Johannes Ring wrote:
> On Thu, August 14, 2008 08:52, Garth N. Wells wrote:
>>
>> Anders Logg wrote:
>>> On Wed, Aug 13, 2008 at 08:03:39PM +0100, Garth N. Wells wrote:
>>>> I'm experiencing a puzzling problem wth pyDOLFIN and MPI again.
>>>>
>>>> When I do
>>>>
>>>> python file.py
>>>>
>>>> where file.py is just
>>>>
>>>> from dolfin import *
>>>>
>>>> object = Function("/tmp/fileKFnQpl.xml")
>>>> plot(object)
>>>> interactive()
>>>>
>>>> I see a plot as expected, and get
>>>>
>>>> Plot active, press 'q' to continue.
>>>>
>>>> After pressing 'q', I get
>>>>
>>>> *** An error occurred in MPI_Attr_get
>>>> *** after MPI was finalized
>>>> *** MPI_ERRORS_ARE_FATAL (goodbye)
>>>> [gnw20pc:2277] Abort before MPI_INIT completed successfully; not
>>>> able to guarantee that all other processes were killed!
>>>> *** An error occurred in MPI_Comm_rank
>>>> *** after MPI was finalized
>>>> *** MPI_ERRORS_ARE_FATAL (goodbye)
>>>> *** An error occurred in MPI_Type_free
>>>> *** after MPI was finalized
>>>> *** MPI_ERRORS_ARE_FATAL (goodbye)
>>>> Segmentation fault
>>>>
>>>> Somehow, Python appears to be calling MPI_Finalize before DOLFIN gets a
>>>> chance to finalise things correctly. Any ideas/experience on how Python
>>>> interacts with MPI? I've commented out MPI_Finalize() in DOLFIN to be
>>>> sure that DOLFIN is not calling it.
>>>>
>>>> Garth
>>> Would it help if we just call MPI_Finalized to check before
>>> finalizing? We can add a wrapper for it just like for MPI_Initialized.
>>>
>> I've added some annoying debug output to SubSystemsManager. Can you tell
>> me what you see when running
>>
>> from dolfin import *
>> x = PETScVector(10)
>>
>> When I run it, the first line of output is
>>
>> MPI status in initPETSc() 1
>>
>> which indicates that MPI_Initialize is saying that MPI has been
>> initialised before PETSc is initialised, but we haven't initialise it.
>> The same code in C++ gives
>>
>> MPI status in initPETSc() 0
>>
>> which is the expected result.
>
> I get
>
>>>> from dolfin import *
>>>> x = PETScVector(10)
> MPI status in initPETSc() 0
> [simula-x61:17855] mca: base: component_find: unable to open osc pt2pt:
> file not found (ignored)
> MPI status in initMPI() 1
>
> Have you compiled Trilinos with MPI support? It seems to be the same
> problems I had with my Ubuntu packages for Trilinos on 64bit. Turning off
> MPI support for Trilinos fixed the problem for me.
>
Yes, Trilinos with MPI support was the culprit, even though I disabled
Trilinos (enableTrilinos=no). Trilinos must be placing some files in
/usr/local/lib/ which cause a problem which is nasty. Just removing
Trilinos did the trick. Thanks!
Garth
> Johannes
>
_______________________________________________
DOLFIN-dev mailing list
[email protected]
http://www.fenics.org/mailman/listinfo/dolfin-dev
