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Posted to issues@spark.apache.org by "Nicholas Chammas (JIRA)" <ji...@apache.org> on 2014/08/31 23:13:21 UTC
[jira] [Commented] (SPARK-3333) Large number of partitions causes
OOM
[ https://issues.apache.org/jira/browse/SPARK-3333?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14116895#comment-14116895 ]
Nicholas Chammas commented on SPARK-3333:
-----------------------------------------
Note: I have not yet confirmed that 1.1.0-rc3 yields the exact same stack trace as the one provided above (which is for 1.1.0-rc2), though I expect them to be the same. I _can_ confirm that it takes a very, very long time to run, as it is running right now on rc3 and has been for about 45 minutes. Since I have to be offline for a bit, I thought I'd report this issue ASAP with the rc2 stack trace and update it later with a stack trace from rc3.
> Large number of partitions causes OOM
> -------------------------------------
>
> Key: SPARK-3333
> URL: https://issues.apache.org/jira/browse/SPARK-3333
> Project: Spark
> Issue Type: Bug
> Components: PySpark
> Affects Versions: 1.1.0
> Environment: EC2; 1 master; 1 slave; {{m3.xlarge}} instances
> Reporter: Nicholas Chammas
>
> Here’s a repro for PySpark:
> {code}
> a = sc.parallelize(["Nick", "John", "Bob"])
> a = a.repartition(24000)
> a.keyBy(lambda x: len(x)).reduceByKey(lambda x,y: x + y).take(1)
> {code}
> This code runs fine on 1.0.2. It returns the following result in just over a minute:
> {code}
> [(4, 'NickJohn')]
> {code}
> However, when I try this with 1.1.0-rc3 on an identically-sized cluster, it runs for a very, very long time (at least > 45 min) and then fails with {{java.lang.OutOfMemoryError: Java heap space}}.
> Here is a stack trace taken from a run on 1.1.0-rc2:
> {code}
> >>> a = sc.parallelize(["Nick", "John", "Bob"])
> >>> a = a.repartition(24000)
> >>> a.keyBy(lambda x: len(x)).reduceByKey(lambda x,y: x + y).take(1)
> 14/08/29 21:53:40 WARN BlockManagerMasterActor: Removing BlockManager BlockManagerId(0, ip-10-138-29-167.ec2.internal, 46252, 0) with no recent heart beats: 175143ms exceeds 45000ms
> 14/08/29 21:53:50 WARN BlockManagerMasterActor: Removing BlockManager BlockManagerId(10, ip-10-138-18-106.ec2.internal, 33711, 0) with no recent heart beats: 175359ms exceeds 45000ms
> 14/08/29 21:54:02 WARN BlockManagerMasterActor: Removing BlockManager BlockManagerId(19, ip-10-139-36-207.ec2.internal, 52208, 0) with no recent heart beats: 173061ms exceeds 45000ms
> 14/08/29 21:54:13 WARN BlockManagerMasterActor: Removing BlockManager BlockManagerId(5, ip-10-73-142-70.ec2.internal, 56162, 0) with no recent heart beats: 176816ms exceeds 45000ms
> 14/08/29 21:54:22 WARN BlockManagerMasterActor: Removing BlockManager BlockManagerId(7, ip-10-236-145-200.ec2.internal, 40959, 0) with no recent heart beats: 182241ms exceeds 45000ms
> 14/08/29 21:54:40 WARN BlockManagerMasterActor: Removing BlockManager BlockManagerId(4, ip-10-139-1-195.ec2.internal, 49221, 0) with no recent heart beats: 178406ms exceeds 45000ms
> 14/08/29 21:54:41 ERROR Utils: Uncaught exception in thread Result resolver thread-3
> java.lang.OutOfMemoryError: Java heap space
> at com.esotericsoftware.kryo.io.Input.readBytes(Input.java:296)
> at com.esotericsoftware.kryo.serializers.DefaultArraySerializers$ByteArraySerializer.read(DefaultArraySerializers.java:35)
> at com.esotericsoftware.kryo.serializers.DefaultArraySerializers$ByteArraySerializer.read(DefaultArraySerializers.java:18)
> at com.esotericsoftware.kryo.Kryo.readObjectOrNull(Kryo.java:699)
> at com.esotericsoftware.kryo.serializers.FieldSerializer$ObjectField.read(FieldSerializer.java:611)
> at com.esotericsoftware.kryo.serializers.FieldSerializer.read(FieldSerializer.java:221)
> at com.esotericsoftware.kryo.Kryo.readClassAndObject(Kryo.java:729)
> at org.apache.spark.serializer.KryoSerializerInstance.deserialize(KryoSerializer.scala:162)
> at org.apache.spark.scheduler.DirectTaskResult.value(TaskResult.scala:79)
> at org.apache.spark.scheduler.TaskSetManager.handleSuccessfulTask(TaskSetManager.scala:514)
> at org.apache.spark.scheduler.TaskSchedulerImpl.handleSuccessfulTask(TaskSchedulerImpl.scala:355)
> at org.apache.spark.scheduler.TaskResultGetter$$anon$2$$anonfun$run$1.apply$mcV$sp(TaskResultGetter.scala:68)
> at org.apache.spark.scheduler.TaskResultGetter$$anon$2$$anonfun$run$1.apply(TaskResultGetter.scala:47)
> at org.apache.spark.scheduler.TaskResultGetter$$anon$2$$anonfun$run$1.apply(TaskResultGetter.scala:47)
> at org.apache.spark.util.Utils$.logUncaughtExceptions(Utils.scala:1311)
> at org.apache.spark.scheduler.TaskResultGetter$$anon$2.run(TaskResultGetter.scala:46)
> at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
> at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
> at java.lang.Thread.run(Thread.java:745)
> Exception in thread "Result resolver thread-3" 14/08/29 21:56:26 ERROR SendingConnection: Exception while reading SendingConnection to ConnectionManagerId(ip-10-73-142-223.ec2.internal,54014)
> java.nio.channels.ClosedChannelException
> at sun.nio.ch.SocketChannelImpl.ensureReadOpen(SocketChannelImpl.java:252)
> at sun.nio.ch.SocketChannelImpl.read(SocketChannelImpl.java:295)
> at org.apache.spark.network.SendingConnection.read(Connection.scala:390)
> at org.apache.spark.network.ConnectionManager$$anon$7.run(ConnectionManager.scala:199)
> at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
> at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
> at java.lang.Thread.run(Thread.java:745)
> java.lang.OutOfMemoryError: Java heap space
> at com.esotericsoftware.kryo.io.Input.readBytes(Input.java:296)
> at com.esotericsoftware.kryo.serializers.DefaultArraySerializers$ByteArraySerializer.read(DefaultArraySerializers.java:35)
> at com.esotericsoftware.kryo.serializers.DefaultArraySerializers$ByteArraySerializer.read(DefaultArraySerializers.java:18)
> at com.esotericsoftware.kryo.Kryo.readObjectOrNull(Kryo.java:699)
> at com.esotericsoftware.kryo.serializers.FieldSerializer$ObjectField.read(FieldSerializer.java:611)
> at com.esotericsoftware.kryo.serializers.FieldSerializer.read(FieldSerializer.java:221)
> at com.esotericsoftware.kryo.Kryo.readClassAndObject(Kryo.java:729)
> at org.apache.spark.serializer.KryoSerializerInstance.deserialize(KryoSerializer.scala:162)
> at org.apache.spark.scheduler.DirectTaskResult.value(TaskResult.scala:79)
> at org.apache.spark.scheduler.TaskSetManager.handleSuccessfulTask(TaskSetManager.scala:514)
> at org.apache.spark.scheduler.TaskSchedulerImpl.handleSuccessfulTask(TaskSchedulerImpl.scala:355)
> at org.apache.spark.scheduler.TaskResultGetter$$anon$2$$anonfun$run$1.apply$mcV$sp(TaskResultGetter.scala:68)
> at org.apache.spark.scheduler.TaskResultGetter$$anon$2$$anonfun$run$1.apply(TaskResultGetter.scala:47)
> at org.apache.spark.scheduler.TaskResultGetter$$anon$2$$anonfun$run$1.apply(TaskResultGetter.scala:47)
> at org.apache.spark.util.Utils$.logUncaughtExceptions(Utils.scala:1311)
> at org.apache.spark.scheduler.TaskResultGetter$$anon$2.run(TaskResultGetter.scala:46)
> at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
> at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
> at java.lang.Thread.run(Thread.java:745)
> 14/08/29 21:54:43 WARN BlockManagerMasterActor: Removing BlockManager BlockManagerId(6, ip-10-137-1-139.ec2.internal, 42539, 0) with no recent heart beats: 183978ms exceeds 45000ms
> 14/08/29 21:57:42 ERROR ConnectionManager: Corresponding SendingConnection to ConnectionManagerId(ip-10-138-9-33.ec2.internal,41924) not found
> 14/08/29 21:57:51 WARN BlockManagerMasterActor: Removing BlockManager BlockManagerId(11, ip-10-236-181-116.ec2.internal, 46847, 0) with no recent heart beats: 178629ms exceeds 45000ms
> 14/08/29 21:57:43 ERROR ConnectionManager: Corresponding SendingConnection to ConnectionManagerId(ip-10-137-1-139.ec2.internal,42539) not found
> 14/08/29 21:57:54 ERROR SendingConnection: Exception while reading SendingConnection to ConnectionManagerId(ip-10-141-136-168.ec2.internal,42960)
> java.nio.channels.ClosedChannelException
> at sun.nio.ch.SocketChannelImpl.ensureReadOpen(SocketChannelImpl.java:252)
> at sun.nio.ch.SocketChannelImpl.read(SocketChannelImpl.java:295)
> at org.apache.spark.network.SendingConnection.read(Connection.scala:390)
> at org.apache.spark.network.ConnectionManager$$anon$7.run(ConnectionManager.scala:199)
> at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
> at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
> at java.lang.Thread.run(Thread.java:745)
> {code}
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