I am trying to run a spark job via Mesos
it throws an exception
WARN MesosExternalShuffleClient: Unable to register app
6c1b7274-960f-47ef-9fa7-1dd06b05d4f1-0010
with external shuffle service.
Please manually remove shuffle data after driver exit
Error:java.lang.RuntimeException:
java.lang.UnsupportedOperationException: Unexpected message:
org.apache.spark.network.shuffle.protocol.mesos.RegisterDriver#88d86a24
"
and the logs in Stderr as
ERROR CoarseGrainedExecutorBackend: RECEIVED SIGNAL TERM
INFO DiskBlockManager: Shutdown hook called
E0911 05:32:34.711486 6619 process.cpp:951] Failed to accept socket: future discarded**
In Spark-Defaults.conf
spark.mesos.coarse true
spark.network.timeout 3600s
spark.shuffle.io.connectionTimeout 3600s
Who is killing my application..?
I was loading a large CSV into Cassandra using cassandra-loader.
The VM ran out of disk space during this process and crashed. I allocated more disk space to the VM and tried starting cassandra but it refused to start due to problems with SSTables and commit log.
I could not run nodetool repair as it is only works when the node is online.
I ran sstablescrub which took about 1 hour to finish. So I thought it might have fixed it.
But I still get this error in system.log
ERROR [SSTableBatchOpen:4] 2015-10-23 18:57:45,035 SSTableReader.java:506 - Corrupt sstable /var/lib/cassandra/data/keyspace1/location-777a33d0772911e597a98b820c5778a4/la-1709-big=[TOC.txt, CompressionInfo.db, Statistics.db, Digest.adler32, Data.db, Index.db, Filter.db]; skipping table
org.apache.cassandra.io.sstable.CorruptSSTableException: java.io.EOFException
at org.apache.cassandra.io.compress.CompressionMetadata.<init>(CompressionMetadata.java:125) ~[apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.io.compress.CompressionMetadata.create(CompressionMetadata.java:86) ~[apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.io.util.CompressedSegmentedFile$Builder.metadata(CompressedSegmentedFile.java:142) ~[apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.io.util.CompressedPoolingSegmentedFile$Builder.complete(CompressedPoolingSegmentedFile.java:101) ~[apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.io.util.SegmentedFile$Builder.complete(SegmentedFile.java:187) ~[apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.io.util.SegmentedFile$Builder.complete(SegmentedFile.java:179) ~[apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.io.sstable.format.SSTableReader.load(SSTableReader.java:703) ~[apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.io.sstable.format.SSTableReader.load(SSTableReader.java:664) ~[apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.io.sstable.format.SSTableReader.open(SSTableReader.java:458) ~[apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.io.sstable.format.SSTableReader.open(SSTableReader.java:363) ~[apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.io.sstable.format.SSTableReader$4.run(SSTableReader.java:501) ~[apache-cassandra-2.2.3.jar:2.2.3]
at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:511) [na:1.8.0_60]
at java.util.concurrent.FutureTask.run(FutureTask.java:266) [na:1.8.0_60]
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142) [na:1.8.0_60]
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617) [na:1.8.0_60]
at java.lang.Thread.run(Thread.java:745) [na:1.8.0_60]
Caused by: java.io.EOFException: null
at java.io.DataInputStream.readUnsignedShort(DataInputStream.java:340) ~[na:1.8.0_60]
at java.io.DataInputStream.readUTF(DataInputStream.java:589) ~[na:1.8.0_60]
at java.io.DataInputStream.readUTF(DataInputStream.java:564) ~[na:1.8.0_60]
at org.apache.cassandra.io.compress.CompressionMetadata.<init>(CompressionMetadata.java:96) ~[apache-cassandra-2.2.3.jar:2.2.3]
... 15 common frames omitted
INFO [main] 2015-10-23 18:57:45,193 ColumnFamilyStore.java:382 - Initializing system_auth.role_permissions
INFO [main] 2015-10-23 18:57:45,201 ColumnFamilyStore.java:382 - Initializing system_auth.resource_role_permissons_index
INFO [main] 2015-10-23 18:57:45,213 ColumnFamilyStore.java:382 - Initializing system_auth.roles
INFO [main] 2015-10-23 18:57:45,233 ColumnFamilyStore.java:382 - Initializing system_auth.role_members
INFO [main] 2015-10-23 18:57:45,240 ColumnFamilyStore.java:382 - Initializing system_traces.sessions
INFO [main] 2015-10-23 18:57:45,252 ColumnFamilyStore.java:382 - Initializing system_traces.events
INFO [main] 2015-10-23 18:57:45,265 ColumnFamilyStore.java:382 - Initializing simplex.songs
INFO [main] 2015-10-23 18:57:45,276 ColumnFamilyStore.java:382 - Initializing simplex.playlists
INFO [pool-2-thread-1] 2015-10-23 18:57:45,289 AutoSavingCache.java:187 - reading saved cache /var/lib/cassandra/saved_caches/KeyCache-ca.db
INFO [pool-2-thread-1] 2015-10-23 18:57:45,313 AutoSavingCache.java:163 - Completed loading (25 ms; 36 keys) KeyCache cache
INFO [main] 2015-10-23 18:57:45,351 CommitLog.java:168 - Replaying /var/lib/cassandra/commitlog/CommitLog-5-1445578022702.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022703.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022704.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022705.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022706.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022707.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022708.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022709.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022710.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022712.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022713.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022714.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022715.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022716.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022717.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022719.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022720.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022721.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022722.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022723.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022724.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022725.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022727.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022728.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022730.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022731.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022732.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022733.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022734.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022736.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022738.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022740.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022741.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022743.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022744.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022745.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022746.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022748.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022749.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022750.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022751.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022752.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022753.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022755.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022756.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022758.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022759.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022760.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022761.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022763.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022764.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022765.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022766.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022767.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022768.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022769.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022770.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022771.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022772.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022773.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022774.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022775.log, /var/lib/cassandra/commitlog/CommitLog-5-1445578022776.log, /var/lib/cassandra/commitlog/CommitLog-5-1445588991268.log, /var/lib/cassandra/commitlog/CommitLog-5-1445589094722.log, /var/lib/cassandra/commitlog/CommitLog-5-1445589149527.log, /var/lib/cassandra/commitlog/CommitLog-5-1445595828633.log, /var/lib/cassandra/commitlog/CommitLog-5-1445595898055.log, /var/lib/cassandra/commitlog/CommitLog-5-1445596033717.log, /var/lib/cassandra/commitlog/CommitLog-5-1445596400441.log, /var/lib/cassandra/commitlog/CommitLog-5-1445596601854.log, /var/lib/cassandra/commitlog/CommitLog-5-1445598032544.log, /var/lib/cassandra/commitlog/CommitLog-5-1445598758663.log, /var/lib/cassandra/commitlog/CommitLog-5-1445601112953.log, /var/lib/cassandra/commitlog/CommitLog-5-1445601937334.log, /var/lib/cassandra/commitlog/CommitLog-5-1445601985416.log, /var/lib/cassandra/commitlog/CommitLog-5-1445604504389.log, /var/lib/cassandra/commitlog/CommitLog-5-1445606516196.log
ERROR [main] 2015-10-23 18:59:05,091 JVMStabilityInspector.java:78 - Exiting due to error while processing commit log during initialization.
org.apache.cassandra.db.commitlog.CommitLogReplayer$CommitLogReplayException: Mutation checksum failure at 4110758 in CommitLog-5-1445578022776.log
at org.apache.cassandra.db.commitlog.CommitLogReplayer.handleReplayError(CommitLogReplayer.java:622) [apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.db.commitlog.CommitLogReplayer.replaySyncSection(CommitLogReplayer.java:492) [apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.db.commitlog.CommitLogReplayer.recover(CommitLogReplayer.java:388) [apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.db.commitlog.CommitLogReplayer.recover(CommitLogReplayer.java:147) [apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.db.commitlog.CommitLog.recover(CommitLog.java:189) [apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.db.commitlog.CommitLog.recover(CommitLog.java:169) [apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.service.CassandraDaemon.setup(CassandraDaemon.java:273) [apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.service.CassandraDaemon.activate(CassandraDaemon.java:513) [apache-cassandra-2.2.3.jar:2.2.3]
at org.apache.cassandra.service.CassandraDaemon.main(CassandraDaemon.java:622) [apache-cassandra-2.2.3.jar:2.2.3]
Exiting due to error while processing commit log during initialization.
How do I fix this? This is test data, I am okay with losing it. How would one handle this in production to avoid data loss?
Tried setting disk_failure_policy: ignore so that I could run nodetool repair once the server is up. But the server does not start even with this setting.
I am operating a single node and replication factor is 1. Would having more nodes and a >1 replication factor enabled me to fix an issue like this without data loss?
I am using Cassandra 2.2.3
Since you don't care about the data, removing files from \data\commitlogs should be easiest solution.
Having some replication would surely help you to fix this without data loss but it would come with a price.
Despite all your effort you cannot manage to recover your corrupted sstable. So you decide to remove it from your file system to start Cassandra again. If you do not have replication your data is lost. But if you have replication on the cluster, you can possibly fetch the data from other nodes. That is what nodetool repair do !
So nodetool repair does not repair corrupted sstable. Basicallynodetool repair compare tables from node to node to find missing or inconsistent data and then repair it. You can find more information on how it works here.
However nodetool repair is very expensive, it is long and uses a lot of cpu, disk and network. There is this good post about repair benefits and drawbacks.
This is how I fixed the problem with commit logs.
You should only do this if you don't care about preserving the state of your commit logs.
Try to restart cassandra using
sudo systemctl restart cassandra
Then I check
systemctl status cassandra
and see that the status is 'exited' so there is a problem. Check the logs for cassandra using
sudo less /var/log/cassandra/system.log
and see org.apache.cassandra.db.commitlog.CommitLogReplayer$CommitLogReplayException: Could not read commit log descriptor in file /var/lib/cassandra/commitlog/CommitLog-6-1498210233635.log
Because I don't care about preserving the state of Cassandra I delete all of the commit logs and it now boots up fine
sudo rm /var/lib/cassandra/commitlog/CommitLog*
sudo systemctl restart cassandra
systemctl status cassandra (should confirm that it it now running)
Simply goes in log directory in cassandra and delete the log files.
It work fine....
I am getting some problem at cassandra startup. The details of the exceptios is as follows:-
INFO 06:49:10 Initializing system.sstable_activity
ERROR 06:49:10 Exiting due to error while processing commit log during initialization.
java.lang.InternalError: a fault occurred in a recent unsafe memory access operation in compiled Java code
at org.apache.cassandra.db.commitlog.CommitLogDescriptor.writeHeader(CommitLogDescriptor.java:73) ~[apache-cassandra-2.1.9.jar:2.1.9]
at org.apache.cassandra.db.commitlog.CommitLogSegment.<init>(CommitLogSegment.java:168) ~[apache-cassandra-2.1.9.jar:2.1.9]
at org.apache.cassandra.db.commitlog.CommitLogSegment.freshSegment(CommitLogSegment.java:119) ~[apache-cassandra-2.1.9.jar:2.1.9]
at org.apache.cassandra.db.commitlog.CommitLogSegmentManager$1.runMayThrow(CommitLogSegmentManager.java:119) ~[apache-cassandra-2.1.9.jar:2.1.9]
at org.apache.cassandra.utils.WrappedRunnable.run(WrappedRunnable.java:28) [apache-cassandra-2.1.9.jar:2.1.9]
at java.lang.Thread.run(Unknown Source) [na:1.8.0_60]
What can be the reason for this ?
I fixed this issue by deleting a commit log that was causing the issue.
I found the log in /casandra/data/commitlog .
After I deleted, I re-ran cassandra and all was well. I hope this helps someone!
Dunno what is the reason to this, but restarting my system solved the problem.
This is how I fixed the problem with commit logs. You should only do this if you don't care about preserving the state of your commit logs.
Try to restart cassandra using
sudo systemctl restart cassandra
Then I check
systemctl status cassandra
and see that the status is 'exited' so there is a problem. Check the logs for cassandra using
sudo less /var/log/cassandra/system.log
and see org.apache.cassandra.db.commitlog.CommitLogReplayer$CommitLogReplayException: Could not read commit log descriptor in file /var/lib/cassandra/commitlog/CommitLog-6-1498210233635.log
Because I don't care about preserving the state of Cassandra I delete all of the commit logs and it now boots up fine
sudo rm /var/lib/cassandra/commitlog/CommitLog*
sudo systemctl restart cassandra
systemctl status cassandra (should confirm that it it now running)
I am getting an error in launching the standalone Spark driver in cluster mode. As per the documentation, it is noted that cluster mode is supported in the Spark 1.2.1 release. However, it is currently not working properly for me. Please help me in fixing the issue(s) that are preventing the proper functioning of Spark.
I have 3 node spark cluster node1 , node2 and node 3
I running below command on node 1 for deploying driver
/usr/local/spark-1.2.1-bin-hadoop2.4/bin/spark-submit --class com.fst.firststep.aggregator.FirstStepMessageProcessor --master spark://ec2-xx-xx-xx-xx.compute-1.amazonaws.com:7077 --deploy-mode cluster --supervise file:///home/xyz/sparkstreaming-0.0.1-SNAPSHOT.jar /home/xyz/config.properties
driver gets launched on node 2 in cluster. but getting exception on node 2 that it is trying to bind to node 1 ip.
2015-02-26 08:47:32 DEBUG AkkaUtils:63 - In createActorSystem, requireCookie is: off
2015-02-26 08:47:32 INFO Slf4jLogger:80 - Slf4jLogger started
2015-02-26 08:47:33 ERROR NettyTransport:65 - failed to bind to ec2-xx.xx.xx.xx.compute-1.amazonaws.com/xx.xx.xx.xx:0, shutting down Netty transport
2015-02-26 08:47:33 WARN Utils:71 - Service 'Driver' could not bind on port 0. Attempting port 1.
2015-02-26 08:47:33 DEBUG AkkaUtils:63 - In createActorSystem, requireCookie is: off
2015-02-26 08:47:33 ERROR Remoting:65 - Remoting error: [Startup failed] [
akka.remote.RemoteTransportException: Startup failed
at akka.remote.Remoting.akka$remote$Remoting$$notifyError(Remoting.scala:136)
at akka.remote.Remoting.start(Remoting.scala:201)
at akka.remote.RemoteActorRefProvider.init(RemoteActorRefProvider.scala:184)
at akka.actor.ActorSystemImpl.liftedTree2$1(ActorSystem.scala:618)
at akka.actor.ActorSystemImpl._start$lzycompute(ActorSystem.scala:615)
at akka.actor.ActorSystemImpl._start(ActorSystem.scala:615)
at akka.actor.ActorSystemImpl.start(ActorSystem.scala:632)
at akka.actor.ActorSystem$.apply(ActorSystem.scala:141)
at akka.actor.ActorSystem$.apply(ActorSystem.scala:118)
at org.apache.spark.util.AkkaUtils$.org$apache$spark$util$AkkaUtils$$doCreateActorSystem(AkkaUtils.scala:121)
at org.apache.spark.util.AkkaUtils$$anonfun$1.apply(AkkaUtils.scala:54)
at org.apache.spark.util.AkkaUtils$$anonfun$1.apply(AkkaUtils.scala:53)
at org.apache.spark.util.Utils$$anonfun$startServiceOnPort$1.apply$mcVI$sp(Utils.scala:1765)
at scala.collection.immutable.Range.foreach$mVc$sp(Range.scala:141)
at org.apache.spark.util.Utils$.startServiceOnPort(Utils.scala:1756)
at org.apache.spark.util.AkkaUtils$.createActorSystem(AkkaUtils.scala:56)
at org.apache.spark.deploy.worker.DriverWrapper$.main(DriverWrapper.scala:33)
at org.apache.spark.deploy.worker.DriverWrapper.main(DriverWrapper.scala)
Caused by: org.jboss.netty.channel.ChannelException: Failed to bind to: ec2-xx-xx-xx.compute-1.amazonaws.com/xx.xx.xx.xx:0
at org.jboss.netty.bootstrap.ServerBootstrap.bind(ServerBootstrap.java:272)
at akka.remote.transport.netty.NettyTransport$$anonfun$listen$1.apply(NettyTransport.scala:393)
at akka.remote.transport.netty.NettyTransport$$anonfun$listen$1.apply(NettyTransport.scala:389)
at scala.util.Success$$anonfun$map$1.apply(Try.scala:206)
at scala.util.Try$.apply(Try.scala:161)
at scala.util.Success.map(Try.scala:206)
kindly suggest
Thanks`enter code here`
It is not possible to bind to port 0. There is/are errors in your spark configuration. Specifically look at the
spark.webui.port
It is probably set to 0.