Spark GPUenabler ClassNotFoundException: CacheGPU - scala

Question

I am using the package IBMSparkGPU/GPUenabler package. I use sbt assembly to package all the dependency into one single jar file and submit it to the spark standalone cluster manager. However, the following error message appear:
org.apache.spark.SparkException: Error sending message [message = CacheGPUDS(a99176e95cf37ba4e5e46b9b172369ac_-1728716590,false)]
at org.apache.spark.rpc.RpcEndpointRef.askWithRetry(RpcEndpointRef.scala:119)
at org.apache.spark.rpc.RpcEndpointRef.askWithRetry(RpcEndpointRef.scala:78)
at com.ibm.gpuenabler.GPUMemoryManagerMasterEndPoint.com$ibm$gpuenabler$GPUMemoryManagerMasterEndPoint$$tell(GPUMemoryManager.scala:172)
at com.ibm.gpuenabler.GPUMemoryManagerMasterEndPoint$$anonfun$registerGPUMemoryManager$2.apply(GPUMemoryManager.scala:64)
at com.ibm.gpuenabler.GPUMemoryManagerMasterEndPoint$$anonfun$registerGPUMemoryManager$2.apply(GPUMemoryManager.scala:64)
at scala.collection.immutable.List.foreach(List.scala:381)
at scala.collection.generic.TraversableForwarder$class.foreach(TraversableForwarder.scala:35)
at scala.collection.mutable.ListBuffer.foreach(ListBuffer.scala:45)
at com.ibm.gpuenabler.GPUMemoryManagerMasterEndPoint.registerGPUMemoryManager(GPUMemoryManager.scala:64)
at com.ibm.gpuenabler.GPUMemoryManagerMasterEndPoint$$anonfun$receiveAndReply$1.applyOrElse(GPUMemoryManager.scala:143)
at org.apache.spark.rpc.netty.Inbox$$anonfun$process$1.apply$mcV$sp(Inbox.scala:105)
at org.apache.spark.rpc.netty.Inbox.safelyCall(Inbox.scala:205)
at org.apache.spark.rpc.netty.Inbox.process(Inbox.scala:101)
at org.apache.spark.rpc.netty.Dispatcher$MessageLoop.run(Dispatcher.scala:213)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
at java.lang.Thread.run(Thread.java:748)
Caused by: org.apache.spark.SparkException: Exception thrown in awaitResult
at org.apache.spark.rpc.RpcTimeout$$anonfun$1.applyOrElse(RpcTimeout.scala:77)
at org.apache.spark.rpc.RpcTimeout$$anonfun$1.applyOrElse(RpcTimeout.scala:75)
at scala.runtime.AbstractPartialFunction.apply(AbstractPartialFunction.scala:36)
at org.apache.spark.rpc.RpcTimeout$$anonfun$addMessageIfTimeout$1.applyOrElse(RpcTimeout.scala:59)
at org.apache.spark.rpc.RpcTimeout$$anonfun$addMessageIfTimeout$1.applyOrElse(RpcTimeout.scala:59)
at scala.PartialFunction$OrElse.apply(PartialFunction.scala:167)
at org.apache.spark.rpc.RpcTimeout.awaitResult(RpcTimeout.scala:83)
at org.apache.spark.rpc.RpcEndpointRef.askWithRetry(RpcEndpointRef.scala:102)
... 16 more
Caused by: java.lang.RuntimeException: java.lang.ClassNotFoundException: com.ibm.gpuenabler.CacheGPUDS
at java.net.URLClassLoader.findClass(URLClassLoader.java:381)
at java.lang.ClassLoader.loadClass(ClassLoader.java:424)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:349)
at java.lang.ClassLoader.loadClass(ClassLoader.java:357)
at java.lang.Class.forName0(Native Method)
at java.lang.Class.forName(Class.java:348)
at org.apache.spark.serializer.JavaDeserializationStream$$anon$1.resolveClass(JavaSerializer.scala:67)
at java.io.ObjectInputStream.readNonProxyDesc(ObjectInputStream.java:1866)
at java.io.ObjectInputStream.readClassDesc(ObjectInputStream.java:1749)
at java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:2040)
at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1571)
at java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:2285)
at java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:2209)
at java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:2067)
at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1571)
at java.io.ObjectInputStream.readObject(ObjectInputStream.java:431)
at org.apache.spark.serializer.JavaDeserializationStream.readObject(JavaSerializer.scala:75)
at org.apache.spark.serializer.JavaSerializerInstance.deserialize(JavaSerializer.scala:108)
at org.apache.spark.rpc.netty.NettyRpcEnv$$anonfun$deserialize$1$$anonfun$apply$1.apply(NettyRpcEnv.scala:259)
at scala.util.DynamicVariable.withValue(DynamicVariable.scala:58)
at org.apache.spark.rpc.netty.NettyRpcEnv.deserialize(NettyRpcEnv.scala:308)
at org.apache.spark.rpc.netty.NettyRpcEnv$$anonfun$deserialize$1.apply(NettyRpcEnv.scala:258)
at scala.util.DynamicVariable.withValue(DynamicVariable.scala:58)
at org.apache.spark.rpc.netty.NettyRpcEnv.deserialize(NettyRpcEnv.scala:257)
at org.apache.spark.rpc.netty.NettyRpcHandler.internalReceive(NettyRpcEnv.scala:577)
at org.apache.spark.rpc.netty.NettyRpcHandler.receive(NettyRpcEnv.scala:562)
at org.apache.spark.network.server.TransportRequestHandler.processRpcRequest(TransportRequestHandler.java:159)
at org.apache.spark.network.server.TransportRequestHandler.handle(TransportRequestHandler.java:107)
at org.apache.spark.network.server.TransportChannelHandler.channelRead0(TransportChannelHandler.java:119)
at org.apache.spark.network.server.TransportChannelHandler.channelRead0(TransportChannelHandler.java:51)
at io.netty.channel.SimpleChannelInboundHandler.channelRead(SimpleChannelInboundHandler.java:105)
... more
There won't be this error message and the program can run if I submit to local[*] as master. I can also eliminate the error when disable the spark.gpuenabler.autocache. However, is there other way to properly fix the issue?
I am using Ubuntu 17.04, JRE 1.8.0, Scala 2.11 and Spark 2.1.0.

Answer 1

It turned out that adding the option
--conf "spark.executor.extraClassPath=file://path/to/jar" will solve the problem. Another thing is that I need to paste the jar file to all the machine with same path. Other wise the worker will not be able to get the jar file.