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From vtkmh <kevinmhin...@hotmail.com>
Subject mllib random forest - executor heartbeat timed out
Date Thu, 12 May 2016 17:08:17 GMT
Hello,

I have a random forest that works fine with 20 trees on 5e6 LabeledPoints
for training and 300 features...  but when I try to scale it up just a bit
to 60 or 100 trees and 10e6 training points, it consistently gets
ExecutorLostFailure's due to "no recent heartbeats" with timeout of 120s. 
(more detail on error below)

what I'm hoping for, in addition to understanding why it's failing... 
what's a practical approach to making this work?
- change some spark parameters?  i.e. increase
spark.executor.heartbeatInterval?
- larger cluster? 
- (last resort) smaller or fewer trees?

any advice appreciated.
thank you!

// rf params
val numClasses              = 2
val numTrees                = 100
val featureSubsetStrategy   = "auto"
val maxDepth                = 21
val maxBins                 = 16
val subsamplingRate         = 0.8             
val minInstancesPerNode     = 9
val maxMemoryInMB           = 3000
val useNodeIdCache          = true

// error details
16/05/12 15:55:38 WARN HeartbeatReceiver: Removing executor 4 with no recent
heartbeats: 126112 ms exceeds timeout 120000 ms
16/05/12 15:55:38 ERROR YarnScheduler: Lost executor 4 on
ip-10-101-xx-xx.us-west-2.compute.internal: Executor heartbeat timed out
after 126112 ms
16/05/12 15:55:38 WARN TaskSetManager: Lost task 72.3 in stage 38.0 (TID
29394, ip-10-101-xx-xx.us-west-2.compute.internal): ExecutorLostFailure
(executor 4 exited caused by one of the run


16/05/12 15:55:38 INFO YarnClientSchedulerBackend: Requesting to kill
executor(s) 4
16/05/12 15:55:38 INFO YarnScheduler: Cancelling stage 38
16/05/12 15:55:38 INFO YarnScheduler: Stage 38 was cancelled
16/05/12 15:55:38 INFO DAGScheduler: ShuffleMapStage 38 (mapPartitions at
DecisionTree.scala:604) failed in 3732.026 s
16/05/12 15:55:38 INFO DAGScheduler: Executor lost: 4 (epoch 18)
16/05/12 15:55:38 INFO DAGScheduler: Job 20 failed: collectAsMap at
DecisionTree.scala:651, took 3739.423425 s
16/05/12 15:55:38 INFO BlockManagerMasterEndpoint: Trying to remove executor
4 from BlockManagerMaster.
16/05/12 15:55:38 INFO BlockManagerMasterEndpoint: Removing block manager
BlockManagerId(4, ip-10-101-xx-xx.us-west-2.compute.internal, 41007)
16/05/12 15:55:38 INFO BlockManagerMaster: Removed 4 successfully in
removeExecutor
16/05/12 15:55:38 INFO DAGScheduler: Host added was in lost list earlier:
ip-10-101-xx-xx.us-west-2.compute.internal
org.apache.spark.SparkException: Job aborted due to stage failure: Task 72
in stage 38.0 failed 4 times, most recent failure: Lost task 72.3 in stage
38.0 (TID 29394, ip-10-101-xx-xx.us-west-2.compute.internal):
ExecutorLostFailure (executor 4 exited caused by one of the running tasks)
Reason: Executor heartbeat timed out after 126112 ms
Driver stacktrace:
        at
org.apache.spark.scheduler.DAGScheduler.org$apache$spark$scheduler$DAGScheduler$$failJobAndIndependentStages(DAGScheduler.scala:1431)
        at
org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1419)
        at
org.apache.spark.scheduler.DAGScheduler$$anonfun$abortStage$1.apply(DAGScheduler.scala:1418)
        at
scala.collection.mutable.ResizableArray$class.foreach(ResizableArray.scala:59)
        at
scala.collection.mutable.ArrayBuffer.foreach(ArrayBuffer.scala:47)
        at
org.apache.spark.scheduler.DAGScheduler.abortStage(DAGScheduler.scala:1418)
        at
org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:799)
        at
org.apache.spark.scheduler.DAGScheduler$$anonfun$handleTaskSetFailed$1.apply(DAGScheduler.scala:799)
        at scala.Option.foreach(Option.scala:236)
        at
org.apache.spark.scheduler.DAGScheduler.handleTaskSetFailed(DAGScheduler.scala:799)
        at
org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.doOnReceive(DAGScheduler.scala:1640)
        at
org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:1599)
        at
org.apache.spark.scheduler.DAGSchedulerEventProcessLoop.onReceive(DAGScheduler.scala:1588)
        at org.apache.spark.util.EventLoop$$anon$1.run(EventLoop.scala:48)
        at
org.apache.spark.scheduler.DAGScheduler.runJob(DAGScheduler.scala:620)
        at org.apache.spark.SparkContext.runJob(SparkContext.scala:1832)
        at org.apache.spark.SparkContext.runJob(SparkContext.scala:1845)
        at org.apache.spark.SparkContext.runJob(SparkContext.scala:1858)
        at org.apache.spark.SparkContext.runJob(SparkContext.scala:1929)
        at org.apache.spark.rdd.RDD$$anonfun$collect$1.apply(RDD.scala:927)
        at
org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:150)
        at
org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:111)
        at org.apache.spark.rdd.RDD.withScope(RDD.scala:316)
        at org.apache.spark.rdd.RDD.collect(RDD.scala:926)
        at
org.apache.spark.rdd.PairRDDFunctions$$anonfun$collectAsMap$1.apply(PairRDDFunctions.scala:741)
        at
org.apache.spark.rdd.PairRDDFunctions$$anonfun$collectAsMap$1.apply(PairRDDFunctions.scala:740)
        at
org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:150)
        at
org.apache.spark.rdd.RDDOperationScope$.withScope(RDDOperationScope.scala:111)
        at org.apache.spark.rdd.RDD.withScope(RDD.scala:316)
        at
org.apache.spark.rdd.PairRDDFunctions.collectAsMap(PairRDDFunctions.scala:740)
        at
org.apache.spark.mllib.tree.DecisionTree$.findBestSplits(DecisionTree.scala:651)
        at
org.apache.spark.mllib.tree.RandomForest.run(RandomForest.scala:233)
        at
org.apache.spark.mllib.tree.RandomForest$.trainClassifier(RandomForest.scala:289)
        at $iwC$$iwC$$iwC$$iwC$$iwC$$iwC$$iwC$$iwC.<init>(<console>:52)
        at $iwC$$iwC$$iwC$$iwC$$iwC$$iwC$$iwC.<init>(<console>:58)
        at $iwC$$iwC$$iwC$$iwC$$iwC$$iwC.<init>(<console>:60)
        at $iwC$$iwC$$iwC$$iwC$$iwC.<init>(<console>:62)
        at $iwC$$iwC$$iwC$$iwC.<init>(<console>:64)
        at $iwC$$iwC$$iwC.<init>(<console>:66)
        at $iwC$$iwC.<init>(<console>:68)
        at $iwC.<init>(<console>:70)
        at <init>(<console>:72)
        at .<init>(<console>:76)
        at .<clinit>(<console>)
        at .<init>(<console>:7)
        at .<clinit>(<console>)
        at $print(<console>)
        at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
        at
sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
        at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
        at java.lang.reflect.Method.invoke(Method.java:606)
        at
org.apache.spark.repl.SparkIMain$ReadEvalPrint.call(SparkIMain.scala:1065)
        at
org.apache.spark.repl.SparkIMain$Request.loadAndRun(SparkIMain.scala:1346)
        at
org.apache.spark.repl.SparkIMain.loadAndRunReq$1(SparkIMain.scala:840)
        at org.apache.spark.repl.SparkIMain.interpret(SparkIMain.scala:871)
        at org.apache.spark.repl.SparkIMain.interpret(SparkIMain.scala:819)
        at
org.apache.spark.repl.SparkILoop.reallyInterpret$1(SparkILoop.scala:857)
        at
org.apache.spark.repl.SparkILoop.interpretStartingWith(SparkILoop.scala:902)
        at
org.apache.spark.repl.SparkILoop.reallyInterpret$1(SparkILoop.scala:875)
        at
org.apache.spark.repl.SparkILoop.interpretStartingWith(SparkILoop.scala:902)
        at org.apache.spark.repl.SparkILoop.command(SparkILoop.scala:814)
        at
org.apache.spark.repl.SparkILoop.processLine$1(SparkILoop.scala:657)
        at
org.apache.spark.repl.SparkILoop.innerLoop$1(SparkILoop.scala:665)
        at
org.apache.spark.repl.SparkILoop.org$apache$spark$repl$SparkILoop$$loop(SparkILoop.scala:670)
        at
org.apache.spark.repl.SparkILoop$$anonfun$org$apache$spark$repl$SparkILoop$$process$1.apply$mcZ$sp(SparkILoop.scala:997)
        at
org.apache.spark.repl.SparkILoop$$anonfun$org$apache$spark$repl$SparkILoop$$process$1.apply(SparkILoop.scala:945)
        at
org.apache.spark.repl.SparkILoop$$anonfun$org$apache$spark$repl$SparkILoop$$process$1.apply(SparkILoop.scala:945)
        at
scala.tools.nsc.util.ScalaClassLoader$.savingContextLoader(ScalaClassLoader.scala:135)
        at
org.apache.spark.repl.SparkILoop.org$apache$spark$repl$SparkILoop$$process(SparkILoop.scala:945)
        at org.apache.spark.repl.SparkILoop.process(SparkILoop.scala:1059)
        at org.apache.spark.repl.Main$.main(Main.scala:31)
        at org.apache.spark.repl.Main.main(Main.scala)
        at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
        at
sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57)
        at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
        at java.lang.reflect.Method.invoke(Method.java:606)
        at
org.apache.spark.deploy.SparkSubmit$.org$apache$spark$deploy$SparkSubmit$$runMain(SparkSubmit.scala:731)
        at
org.apache.spark.deploy.SparkSubmit$.doRunMain$1(SparkSubmit.scala:181)
        at
org.apache.spark.deploy.SparkSubmit$.submit(SparkSubmit.scala:206)
        at org.apache.spark.deploy.SparkSubmit$.main(SparkSubmit.scala:121)
        at org.apache.spark.deploy.SparkSubmit.main(SparkSubmit.scala)







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