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From "Matthew Sharp (JIRA)" <j...@apache.org>
Subject [jira] [Commented] (SPARK-15519) Shuffle Service fails to start if first yarn.nodemanager.local-dirs is bad
Date Wed, 25 May 2016 00:30:12 GMT

    [ https://issues.apache.org/jira/browse/SPARK-15519?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=15299234#comment-15299234
] 

Matthew Sharp commented on SPARK-15519:
---------------------------------------

I misclicked and resolved as Fixed instead of as Duplicate. Feel free to edit.

> Shuffle Service fails to start if first yarn.nodemanager.local-dirs is bad
> --------------------------------------------------------------------------
>
>                 Key: SPARK-15519
>                 URL: https://issues.apache.org/jira/browse/SPARK-15519
>             Project: Spark
>          Issue Type: Bug
>          Components: Shuffle, YARN
>    Affects Versions: 1.6.1
>         Environment: Ubuntu 14.04 LTS, MapR 5.1, hadoop-2.7.0
>            Reporter: Matthew Sharp
>
> {{yarn.nodemanager.local-dirs}} is set to {{/mnt/data0,/mnt/data1,/mnt/data2,/mnt/data3,/mnt/data4}}
> /mnt/data0 was not mounted due to a disk failure, so it was an empty directory which
users were not allowed to write to.
> Starting up the node manager, we get this in the logs:
> {quote}
> 2016-05-24 15:41:56,456 INFO org.apache.spark.network.yarn.YarnShuffleService: Initializing
YARN shuffle service for Spark
> 2016-05-24 15:41:56,456 INFO org.apache.hadoop.yarn.server.nodemanager.containermanager.AuxServices:
Adding auxiliary service spark_shuffle, "spark_shuffle"
> 2016-05-24 15:41:56,609 ERROR org.apache.spark.network.shuffle.ExternalShuffleBlockResolver:
error opening leveldb file /mnt/data0/registeredExecutors.ldb.  Creating new file, will not
be able to recover state for existing applications
> org.fusesource.leveldbjni.internal.NativeDB$DBException: IO error: /mnt/data0/registeredExecutors.ldb/LOCK:
Permission denied
>         at org.fusesource.leveldbjni.internal.NativeDB.checkStatus(NativeDB.java:200)
>         at org.fusesource.leveldbjni.internal.NativeDB.open(NativeDB.java:218)
>         at org.fusesource.leveldbjni.JniDBFactory.open(JniDBFactory.java:168)
>         at org.apache.spark.network.shuffle.ExternalShuffleBlockResolver.<init>(ExternalShuffleBlockResolver.java:100)
>         at org.apache.spark.network.shuffle.ExternalShuffleBlockResolver.<init>(ExternalShuffleBlockResolver.java:81)
>         at org.apache.spark.network.shuffle.ExternalShuffleBlockHandler.<init>(ExternalShuffleBlockHandler.java:56)
>         at org.apache.spark.network.yarn.YarnShuffleService.serviceInit(YarnShuffleService.java:128)
>         at org.apache.hadoop.service.AbstractService.init(AbstractService.java:163)
>         at org.apache.hadoop.yarn.server.nodemanager.containermanager.AuxServices.serviceInit(AuxServices.java:157)
>         at org.apache.hadoop.service.AbstractService.init(AbstractService.java:163)
>         at org.apache.hadoop.service.CompositeService.serviceInit(CompositeService.java:107)
>         at org.apache.hadoop.yarn.server.nodemanager.containermanager.ContainerManagerImpl.serviceInit(ContainerManagerImpl.java:250)
>         at org.apache.hadoop.service.AbstractService.init(AbstractService.java:163)
>         at org.apache.hadoop.service.CompositeService.serviceInit(CompositeService.java:107)
>         at org.apache.hadoop.yarn.server.nodemanager.NodeManager.serviceInit(NodeManager.java:256)
>         at org.apache.hadoop.service.AbstractService.init(AbstractService.java:163)
>         at org.apache.hadoop.yarn.server.nodemanager.NodeManager.initAndStartNodeManager(NodeManager.java:476)
>         at org.apache.hadoop.yarn.server.nodemanager.NodeManager.main(NodeManager.java:524)
> 2016-05-24 15:41:56,611 WARN org.apache.spark.network.shuffle.ExternalShuffleBlockResolver:
error deleting /mnt/data0/registeredExecutors.ldb
> 2016-05-24 15:41:56,611 ERROR org.apache.spark.network.yarn.YarnShuffleService: Failed
to initialize external shuffle service
> java.io.IOException: Unable to create state store
>         at org.apache.spark.network.shuffle.ExternalShuffleBlockResolver.<init>(ExternalShuffleBlockResolver.java:129)
>         at org.apache.spark.network.shuffle.ExternalShuffleBlockResolver.<init>(ExternalShuffleBlockResolver.java:81)
>         at org.apache.spark.network.shuffle.ExternalShuffleBlockHandler.<init>(ExternalShuffleBlockHandler.java:56)
>         at org.apache.spark.network.yarn.YarnShuffleService.serviceInit(YarnShuffleService.java:128)
>         at org.apache.hadoop.service.AbstractService.init(AbstractService.java:163)
>         at org.apache.hadoop.yarn.server.nodemanager.containermanager.AuxServices.serviceInit(AuxServices.java:157)
>         at org.apache.hadoop.service.AbstractService.init(AbstractService.java:163)
>         at org.apache.hadoop.service.CompositeService.serviceInit(CompositeService.java:107)
>         at org.apache.hadoop.yarn.server.nodemanager.containermanager.ContainerManagerImpl.serviceInit(ContainerManagerImpl.java:250)
>         at org.apache.hadoop.service.AbstractService.init(AbstractService.java:163)
>         at org.apache.hadoop.service.CompositeService.serviceInit(CompositeService.java:107)
>         at org.apache.hadoop.yarn.server.nodemanager.NodeManager.serviceInit(NodeManager.java:256)
>         at org.apache.hadoop.service.AbstractService.init(AbstractService.java:163)
>         at org.apache.hadoop.yarn.server.nodemanager.NodeManager.initAndStartNodeManager(NodeManager.java:476)
>         at org.apache.hadoop.yarn.server.nodemanager.NodeManager.main(NodeManager.java:524)
> Caused by: org.fusesource.leveldbjni.internal.NativeDB$DBException: IO error: /mnt/data0/registeredExecutors.ldb/LOCK:
Permission denied
>         at org.fusesource.leveldbjni.internal.NativeDB.checkStatus(NativeDB.java:200)
>         at org.fusesource.leveldbjni.internal.NativeDB.open(NativeDB.java:218)
>         at org.fusesource.leveldbjni.JniDBFactory.open(JniDBFactory.java:168)
>         at org.apache.spark.network.shuffle.ExternalShuffleBlockResolver.<init>(ExternalShuffleBlockResolver.java:127)
>         ... 14 more
> 2016-05-24 15:41:56,723 INFO org.apache.spark.network.yarn.YarnShuffleService: Started
YARN shuffle service for Spark on port 7337. Authentication is not enabled.  Registered executor
file is /mnt/data0/registeredExecutors.ldb
> {quote}
> Later on, when jobs run on that node, we get many of this message:
> {quote}
> 2016-05-24 15:39:57,171 ERROR org.apache.spark.network.TransportContext: Error while
initializing Netty pipeline
> java.lang.NullPointerException
>         at org.apache.spark.network.server.TransportRequestHandler.<init>(TransportRequestHandler.java:77)
>         at org.apache.spark.network.TransportContext.createChannelHandler(TransportContext.java:159)
>         at org.apache.spark.network.TransportContext.initializePipeline(TransportContext.java:135)
>         at org.apache.spark.network.server.TransportServer$1.initChannel(TransportServer.java:123)
>         at org.apache.spark.network.server.TransportServer$1.initChannel(TransportServer.java:116)
>         at io.netty.channel.ChannelInitializer.channelRegistered(ChannelInitializer.java:69)
>         at io.netty.channel.AbstractChannelHandlerContext.invokeChannelRegistered(AbstractChannelHandlerContext.java:158)
>         at io.netty.channel.AbstractChannelHandlerContext.fireChannelRegistered(AbstractChannelHandlerContext.java:144)
>         at io.netty.channel.DefaultChannelPipeline.fireChannelRegistered(DefaultChannelPipeline.java:732)
>         at io.netty.channel.AbstractChannel$AbstractUnsafe.register0(AbstractChannel.java:442)
>         at io.netty.channel.AbstractChannel$AbstractUnsafe.access$100(AbstractChannel.java:374)
>         at io.netty.channel.AbstractChannel$AbstractUnsafe$1.run(AbstractChannel.java:418)
>         at io.netty.util.concurrent.SingleThreadEventExecutor.runAllTasks(SingleThreadEventExecutor.java:380)
>         at io.netty.channel.nio.NioEventLoop.run(NioEventLoop.java:357)
>         at io.netty.util.concurrent.SingleThreadEventExecutor$2.run(SingleThreadEventExecutor.java:116)
>         at java.lang.Thread.run(Thread.java:745)
> {quote}
> We were not seeing this issue with the 1.3.1 shuffle service.
> We would expect that the shuffle service would fail over to the next local-dir if the
first one fails.



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