[petsc-users] PETSC ERROR: Caught signal number 15 Terminate

Thu Aug 4 21:56:32 CDT 2011

On Aug 4, 2011, at 8:54 PM, Debao Shao wrote:

> I get this error after a long process.
> For example, I have 4 jobs to do, the program may crash after done 1 job or 2, 3, 4 jobs. Also, sometimes, the program can run finished successfully.

   The program is not crashing. The batch system is kicking out the job, probably because it thinks it has run out of time. You'll need to set a longer time for the batch system.

   Barry

> 
> Thanks,
> Debao
> 
> -----Original Message-----
> From: petsc-users-bounces at mcs.anl.gov [mailto:petsc-users-bounces at mcs.anl.gov] On Behalf Of Barry Smith
> Sent: Friday, August 05, 2011 10:43 AM
> To: PETSc users list
> Subject: Re: [petsc-users] PETSC ERROR: Caught signal number 15 Terminate
> 
> 
> On Aug 4, 2011, at 8:38 PM, Debao Shao wrote:
> 
>> Doesn't SEGV fault is signal 11?
> 
>  Yes., 15 is a software terminate single sent from some other process hence the error message:
>> Caught signal number 15 Terminate: Somet process (or the batch system) has told this process to end
> 
>  I've seen some batch systems send this single when they think you have run out of time.  There may be other reasons as well. Do you get this right away or after a long time?
> 
>   Barry
> 
> 
>> 
>> From: petsc-users-bounces at mcs.anl.gov [mailto:petsc-users-bounces at mcs.anl.gov] On Behalf Of Matthew Knepley
>> Sent: Friday, August 05, 2011 10:35 AM
>> To: PETSc users list
>> Subject: Re: [petsc-users] PETSC ERROR: Caught signal number 15 Terminate
>> 
>> On Fri, Aug 5, 2011 at 2:33 AM, Debao Shao <Debao.Shao at brion.com> wrote:
>> So the real problem is the wrong usage of "PetscInitialize(0, 0, 0, 0 )", but I do have many successive runs before with this setting.
>> 
>> Any kind of memory overwrite gives an SEGV. So other code, making a different error will give that too.
>> 
>>   Matt
>> 
>> 
>> Thanks,
>> Debao
>> From: petsc-users-bounces at mcs.anl.gov [mailto:petsc-users-bounces at mcs.anl.gov] On Behalf Of Matthew Knepley
>> Sent: Friday, August 05, 2011 10:25 AM
>> To: PETSc users list
>> Subject: Re: [petsc-users] PETSC ERROR: Caught signal number 15 Terminate
>> 
>> On Fri, Aug 5, 2011 at 2:20 AM, Debao Shao <Debao.Shao at brion.com> wrote:
>> DA:
>> 
>> Sometimes I may encounter crashing when using PETSc, it doesn't happen always.
>> 
>> [0]PETSC ERROR: ------------------------------------------------------------------------
>> [0]PETSC ERROR: Caught signal number 15 Terminate: Somet process (or the batch system) has told this process to end
>> [0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
>> [0]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/petsc-as/documentation/troubleshooting.html#Signal[0]PETSC ERROR: or try http://valgrind.org on GNU/linux
>> and Apple Mac OS X to find memory corruption errors
>> [0]PETSC ERROR: configure using --with-debugging=yes, recompile, link, and run
>> [0]PETSC ERROR: to get more information on the crash.
>> [0]PETSC ERROR: --------------------- Error Message ------------------------------------
>> [0]PETSC ERROR: Signal received!
>> [0]PETSC ERROR: ------------------------------------------------------------------------
>> [0]PETSC ERROR: Petsc Release Version 3.1.0, Patch 8, Thu Mar 17 13:37:48 CDT 2011
>> [0]PETSC ERROR: See docs/changes/index.html for recent updates.
>> [0]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
>> [0]PETSC ERROR: See docs/index.html for manual pages.
>> [0]PETSC ERROR: ------------------------------------------------------------------------
>> [0]PETSC ERROR: Unknown Name on a linux-gnu named r0leaf17 by tachyon Thu Aug  4 04:04:19 2011
>> [0]PETSC ERROR: Libraries linked from /home/dshao/dev_t2k/third_party/OOQP/OOQP-0.99.19/extras/petsc-3.1-p8/linux-gnu-c-debug/lib
>> [0]PETSC ERROR: Configure run at Thu Apr 21 18:09:19 2011
>> [0]PETSC ERROR: Configure options --with-mpi=0 --with-debugging=0 -with-log=0 -with-info=0
>> [0]PETSC ERROR: ------------------------------------------------------------------------
>> [0]PETSC ERROR: User provided function() line 0 in unknown directory unknown file
>> 
>> Do you happen to know the possible cause?
>> 
>> I also have a question about the usage of "PetscInitialize" & "PetscFinalize". I can't totally understand them from the manual.
>> 
>> Now, I wrote it as:
>> Int main(int argc, char **argv)
>> {
>>         PetscInitialize(0, 0, 0, 0 );
>> 
>> This is not a valid call. Try
>> 
>>  PetscInitialize(&argc, &argv, 0, 0);
>> 
>> Signal 15 is a segmentation fault, which means an illegal memory read or write.
>> 
>>   Matt
>> 
>> 
>>         VerifyApp app(argc, argv);
>>         app.Initialize();
>>         app.Run();
>> 
>>         PetscFinalize();
>>         return 0;
>> }
>> 
>> Then, built a binary, say "verify", and executed "verify" on a server first, then, started another "verify" on client by server.
>> The program ran at client side can be multiple processes and multiple threads.
>> 
>> Is my usage correct?
>> Your answer is appreciated.
>> 
>> Thanks,
>> Debao
>> 
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>> 
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