure: Failed to connect to /datanode2:50010 for file
> /hbase/data/default/<table_name>/ec9ca
> java.net.SocketTimeoutException: 10000 millis timeout while waiting for
> channel to be ready for read. ch :
> java.nio.channels.SocketChannel[connected local=/datanode3:27107
> remote=/datanode2:50010]
>         at
> org.apache.hadoop.net.SocketIOWithTimeout.doIO(
> SocketIOWithTimeout.java:164)
>         at
> org.apache.hadoop.net.SocketInputStream.read(SocketInputStream.java:161)
>         at
> org.apache.hadoop.hdfs.protocol.datatransfer.PacketReceiver.
> readChannelFully(PacketReceiver.java:258)
>         at
> org.apache.hadoop.hdfs.protocol.datatransfer.PacketReceiver.doReadFully(
> PacketReceiver.java:209)
>         at
> org.apache.hadoop.hdfs.protocol.datatransfer.PacketReceiver.doRead(
> PacketReceiver.java:171)
>         at
> org.apache.hadoop.hdfs.protocol.datatransfer.PacketReceiver.
> receiveNextPacket(PacketReceiver.java:102)
>         at
> org.apache.hadoop.hdfs.RemoteBlockReader2.readNextPacket(
> RemoteBlockReader2.java:207)
>         at
> org.apache.hadoop.hdfs.RemoteBlockReader2.read(
> RemoteBlockReader2.java:156)
>         at
> org.apache.hadoop.hdfs.BlockReaderUtil.readAll(BlockReaderUtil.java:32)
>         at
> org.apache.hadoop.hdfs.RemoteBlockReader2.readAll(
> RemoteBlockReader2.java:386)
>         at
> org.apache.hadoop.hdfs.DFSInputStream.actualGetFromOneDataNode(
> DFSInputStream.java:1193)
>         at
> org.apache.hadoop.hdfs.DFSInputStream.fetchBlockByteRange(
> DFSInputStream.java:1112)
>         at
> org.apache.hadoop.hdfs.DFSInputStream.pread(DFSInputStream.java:1473)
>         at
> org.apache.hadoop.hdfs.DFSInputStream.read(DFSInputStream.java:1432)
>         at
> org.apache.hadoop.fs.FSDataInputStream.read(FSDataInputStream.java:89)
>         at
> org.apache.hadoop.hbase.io.hfile.HFileBlock.positionalReadWithExtra(
> HFileBlock.java:752)
>         at
> org.apache.hadoop.hbase.io.hfile.HFileBlock$AbstractFSReader.readAtOffset(
> HFileBlock.java:1448)
>         at
> org.apache.hadoop.hbase.io.hfile.HFileBlock$FSReaderImpl.
> readBlockDataInternal(HFileBlock.java:1648)
>         at
> org.apache.hadoop.hbase.io.hfile.HFileBlock$FSReaderImpl.
> readBlockData(HFileBlock.java:1532)
>         at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2.readBlock(
> HFileReaderV2.java:445)
>         at
> org.apache.hadoop.hbase.io.hfile.HFileBlockIndex$BlockIndexReader.
> loadDataBlockWithScanInfo(HFileBlockIndex.java:261)
>         at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$AbstractScannerV2.seekTo(
> HFileReaderV2.java:642)
>         at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$AbstractScannerV2.reseekTo(
> HFileReaderV2.java:622)
>         at
> org.apache.hadoop.hbase.regionserver.StoreFileScanner.reseekAtOrAfter(
> StoreFileScanner.java:314)
>         at
> org.apache.hadoop.hbase.regionserver.StoreFileScanner.
> reseek(StoreFileScanner.java:226)
>         at
> org.apache.hadoop.hbase.regionserver.StoreFileScanner.
> enforceSeek(StoreFileScanner.java:437)
>         at
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.
> pollRealKV(KeyValueHeap.java:340)
>         at
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.
> generalizedSeek(KeyValueHeap.java:296)
>         at
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.
> requestSeek(KeyValueHeap.java:261)
>         at
> org.apache.hadoop.hbase.regionserver.StoreScanner.
> reseek(StoreScanner.java:806)
>         at
> org.apache.hadoop.hbase.regionserver.StoreScanner.
> seekAsDirection(StoreScanner.java:794)
>         at
> org.apache.hadoop.hbase.regionserver.StoreScanner.
> next(StoreScanner.java:617)
>         at
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.
> next(KeyValueHeap.java:147)
>         at
> org.apache.hadoop.hbase.regionserver.HRegion$RegionScannerImpl.
> populateResult(HRegion.java:5696)
>         at
> org.apache.hadoop.hbase.regionserver.HRegion$RegionScannerImpl.
> nextInternal(HRegion.java:5855)
>         at
> org.apache.hadoop.hbase.regionserver.HRegion$RegionScannerImpl.nextRaw(
> HRegion.java:5633)
>         at
> org.apache.hadoop.hbase.regionserver.HRegion$RegionScannerImpl.nextRaw(
> HRegion.java:5619)
>         at
> org.apache.phoenix.coprocessor.BaseScannerRegionObserver$2.nextRaw(
> BaseScannerRegionObserver.java:330)
>         at
> org.apache.phoenix.iterate.RegionScannerResultIterator.next(
> RegionScannerResultIterator.java:50)
>         at
> org.apache.phoenix.iterate.OrderedResultIterator.getResultIterator(
> OrderedResultIterator.java:240)
>         at
> org.apache.phoenix.iterate.OrderedResultIterator.next(
> OrderedResultIterator.java:193)
>         at
> org.apache.phoenix.coprocessor.ScanRegionObserver.getTopNScanner(
> ScanRegionObserver.java:245)
>         at
> org.apache.phoenix.coprocessor.ScanRegionObserver.doPostScannerOpen(
> ScanRegionObserver.java:226)
>         at
> org.apache.phoenix.coprocessor.BaseScannerRegionObserver.postScannerOpen(
> BaseScannerRegionObserver.java:202)
>         at
> org.apache.hadoop.hbase.regionserver.RegionCoprocessorHost$52.call(
> RegionCoprocessorHost.java:1334)
>         at
> org.apache.hadoop.hbase.regionserver.RegionCoprocessorHost$
> RegionOperation.call(RegionCoprocessorHost.java:1673)
>         at
> org.apache.hadoop.hbase.regionserver.RegionCoprocessorHost.execOperation(
> RegionCoprocessorHost.java:1749)
>         at
> org.apache.hadoop.hbase.regionserver.RegionCoprocessorHost.
> execOperationWithResult(RegionCoprocessorHost.java:1712)
>         at
> org.apache.hadoop.hbase.regionserver.RegionCoprocessorHost.
> postScannerOpen(RegionCoprocessorHost.java:1329)
>         at
> org.apache.hadoop.hbase.regionserver.RSRpcServices.
> scan(RSRpcServices.java:2408)
>         at
> org.apache.hadoop.hbase.protobuf.generated.ClientProtos$ClientService$2.
> callBlockingMethod(ClientProtos.java:33648)
>         at org.apache.hadoop.hbase.ipc.RpcServer.call(RpcServer.java:2170)
>         at org.apache.hadoop.hbase.ipc.CallRunner.run(CallRunner.java:109)
>         at
> org.apache.hadoop.hbase.ipc.RpcExecutor.consumerLoop(RpcExecutor.java:133)
>         at
> org.apache.hadoop.hbase.ipc.RpcExecutor$1.run(RpcExecutor.java:108)
>         at java.lang.Thread.run(Thread.java:745)
>
>
> ---> Datanode logs
>
> 2017-01-11 19:19:16,171 INFO  [DataXceiver for client
> DFSClient_NONMAPREDUCE_-988481032_1 at /datanode4:13495 [Receiving block
> BP-684272099-namenode-1472795703360:blk_1075014094_1273639]]
> datanode.DataNode (BlockReceiver.java:receiveBlock(933)) - Exception for
> BP-684272099-namenode-1472795703360:blk_1075014094_1273639
> java.io.IOException: Premature EOF from inputStream
>         at org.apache.hadoop.io.IOUtils.readFully(IOUtils.java:201)
>         ...
>
> 2017-01-11 19:19:16,171 INFO  [DataXceiver for client
> DFSClient_NONMAPREDUCE_-988481032_1 at /datanode4:46727 [Receiving block
> BP-684272099-namenode-1472795703360:blk_1075014093_1273638]]
> datanode.DataNode (BlockReceiver.java:receiveBlock(933)) - Exception for
> BP-684272099-namenode-1472795703360:blk_1075014093_1273638
> java.io.IOException: Premature EOF from inputStream
>         at org.apache.hadoop.io.IOUtils.readFully(IOUtils.java:201)
>         at
> org.apache.hadoop.hdfs.protocol.datatransfer.PacketReceiver.doReadFully(
> PacketReceiver.java:213)
>         at
> org.apache.hadoop.hdfs.protocol.datatransfer.PacketReceiver.doRead(
> PacketReceiver.java:134)
>         at
> org.apache.hadoop.hdfs.protocol.datatransfer.PacketReceiver.
> receiveNextPacket(PacketReceiver.java:109)
>         at
> org.apache.hadoop.hdfs.server.datanode.BlockReceiver.
> receivePacket(BlockReceiver.java:500)
>         at
> org.apache.hadoop.hdfs.server.datanode.BlockReceiver.
> receiveBlock(BlockReceiver.java:894)
>         at
> org.apache.hadoop.hdfs.server.datanode.DataXceiver.
> writeBlock(DataXceiver.java:798)
>         at
> org.apache.hadoop.hdfs.protocol.datatransfer.Receiver.opWriteBlock(
> Receiver.java:169)
>         at
> org.apache.hadoop.hdfs.protocol.datatransfer.Receiver.processOp(Receiver.
> java:106)
>         at
> org.apache.hadoop.hdfs.server.datanode.DataXceiver.run(
> DataXceiver.java:246)
>         at java.lang.Thread.run(Thread.java:745)
>

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