[petsc-users] solve problem with pastix

[Matthew Knepley]

I have no idea. That is a good question for the PasTix list.

  Thanks,

    Matt

On Tue, Nov 5, 2019 at 5:32 PM hg <hgbk2008 at gmail.com> wrote:

> Should thread affinity be invoked? I set  -mat_pastix_threadnbr 1 and also
> OMP_NUM_THREADS to 1
>
> Giang
>
>
> On Tue, Nov 5, 2019 at 10:50 PM Matthew Knepley <knepley at gmail.com> wrote:
>
>> On Tue, Nov 5, 2019 at 4:11 PM hg via petsc-users <
>> petsc-users at mcs.anl.gov> wrote:
>>
>>> Hello
>>>
>>> I got crashed when using Pastix as solver for KSP. The error message
>>> looks like:
>>>
>>> ....
>>> NUMBER of BUBBLE 1
>>> COEFMAX 1735566 CPFTMAX 0 BPFTMAX 0 NBFTMAX 0 ARFTMAX 0
>>> ** End of Partition & Distribution phase **
>>>    Time to analyze                              0.225 s
>>>    Number of nonzeros in factorized matrix      708784076
>>>    Fill-in                                      12.2337
>>>    Number of operations (LU)                    2.80185e+12
>>>    Prediction Time to factorize (AMD 6180  MKL) 394 s
>>> 0 : SolverMatrix size (without coefficients)    32.4 MB
>>> 0 : Number of nonzeros (local block structure)  365309391
>>>  Numerical Factorization (LU) :
>>> 0 : Internal CSC size                           1.08 GB
>>>    Time to fill internal csc                    6.66 s
>>>    --- Sopalin : Allocation de la structure globale ---
>>>    --- Fin Sopalin Init                             ---
>>>    --- Initialisation des tableaux globaux          ---
>>> sched_setaffinity: Invalid argument
>>> [node083:165071] *** Process received signal ***
>>> [node083:165071] Signal: Aborted (6)
>>> [node083:165071] Signal code:  (-6)
>>> [node083:165071] [ 0] /lib64/libpthread.so.0(+0xf680)[0x2b8081845680]
>>> [node083:165071] [ 1] /lib64/libc.so.6(gsignal+0x37)[0x2b8082191207]
>>> [node083:165071] [ 2] /lib64/libc.so.6(abort+0x148)[0x2b80821928f8]
>>> [node083:165071] [ 3]
>>> /sdhome/bui/opt/petsc-3.11.0_ompi-3.0.0/lib/libpetsc.so.3.11(sopalin_launch_comm+0x0)[0x2b80a4124c9d]
>>> [node083:165071] [ 4] Launching 1 threads (1 commputation, 0
>>> communication, 0 out-of-core)
>>>    --- Sopalin : Local structure allocation         ---
>>>
>>> /sdhome/bui/opt/petsc-3.11.0_ompi-3.0.0/lib/libpetsc.so.3.11(D_sopalin_init_smp+0x29b)[0x2b80a40c39d2]
>>> [node083:165071] [ 5]
>>> /sdhome/bui/opt/petsc-3.11.0_ompi-3.0.0/lib/libpetsc.so.3.11(D_ge_sopalin_smp+0x68)[0x2b80a40cf4c2]
>>> [node083:165071] [ 6]
>>> /sdhome/bui/opt/petsc-3.11.0_ompi-3.0.0/lib/libpetsc.so.3.11(sopalin_launch_thread+0x4ba)[0x2b80a4124a31]
>>> [node083:165071] [ 7]
>>> /sdhome/bui/opt/petsc-3.11.0_ompi-3.0.0/lib/libpetsc.so.3.11(D_ge_sopalin_thread+0x94)[0x2b80a40d6170]
>>> [node083:165071] [ 8]
>>> /sdhome/bui/opt/petsc-3.11.0_ompi-3.0.0/lib/libpetsc.so.3.11(D_pastix_task_sopalin+0x5ad)[0x2b80a40b09a2]
>>> [node083:165071] [ 9]
>>> /sdhome/bui/opt/petsc-3.11.0_ompi-3.0.0/lib/libpetsc.so.3.11(d_pastix+0xa8a)[0x2b80a40b2325]
>>> [node083:165071] [10]
>>> /sdhome/bui/opt/petsc-3.11.0_ompi-3.0.0/lib/libpetsc.so.3.11(+0x63927b)[0x2b80a35bf27b]
>>> [node083:165071] [11]
>>> /sdhome/bui/opt/petsc-3.11.0_ompi-3.0.0/lib/libpetsc.so.3.11(MatLUFactorNumeric+0x19a)[0x2b80a32c7552]
>>> [node083:165071] [12]
>>> /sdhome/bui/opt/petsc-3.11.0_ompi-3.0.0/lib/libpetsc.so.3.11(+0xa46c09)[0x2b80a39ccc09]
>>> [node083:165071] [13]
>>> /sdhome/bui/opt/petsc-3.11.0_ompi-3.0.0/lib/libpetsc.so.3.11(PCSetUp+0x311)[0x2b80a3a8f1a9]
>>> [node083:165071] [14]
>>> /sdhome/bui/opt/petsc-3.11.0_ompi-3.0.0/lib/libpetsc.so.3.11(KSPSetUp+0xbf7)[0x2b80a3b46e81]
>>> [node083:165071] [15]
>>> /sdhome/bui/opt/petsc-3.11.0_ompi-3.0.0/lib/libpetsc.so.3.11(KSPSolve+0x210)[0x2b80a3b4746e]
>>>
>>> Does anyone have an idea what is the problem and how to fix it? The
>>> PETSc parameters I used are as below:
>>>
>>
>> It looks like PasTix is having trouble setting the thread affinity:
>>
>> sched_setaffinity: Invalid argument
>>
>> so it may be your build of PasTix.
>>
>>   Thanks,
>>
>>      Matt
>>
>>
>>> -pc_type lu
>>> -pc_factor_mat_solver_package pastix
>>> -mat_pastix_verbose 2
>>> -mat_pastix_threadnbr 1
>>>
>>> Giang
>>>
>>>
>>
>> --
>> What most experimenters take for granted before they begin their
>> experiments is infinitely more interesting than any results to which their
>> experiments lead.
>> -- Norbert Wiener
>>
>> https://www.cse.buffalo.edu/~knepley/
>> <http://www.cse.buffalo.edu/~knepley/>
>>
>

-- 
What most experimenters take for granted before they begin their
experiments is infinitely more interesting than any results to which their
experiments lead.
-- Norbert Wiener

https://www.cse.buffalo.edu/~knepley/ <http://www.cse.buffalo.edu/~knepley/>
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