[Swift-devel] java heap space exceeded ssh-SGE

[Ketan Maheshwari]

Hi Mihael,

As discussed in the Swift call last Wednesday, here is the log for the java
heap space exceeded run:

http://ci.uchicago.edu/~ketan/postproc-20120116-1139-evtqkpj9.log.tar.gz

Here is the stderr message:

Execution failed:
GC overhead limit exceeded
Progress:  time: Mon, 16 Jan 2012 12:38:41 -0600  Initializing:18
 Selecting site:1421  Submitting:62  Active:167  Stage out:9  Finished
successfully:3702 Failed but can retry:216
Progress:  time: Mon, 16 Jan 2012 12:38:53 -0600  Initializing:18
 Selecting site:1421  Submitting:62  Active:166  Stage out:10  Finished
successfully:3702 Failed but can retry:216
Uncaught exception: java.lang.OutOfMemoryError: GC overhead limit exceeded
in vdl:new @ postproc.kml, line: 2009
java.lang.OutOfMemoryError: GC overhead limit exceeded
at java.util.Arrays.copyOfRange(Arrays.java:3209)
at java.lang.String.<init>(String.java:215)
 at java.lang.StringBuilder.toString(StringBuilder.java:430)
at
org.griphyn.vdl.mapping.AbstractDataNode.closeShallow(AbstractDataNode.java:413)
 at
org.griphyn.vdl.mapping.AbstractDataNode.setValue(AbstractDataNode.java:358)
at org.griphyn.vdl.mapping.RootDataNode.setValue(RootDataNode.java:229)
 at org.griphyn.vdl.karajan.lib.New.function(New.java:129)
at org.griphyn.vdl.karajan.lib.VDLFunction.post(VDLFunction.java:62)
 at
org.globus.cog.karajan.workflow.nodes.Sequential.startNext(Sequential.java:29)
at
org.globus.cog.karajan.workflow.nodes.Sequential.executeChildren(Sequential.java:20)
 at
org.globus.cog.karajan.workflow.nodes.FlowContainer.execute(FlowContainer.java:63)
at org.globus.cog.karajan.workflow.nodes.FlowNode.restart(FlowNode.java:139)
 at org.globus.cog.karajan.workflow.nodes.FlowNode.start(FlowNode.java:197)
at org.globus.cog.karajan.workflow.events.EventBus.start(EventBus.java:104)
 at
org.globus.cog.karajan.workflow.events.EventTargetPair.run(EventTargetPair.java:40)
at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:441)
 at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303)
at java.util.concurrent.FutureTask.run(FutureTask.java:138)
 at
java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886)
at
java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908)
 at java.lang.Thread.run(Thread.java:662)
Exception is: java.lang.OutOfMemoryError: GC overhead limit exceeded
Near Karajan line: vdl:new @ postproc.kml, line: 2009
Progress:  time: Mon, 16 Jan 2012 12:39:02 -0600  Initializing:19
 Selecting site:1423  Submitting:62  Active:159  Stage out:15  Finished
successfully:3704 Failed but can retry:216

In a next run, I will try to capture memory usage snapshot at time
intervals and see if that provides some more info. Meanwhile may be you get
some idea from the log.

Regards,
-- 
Ketan
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.mcs.anl.gov/pipermail/swift-devel/attachments/20120116/cd3ba82f/attachment.html>