Hi Gary, I am really confused here - what does your custom serializer do? Do you have some data structure that is having a giant nested structure?
-- Reynold Xin, AMPLab, UC Berkeley http://rxin.org On Tue, Sep 17, 2013 at 1:40 PM, Gary Malouf <[email protected]> wrote: > We ultimately solved this by putting a huge stack size of 100m on the > slave nodes' spark-env.sh. Two things deceiving about this: > > 1) That a gigantic stack is needed for deserialization > > 2) The docs seem to imply that the slave settings are determined at > runtime from the scheduler - this is not the case globally. > > > On Tue, Sep 17, 2013 at 12:38 PM, Gary Malouf <[email protected]>wrote: > >> If more context is needed, I am happy to provide it. This is a very >> troubling issue for us as it seriously limits how much data we can look at >> a time in Spark. For now, I am able to revert to Hive to get the job done.. >> >> >> On Fri, Sep 13, 2013 at 3:19 PM, Gary Malouf <[email protected]>wrote: >> >>> I previously was having issues with StackOverflows when working with one >>> or two days worth of data. Steps I have taken since then: >>> >>> 1) Increase stack size (Xss) from default to 2m to as high as 200m >>> 2) Active Kryo serialization >>> 3) Implement custom serializers for my protobuf messages >>> >>> While these changes have allowed me to grab up to 10 days worth of data, >>> I can not really go beyond that without the dreaded StackOverflowError: >>> >>> java.lang.StackOverflowError >>> at >>> java.io.ObjectInputStream$PeekInputStream.peek(ObjectInputStream.java:2291) >>> at >>> java.io.ObjectInputStream$BlockDataInputStream.peek(ObjectInputStream.java:2584) >>> at >>> java.io.ObjectInputStream$BlockDataInputStream.peekByte(ObjectInputStream.java:2594) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1316) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1348) >>> at java.io.ObjectInputStream.readArray(ObjectInputStream.java:1704) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1342) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1348) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1348) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1348) >>> at java.io.ObjectInputStream.readArray(ObjectInputStream.java:1704) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1342) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1348) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1348) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1348) >>> at java.io.ObjectInputStream.readArray(ObjectInputStream.java:1704) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1342) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1348) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1348) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1348) >>> at java.io.ObjectInputStream.readArray(ObjectInputStream.java:1704) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1342) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1348) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1348) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1348) >>> at java.io.ObjectInputStream.readArray(ObjectInputStream.java:1704) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1342) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1348) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1348) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1348) >>> at java.io.ObjectInputStream.readArray(ObjectInputStream.java:1704) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1342) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> at java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1348) >>> at >>> java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1989) >>> at >>> java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1913) >>> at >>> java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1796) >>> >>> >>> Seems like it gets stuck in an infinite loop of deserialization. Has >>> anyone found ways to work through this? >>> >> >> >
