Yeah... none of the jars listed on the classpath contain this class. The only jar that does is the fat jar that I'm submitting with spark-submit, which as mentioned isn't showing up on the classpath anywhere.
-- Nick On Tue, Sep 8, 2015 at 8:26 AM Igor Berman <igor.ber...@gmail.com> wrote: > hmm...out of ideas. > can you check in spark ui environment tab that this jar is not somehow > appears 2 times or more...? or more generally - any 2 jars that can contain > this class by any chance > > regarding your question about classloader - no idea, probably there is, I > remember stackoverflow has some examples on how to print all classes, but > how to print all classes of kryo classloader - no idea. > > On 8 September 2015 at 16:43, Nick Peterson <nrpeter...@gmail.com> wrote: > >> Yes, the jar contains the class: >> >> $ jar -tf lumiata-evaluation-assembly-1.0.jar | grep >> 2028/Document/Document >> com/i2028/Document/Document$1.class >> com/i2028/Document/Document.class >> >> What else can I do? Is there any way to get more information about the >> classes available to the particular classloader kryo is using? >> >> On Tue, Sep 8, 2015 at 6:34 AM Igor Berman <igor.ber...@gmail.com> wrote: >> >>> java.lang.ClassNotFoundException: com.i2028.Document.Document >>> >>> 1. so have you checked that jar that you create(fat jar) contains this >>> class? >>> >>> 2. might be there is some stale cache issue...not sure though >>> >>> >>> On 8 September 2015 at 16:12, Nicholas R. Peterson <nrpeter...@gmail.com >>> > wrote: >>> >>>> Here is the stack trace: (Sorry for the duplicate, Igor -- I forgot to >>>> include the list.) >>>> >>>> >>>> 15/09/08 05:56:43 WARN scheduler.TaskSetManager: Lost task 183.0 in stage >>>> 41.0 (TID 193386, ds-compute2.lumiata.com): java.io.IOException: >>>> com.esotericsoftware.kryo.KryoException: Error constructing instance of >>>> class: com.lumiata.patientanalysis.utils.CachedGraph >>>> at org.apache.spark.util.Utils$.tryOrIOException(Utils.scala:1257) >>>> at >>>> org.apache.spark.broadcast.TorrentBroadcast.readBroadcastBlock(TorrentBroadcast.scala:165) >>>> at >>>> org.apache.spark.broadcast.TorrentBroadcast._value$lzycompute(TorrentBroadcast.scala:64) >>>> at >>>> org.apache.spark.broadcast.TorrentBroadcast._value(TorrentBroadcast.scala:64) >>>> at >>>> org.apache.spark.broadcast.TorrentBroadcast.getValue(TorrentBroadcast.scala:88) >>>> at org.apache.spark.broadcast.Broadcast.value(Broadcast.scala:70) >>>> at >>>> com.lumiata.evaluation.analysis.prod.ProductionAnalyzer$$anonfun$apply$1.apply(ProductionAnalyzer.scala:44) >>>> at >>>> com.lumiata.evaluation.analysis.prod.ProductionAnalyzer$$anonfun$apply$1.apply(ProductionAnalyzer.scala:43) >>>> at >>>> org.apache.spark.rdd.RDD$$anonfun$mapPartitions$1$$anonfun$apply$17.apply(RDD.scala:686) >>>> at >>>> org.apache.spark.rdd.RDD$$anonfun$mapPartitions$1$$anonfun$apply$17.apply(RDD.scala:686) >>>> at >>>> org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:35) >>>> at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:277) >>>> at org.apache.spark.rdd.RDD.iterator(RDD.scala:244) >>>> at >>>> org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:35) >>>> at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:277) >>>> at org.apache.spark.rdd.RDD.iterator(RDD.scala:244) >>>> at >>>> org.apache.spark.rdd.MapPartitionsRDD.compute(MapPartitionsRDD.scala:35) >>>> at org.apache.spark.rdd.RDD.computeOrReadCheckpoint(RDD.scala:277) >>>> at org.apache.spark.rdd.RDD.iterator(RDD.scala:244) >>>> at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:63) >>>> at org.apache.spark.scheduler.Task.run(Task.scala:70) >>>> at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:213) >>>> at >>>> java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142) >>>> at >>>> java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617) >>>> at java.lang.Thread.run(Thread.java:745) >>>> Caused by: com.esotericsoftware.kryo.KryoException: Error constructing >>>> instance of class: com.lumiata.patientanalysis.utils.CachedGraph >>>> at >>>> com.twitter.chill.Instantiators$$anon$1.newInstance(KryoBase.scala:126) >>>> at com.esotericsoftware.kryo.Kryo.newInstance(Kryo.java:1065) >>>> at >>>> com.esotericsoftware.kryo.serializers.FieldSerializer.create(FieldSerializer.java:228) >>>> at >>>> com.esotericsoftware.kryo.serializers.FieldSerializer.read(FieldSerializer.java:217) >>>> at com.esotericsoftware.kryo.Kryo.readClassAndObject(Kryo.java:729) >>>> at >>>> org.apache.spark.serializer.KryoDeserializationStream.readObject(KryoSerializer.scala:182) >>>> at >>>> org.apache.spark.broadcast.TorrentBroadcast$.unBlockifyObject(TorrentBroadcast.scala:217) >>>> at >>>> org.apache.spark.broadcast.TorrentBroadcast$$anonfun$readBroadcastBlock$1.apply(TorrentBroadcast.scala:178) >>>> at org.apache.spark.util.Utils$.tryOrIOException(Utils.scala:1254) >>>> ... 24 more >>>> Caused by: java.lang.reflect.InvocationTargetException >>>> at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method) >>>> at >>>> sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:62) >>>> at >>>> sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45) >>>> at java.lang.reflect.Constructor.newInstance(Constructor.java:422) >>>> at >>>> com.twitter.chill.Instantiators$$anonfun$normalJava$1.apply(KryoBase.scala:160) >>>> at >>>> com.twitter.chill.Instantiators$$anon$1.newInstance(KryoBase.scala:123) >>>> ... 32 more >>>> Caused by: com.esotericsoftware.kryo.KryoException: Unable to find class: >>>> com.i2028.Document.Document >>>> at >>>> com.esotericsoftware.kryo.util.DefaultClassResolver.readName(DefaultClassResolver.java:138) >>>> at >>>> com.esotericsoftware.kryo.util.DefaultClassResolver.readClass(DefaultClassResolver.java:115) >>>> at com.esotericsoftware.kryo.Kryo.readClass(Kryo.java:610) >>>> at com.esotericsoftware.kryo.Kryo.readClassAndObject(Kryo.java:721) >>>> at >>>> com.esotericsoftware.kryo.serializers.MapSerializer.read(MapSerializer.java:134) >>>> at >>>> com.esotericsoftware.kryo.serializers.MapSerializer.read(MapSerializer.java:17) >>>> at com.esotericsoftware.kryo.Kryo.readObject(Kryo.java:626) >>>> at >>>> com.lumiata.patientanalysis.utils.CachedGraph.loadCacheFromSerializedData(CachedGraph.java:221) >>>> at >>>> com.lumiata.patientanalysis.utils.CachedGraph.<init>(CachedGraph.java:182) >>>> at >>>> com.lumiata.patientanalysis.utils.CachedGraph.<init>(CachedGraph.java:178) >>>> ... 38 more >>>> Caused by: java.lang.ClassNotFoundException: com.i2028.Document.Document >>>> at java.net.URLClassLoader.findClass(URLClassLoader.java:381) >>>> at java.lang.ClassLoader.loadClass(ClassLoader.java:424) >>>> at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:331) >>>> at java.lang.ClassLoader.loadClass(ClassLoader.java:357) >>>> at java.lang.Class.forName0(Native Method) >>>> at java.lang.Class.forName(Class.java:348) >>>> at >>>> com.esotericsoftware.kryo.util.DefaultClassResolver.readName(DefaultClassResolver.java:136) >>>> ... 47 more >>>> >>>> >>>> >>>>> On Tue, Sep 8, 2015 at 6:01 AM Igor Berman <igor.ber...@gmail.com> >>>>> wrote: >>>>> >>>>>> I wouldn't build on this. local mode & yarn are different so that >>>>>> jars you use in spark submit are handled differently >>>>>> >>>>>> On 8 September 2015 at 15:43, Nicholas R. Peterson < >>>>>> nrpeter...@gmail.com> wrote: >>>>>> >>>>>>> Thans, Igor; I've got it running again right now, and can attach the >>>>>>> stack trace when it finishes. >>>>>>> >>>>>>> In the mean time, I've noticed something interesting: in the Spark >>>>>>> UI, the application jar that I submit is not being included on the >>>>>>> classpath. It has been successfully uploaded to the nodes -- in the >>>>>>> nodemanager directory for the application, I see __app__.jar and >>>>>>> __spark__.jar. The directory itself is on the classpath, and >>>>>>> __spark__.jar >>>>>>> and __hadoop_conf__ are as well. When I do everything the same but >>>>>>> switch the master to local[*], the jar I submit IS added to the >>>>>>> classpath. >>>>>>> >>>>>>> This seems like a likely culprit. What could cause this, and how >>>>>>> can I fix it? >>>>>>> >>>>>>> Best, >>>>>>> Nick >>>>>>> >>>>>>> On Tue, Sep 8, 2015 at 1:14 AM Igor Berman <igor.ber...@gmail.com> >>>>>>> wrote: >>>>>>> >>>>>>>> as a starting point, attach your stacktrace... >>>>>>>> ps: look for duplicates in your classpath, maybe you include >>>>>>>> another jar with same class >>>>>>>> >>>>>>>> On 8 September 2015 at 06:38, Nicholas R. Peterson < >>>>>>>> nrpeter...@gmail.com> wrote: >>>>>>>> >>>>>>>>> I'm trying to run a Spark 1.4.1 job on my CDH5.4 cluster, through >>>>>>>>> Yarn. Serialization is set to use Kryo. >>>>>>>>> >>>>>>>>> I have a large object which I send to the executors as a >>>>>>>>> Broadcast. The object seems to serialize just fine. When it attempts >>>>>>>>> to >>>>>>>>> deserialize, though, Kryo throws a ClassNotFoundException... for a >>>>>>>>> class >>>>>>>>> that I include in the fat jar that I spark-submit. >>>>>>>>> >>>>>>>>> What could be causing this classpath issue with Kryo on the >>>>>>>>> executors? Where should I even start looking to try to diagnose the >>>>>>>>> problem? I appreciate any help you can provide. >>>>>>>>> >>>>>>>>> Thank you! >>>>>>>>> >>>>>>>>> -- Nick >>>>>>>>> >>>>>>>> >>>>>>>> >>>>>> >>> >
