[petsc-users] solve problem with pastix

[hg]

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/>
>
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