Matthew Sharp created SPARK-15519:
-------------------------------------
Summary: 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 would expect that the shuffle service would fail over to the next local-dir
if the first one fails.
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