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Posted to mapreduce-issues@hadoop.apache.org by "Vinod Kumar Vavilapalli (JIRA)" <ji...@apache.org> on 2011/09/21 18:25:09 UTC
[jira] [Updated] (MAPREDUCE-3058) Sometimes task keeps on running
while its Syslog says that it is shutdown
[ https://issues.apache.org/jira/browse/MAPREDUCE-3058?page=com.atlassian.jira.plugin.system.issuetabpanels:all-tabpanel ]
Vinod Kumar Vavilapalli updated MAPREDUCE-3058:
-----------------------------------------------
Description:
While running GridMixV3, one of the jobs got stuck for 15 hrs. After clicking on the Job-page, found one of its reduces to be stuck. Looking at syslog of the stuck reducer, found this:
Task-logs' head:
{code}
2011-09-19 17:57:22,002 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: Scheduled snapshot period at 10 second(s).
2011-09-19 17:57:22,002 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: ReduceTask metrics system started
{code}
Task-logs' tail:
{code}
2011-09-19 18:06:49,818 INFO org.apache.hadoop.hdfs.DFSClient: Exception in createBlockOutputStream java.io.IOException: Bad connect ack with firstBadLink as <DATANODE1>
2011-09-19 18:06:49,818 WARN org.apache.hadoop.hdfs.DFSClient: Error Recovery for block BP-1405370709-<NAMENODE>-1316452621953:blk_-7004355226367468317_79871 in pipeline <DATANODE2>, <DATANODE1>: bad datanode <DATANODE1>
2011-09-19 18:06:49,818 DEBUG org.apache.hadoop.hdfs.protocol.datatransfer.DataTransferProtocol: lastAckedSeqno = 26870
2011-09-19 18:06:49,820 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <NAMENODE> from gridperf sending #454
2011-09-19 18:06:49,826 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <<NAMENODE> from gridperf got value #454
2011-09-19 18:06:49,827 DEBUG org.apache.hadoop.ipc.RPC: Call: getAdditionalDatanode 8
2011-09-19 18:06:49,827 DEBUG org.apache.hadoop.hdfs.DFSClient: Connecting to datanode <DATANODE2>
2011-09-19 18:06:49,827 DEBUG org.apache.hadoop.hdfs.DFSClient: Send buf size 131071
2011-09-19 18:06:49,833 WARN org.apache.hadoop.hdfs.DFSClient: DataStreamer Exception
java.io.EOFException: Premature EOF: no length prefix available
at org.apache.hadoop.hdfs.protocol.HdfsProtoUtil.vintPrefixed(HdfsProtoUtil.java:158)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.transfer(DFSOutputStream.java:860)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.addDatanode2ExistingPipeline(DFSOutputStream.java:838)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.setupPipelineForAppendOrRecovery(DFSOutputStream.java:929)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.processDatanodeError(DFSOutputStream.java:740)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.run(DFSOutputStream.java:415)
2011-09-19 18:06:49,837 WARN org.apache.hadoop.mapred.YarnChild: Exception running child : java.io.EOFException: Premature EOF: no length prefix available
at org.apache.hadoop.hdfs.protocol.HdfsProtoUtil.vintPrefixed(HdfsProtoUtil.java:158)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.transfer(DFSOutputStream.java:860)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.addDatanode2ExistingPipeline(DFSOutputStream.java:838)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.setupPipelineForAppendOrRecovery(DFSOutputStream.java:929)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.processDatanodeError(DFSOutputStream.java:740)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.run(DFSOutputStream.java:415)
2011-09-19 18:06:49,837 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <APPMASTER> from job_1316452677984_0862 sending #455
2011-09-19 18:06:49,839 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <APPMASTER> from job_1316452677984_0862 got value #455
2011-09-19 18:06:49,840 DEBUG org.apache.hadoop.ipc.RPC: Call: statusUpdate 3
2011-09-19 18:06:49,840 INFO org.apache.hadoop.mapred.Task: Runnning cleanup for the task
2011-09-19 18:06:49,840 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <NAMENODE> from gridperf sending #456
2011-09-19 18:06:49,858 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <NAMENODE> from gridperf got value #456
2011-09-19 18:06:49,858 DEBUG org.apache.hadoop.ipc.RPC: Call: delete 18
2011-09-19 18:06:49,858 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <APPMASTER> from job_1316452677984_0862 sending #457
2011-09-19 18:06:49,859 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <APPMASTER> from job_1316452677984_0862 got value #457
2011-09-19 18:06:49,859 DEBUG org.apache.hadoop.ipc.RPC: Call: reportDiagnosticInfo 1
2011-09-19 18:06:49,859 DEBUG org.apache.hadoop.metrics2.impl.MetricsSystemImpl: refCount=1
2011-09-19 18:06:49,859 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: Stopping ReduceTask metrics system...
2011-09-19 18:06:49,859 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: Stopping metrics source UgiMetrics
2011-09-19 18:06:49,859 DEBUG org.apache.hadoop.metrics2.impl.MetricsSystemImpl: class org.apache.hadoop.metrics2.lib.MetricsSourceBuilder$1
2011-09-19 18:06:49,860 DEBUG org.apache.hadoop.metrics2.util.MBeans: Unregistering Hadoop:service=ReduceTask,name=UgiMetrics
2011-09-19 18:06:49,860 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: Stopping metrics source JvmMetrics
2011-09-19 18:06:49,860 DEBUG org.apache.hadoop.metrics2.impl.MetricsSystemImpl: class org.apache.hadoop.metrics2.source.JvmMetrics
2011-09-19 18:06:49,860 DEBUG org.apache.hadoop.metrics2.util.MBeans: Unregistering Hadoop:service=ReduceTask,name=JvmMetrics
2011-09-19 18:06:49,860 DEBUG org.apache.hadoop.metrics2.util.MBeans: Unregistering Hadoop:service=ReduceTask,name=MetricsSystem,sub=Stats
2011-09-19 18:06:49,860 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: ReduceTask metrics system stopped.
2011-09-19 18:06:49,860 DEBUG org.apache.hadoop.metrics2.util.MBeans: Unregistering Hadoop:service=ReduceTask,name=MetricsSystem,sub=Control
2011-09-19 18:06:49,860 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: ReduceTask metrics system shutdown complete.
{code}
Which means that tasks is supposed to have stopped within 20 secs, whereas the process itself is stuck for more than 15 hours. From AM log, also found that this task was sending its update regularly. ps -ef | grep java was also showing that process is still alive.
was:
While running GridMix V3 one got stuck for 15 hrs.
After clicking on Job found one of its reduce got stuck.
Looking at syslog of reducer it found that- :
Task started at -:
2011-09-19 17:57:22,002 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: Scheduled snapshot period at 10 second(s).
2011-09-19 17:57:22,002 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: ReduceTask metrics system started
While end of syslog says -:
2011-09-19 18:06:49,818 INFO org.apache.hadoop.hdfs.DFSClient: Exception in createBlockOutputStream java.io.IOException: Bad connect ack with firstBadLink as <DATANODE1>
2011-09-19 18:06:49,818 WARN org.apache.hadoop.hdfs.DFSClient: Error Recovery for block BP-1405370709-<NAMENODE>-1316452621953:blk_-7004355226367468317_79871 in pipeline <DATANODE2>, <DATANODE1>: bad datanode <DATANODE1>
2011-09-19 18:06:49,818 DEBUG org.apache.hadoop.hdfs.protocol.datatransfer.DataTransferProtocol: lastAckedSeqno = 26870
2011-09-19 18:06:49,820 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <NAMENODE> from gridperf sending #454
2011-09-19 18:06:49,826 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <<NAMENODE> from gridperf got value #454
2011-09-19 18:06:49,827 DEBUG org.apache.hadoop.ipc.RPC: Call: getAdditionalDatanode 8
2011-09-19 18:06:49,827 DEBUG org.apache.hadoop.hdfs.DFSClient: Connecting to datanode <DATANODE2>
2011-09-19 18:06:49,827 DEBUG org.apache.hadoop.hdfs.DFSClient: Send buf size 131071
2011-09-19 18:06:49,833 WARN org.apache.hadoop.hdfs.DFSClient: DataStreamer Exception
java.io.EOFException: Premature EOF: no length prefix available
at org.apache.hadoop.hdfs.protocol.HdfsProtoUtil.vintPrefixed(HdfsProtoUtil.java:158)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.transfer(DFSOutputStream.java:860)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.addDatanode2ExistingPipeline(DFSOutputStream.java:838)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.setupPipelineForAppendOrRecovery(DFSOutputStream.java:929)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.processDatanodeError(DFSOutputStream.java:740)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.run(DFSOutputStream.java:415)
2011-09-19 18:06:49,837 WARN org.apache.hadoop.mapred.YarnChild: Exception running child : java.io.EOFException: Premature EOF: no length prefix available
at org.apache.hadoop.hdfs.protocol.HdfsProtoUtil.vintPrefixed(HdfsProtoUtil.java:158)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.transfer(DFSOutputStream.java:860)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.addDatanode2ExistingPipeline(DFSOutputStream.java:838)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.setupPipelineForAppendOrRecovery(DFSOutputStream.java:929)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.processDatanodeError(DFSOutputStream.java:740)
at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.run(DFSOutputStream.java:415)
2011-09-19 18:06:49,837 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <APPMASTER> from job_1316452677984_0862 sending #455
2011-09-19 18:06:49,839 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <APPMASTER> from job_1316452677984_0862 got value #455
2011-09-19 18:06:49,840 DEBUG org.apache.hadoop.ipc.RPC: Call: statusUpdate 3
2011-09-19 18:06:49,840 INFO org.apache.hadoop.mapred.Task: Runnning cleanup for the task
2011-09-19 18:06:49,840 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <NAMENODE> from gridperf sending #456
2011-09-19 18:06:49,858 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <NAMENODE> from gridperf got value #456
2011-09-19 18:06:49,858 DEBUG org.apache.hadoop.ipc.RPC: Call: delete 18
2011-09-19 18:06:49,858 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <APPMASTER> from job_1316452677984_0862 sending #457
2011-09-19 18:06:49,859 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <APPMASTER> from job_1316452677984_0862 got value #457
2011-09-19 18:06:49,859 DEBUG org.apache.hadoop.ipc.RPC: Call: reportDiagnosticInfo 1
2011-09-19 18:06:49,859 DEBUG org.apache.hadoop.metrics2.impl.MetricsSystemImpl: refCount=1
2011-09-19 18:06:49,859 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: Stopping ReduceTask metrics system...
2011-09-19 18:06:49,859 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: Stopping metrics source UgiMetrics
2011-09-19 18:06:49,859 DEBUG org.apache.hadoop.metrics2.impl.MetricsSystemImpl: class org.apache.hadoop.metrics2.lib.MetricsSourceBuilder$1
2011-09-19 18:06:49,860 DEBUG org.apache.hadoop.metrics2.util.MBeans: Unregistering Hadoop:service=ReduceTask,name=UgiMetrics
2011-09-19 18:06:49,860 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: Stopping metrics source JvmMetrics
2011-09-19 18:06:49,860 DEBUG org.apache.hadoop.metrics2.impl.MetricsSystemImpl: class org.apache.hadoop.metrics2.source.JvmMetrics
2011-09-19 18:06:49,860 DEBUG org.apache.hadoop.metrics2.util.MBeans: Unregistering Hadoop:service=ReduceTask,name=JvmMetrics
2011-09-19 18:06:49,860 DEBUG org.apache.hadoop.metrics2.util.MBeans: Unregistering Hadoop:service=ReduceTask,name=MetricsSystem,sub=Stats
2011-09-19 18:06:49,860 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: ReduceTask metrics system stopped.
2011-09-19 18:06:49,860 DEBUG org.apache.hadoop.metrics2.util.MBeans: Unregistering Hadoop:service=ReduceTask,name=MetricsSystem,sub=Control
2011-09-19 18:06:49,860 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: ReduceTask metrics system shutdown complete.
Which means tasks is stopped withing 20 secs
Whereas acutally tasks kept on running for more 15 hrs.
>From AM log. also found tasks was sending its update regularly
ps -ef | grep java was also showing task is running
Yes Mahadev, this was without speculative execution.
I requested Karam to file this to look at any reduce-task side shutdown bug.
> Sometimes task keeps on running while its Syslog says that it is shutdown
> -------------------------------------------------------------------------
>
> Key: MAPREDUCE-3058
> URL: https://issues.apache.org/jira/browse/MAPREDUCE-3058
> Project: Hadoop Map/Reduce
> Issue Type: Bug
> Components: mrv2
> Affects Versions: 0.23.0
> Reporter: Karam Singh
>
> While running GridMixV3, one of the jobs got stuck for 15 hrs. After clicking on the Job-page, found one of its reduces to be stuck. Looking at syslog of the stuck reducer, found this:
> Task-logs' head:
> {code}
> 2011-09-19 17:57:22,002 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: Scheduled snapshot period at 10 second(s).
> 2011-09-19 17:57:22,002 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: ReduceTask metrics system started
> {code}
> Task-logs' tail:
> {code}
> 2011-09-19 18:06:49,818 INFO org.apache.hadoop.hdfs.DFSClient: Exception in createBlockOutputStream java.io.IOException: Bad connect ack with firstBadLink as <DATANODE1>
> 2011-09-19 18:06:49,818 WARN org.apache.hadoop.hdfs.DFSClient: Error Recovery for block BP-1405370709-<NAMENODE>-1316452621953:blk_-7004355226367468317_79871 in pipeline <DATANODE2>, <DATANODE1>: bad datanode <DATANODE1>
> 2011-09-19 18:06:49,818 DEBUG org.apache.hadoop.hdfs.protocol.datatransfer.DataTransferProtocol: lastAckedSeqno = 26870
> 2011-09-19 18:06:49,820 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <NAMENODE> from gridperf sending #454
> 2011-09-19 18:06:49,826 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <<NAMENODE> from gridperf got value #454
> 2011-09-19 18:06:49,827 DEBUG org.apache.hadoop.ipc.RPC: Call: getAdditionalDatanode 8
> 2011-09-19 18:06:49,827 DEBUG org.apache.hadoop.hdfs.DFSClient: Connecting to datanode <DATANODE2>
> 2011-09-19 18:06:49,827 DEBUG org.apache.hadoop.hdfs.DFSClient: Send buf size 131071
> 2011-09-19 18:06:49,833 WARN org.apache.hadoop.hdfs.DFSClient: DataStreamer Exception
> java.io.EOFException: Premature EOF: no length prefix available
> at org.apache.hadoop.hdfs.protocol.HdfsProtoUtil.vintPrefixed(HdfsProtoUtil.java:158)
> at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.transfer(DFSOutputStream.java:860)
> at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.addDatanode2ExistingPipeline(DFSOutputStream.java:838)
> at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.setupPipelineForAppendOrRecovery(DFSOutputStream.java:929)
> at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.processDatanodeError(DFSOutputStream.java:740)
> at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.run(DFSOutputStream.java:415)
> 2011-09-19 18:06:49,837 WARN org.apache.hadoop.mapred.YarnChild: Exception running child : java.io.EOFException: Premature EOF: no length prefix available
> at org.apache.hadoop.hdfs.protocol.HdfsProtoUtil.vintPrefixed(HdfsProtoUtil.java:158)
> at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.transfer(DFSOutputStream.java:860)
> at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.addDatanode2ExistingPipeline(DFSOutputStream.java:838)
> at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.setupPipelineForAppendOrRecovery(DFSOutputStream.java:929)
> at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.processDatanodeError(DFSOutputStream.java:740)
> at org.apache.hadoop.hdfs.DFSOutputStream$DataStreamer.run(DFSOutputStream.java:415)
> 2011-09-19 18:06:49,837 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <APPMASTER> from job_1316452677984_0862 sending #455
> 2011-09-19 18:06:49,839 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <APPMASTER> from job_1316452677984_0862 got value #455
> 2011-09-19 18:06:49,840 DEBUG org.apache.hadoop.ipc.RPC: Call: statusUpdate 3
> 2011-09-19 18:06:49,840 INFO org.apache.hadoop.mapred.Task: Runnning cleanup for the task
> 2011-09-19 18:06:49,840 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <NAMENODE> from gridperf sending #456
> 2011-09-19 18:06:49,858 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <NAMENODE> from gridperf got value #456
> 2011-09-19 18:06:49,858 DEBUG org.apache.hadoop.ipc.RPC: Call: delete 18
> 2011-09-19 18:06:49,858 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <APPMASTER> from job_1316452677984_0862 sending #457
> 2011-09-19 18:06:49,859 DEBUG org.apache.hadoop.ipc.Client: IPC Client (26613121) connection to <APPMASTER> from job_1316452677984_0862 got value #457
> 2011-09-19 18:06:49,859 DEBUG org.apache.hadoop.ipc.RPC: Call: reportDiagnosticInfo 1
> 2011-09-19 18:06:49,859 DEBUG org.apache.hadoop.metrics2.impl.MetricsSystemImpl: refCount=1
> 2011-09-19 18:06:49,859 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: Stopping ReduceTask metrics system...
> 2011-09-19 18:06:49,859 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: Stopping metrics source UgiMetrics
> 2011-09-19 18:06:49,859 DEBUG org.apache.hadoop.metrics2.impl.MetricsSystemImpl: class org.apache.hadoop.metrics2.lib.MetricsSourceBuilder$1
> 2011-09-19 18:06:49,860 DEBUG org.apache.hadoop.metrics2.util.MBeans: Unregistering Hadoop:service=ReduceTask,name=UgiMetrics
> 2011-09-19 18:06:49,860 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: Stopping metrics source JvmMetrics
> 2011-09-19 18:06:49,860 DEBUG org.apache.hadoop.metrics2.impl.MetricsSystemImpl: class org.apache.hadoop.metrics2.source.JvmMetrics
> 2011-09-19 18:06:49,860 DEBUG org.apache.hadoop.metrics2.util.MBeans: Unregistering Hadoop:service=ReduceTask,name=JvmMetrics
> 2011-09-19 18:06:49,860 DEBUG org.apache.hadoop.metrics2.util.MBeans: Unregistering Hadoop:service=ReduceTask,name=MetricsSystem,sub=Stats
> 2011-09-19 18:06:49,860 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: ReduceTask metrics system stopped.
> 2011-09-19 18:06:49,860 DEBUG org.apache.hadoop.metrics2.util.MBeans: Unregistering Hadoop:service=ReduceTask,name=MetricsSystem,sub=Control
> 2011-09-19 18:06:49,860 INFO org.apache.hadoop.metrics2.impl.MetricsSystemImpl: ReduceTask metrics system shutdown complete.
> {code}
> Which means that tasks is supposed to have stopped within 20 secs, whereas the process itself is stuck for more than 15 hours. From AM log, also found that this task was sending its update regularly. ps -ef | grep java was also showing that process is still alive.
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