[petsc-users] MPI_Iprobe Error with MUMPS Solver on Multi-Nodes

Tue May 23 06:51:10 CDT 2023

Thank you for your suggestion. I solved the problem with SuperLU_DIST, and
it works well.

Best wishes,
Zongze

On Tue, 23 May 2023 at 18:00, Matthew Knepley <knepley at gmail.com> wrote:

> On Mon, May 22, 2023 at 10:46 PM Zongze Yang <yangzongze at gmail.com> wrote:
>
>> I have an additional question to ask: Is it possible for the SuperLU_DIST
>> library to encounter the same MPI problem (PMPI_Iprobe failed) as MUMPS?
>>
>
> I do not know if they use that function. But it is easy to try it out, so
> I would.
>
>   Thanks,
>
>     Matt
>
>
>> Best wishes,
>> Zongze
>>
>>
>> On Tue, 23 May 2023 at 10:41, Zongze Yang <yangzongze at gmail.com> wrote:
>>
>>> On Tue, 23 May 2023 at 05:31, Stefano Zampini <stefano.zampini at gmail.com>
>>> wrote:
>>>
>>>> If I may add to the discussion, it may be that you are going OOM since
>>>> you are trying to factorize a 3 million dofs problem, this problem goes
>>>> undetected and then fails at a later stage
>>>>
>>>
>>> Thank you for your comment. I ran the problem with 90 processes
>>> distributed across three nodes, each equipped with 500G of memory. If this
>>> amount of memory is sufficient for solving the matrix with approximately 3
>>> million degrees of freedom?
>>>
>>> Thanks!
>>> Zongze
>>>
>>> Il giorno lun 22 mag 2023 alle ore 20:03 Zongze Yang <
>>>> yangzongze at gmail.com> ha scritto:
>>>>
>>>>> Thanks!
>>>>>
>>>>> Zongze
>>>>>
>>>>> Matthew Knepley <knepley at gmail.com>于2023年5月23日 周二00:09写道：
>>>>>
>>>>>> On Mon, May 22, 2023 at 11:07 AM Zongze Yang <yangzongze at gmail.com>
>>>>>> wrote:
>>>>>>
>>>>>>> Hi,
>>>>>>>
>>>>>>> I hope this letter finds you well. I am writing to seek guidance
>>>>>>> regarding an error I encountered while solving a matrix using MUMPS on
>>>>>>> multiple nodes:
>>>>>>>
>>>>>>
>>>>>> Iprobe is buggy on several MPI implementations. PETSc has an option
>>>>>> for shutting it off for this reason.
>>>>>> I do not know how to shut it off inside MUMPS however. I would mail
>>>>>> their mailing list to see.
>>>>>>
>>>>>>   Thanks,
>>>>>>
>>>>>>      Matt
>>>>>>
>>>>>>
>>>>>>> ```bash
>>>>>>> Abort(1681039) on node 60 (rank 60 in comm 240): Fatal error in
>>>>>>> PMPI_Iprobe: Other MPI error, error stack:
>>>>>>> PMPI_Iprobe(124)..............: MPI_Iprobe(src=MPI_ANY_SOURCE,
>>>>>>> tag=MPI_ANY_TAG, comm=0xc4000026, flag=0x7ffc130f9c4c,
>>>>>>> status=0x7ffc130f9e80) failed
>>>>>>> MPID_Iprobe(240)..............:
>>>>>>> MPIDI_iprobe_safe(108)........:
>>>>>>> MPIDI_iprobe_unsafe(35).......:
>>>>>>> MPIDI_OFI_do_iprobe(69).......:
>>>>>>> MPIDI_OFI_handle_cq_error(949): OFI poll failed
>>>>>>> (ofi_events.c:951:MPIDI_OFI_handle_cq_error:Input/output error)
>>>>>>> Assertion failed in file src/mpid/ch4/netmod/ofi/ofi_events.c at
>>>>>>> line 125: 0
>>>>>>> ```
>>>>>>>
>>>>>>> The matrix in question has a degree of freedom (dof) of 3.86e+06.
>>>>>>> Interestingly, when solving smaller-scale problems, everything functions
>>>>>>> perfectly without any issues. However, when attempting to solve the larger
>>>>>>> matrix on multiple nodes, I encounter the aforementioned error.
>>>>>>>
>>>>>>> The complete error message I received is as follows:
>>>>>>> ```bash
>>>>>>> Abort(1681039) on node 60 (rank 60 in comm 240): Fatal error in
>>>>>>> PMPI_Iprobe: Other MPI error, error stack:
>>>>>>> PMPI_Iprobe(124)..............: MPI_Iprobe(src=MPI_ANY_SOURCE,
>>>>>>> tag=MPI_ANY_TAG, comm=0xc4000026, flag=0x7ffc130f9c4c,
>>>>>>> status=0x7ffc130f9e80) failed
>>>>>>> MPID_Iprobe(240)..............:
>>>>>>> MPIDI_iprobe_safe(108)........:
>>>>>>> MPIDI_iprobe_unsafe(35).......:
>>>>>>> MPIDI_OFI_do_iprobe(69).......:
>>>>>>> MPIDI_OFI_handle_cq_error(949): OFI poll failed
>>>>>>> (ofi_events.c:951:MPIDI_OFI_handle_cq_error:Input/output error)
>>>>>>> Assertion failed in file src/mpid/ch4/netmod/ofi/ofi_events.c at
>>>>>>> line 125: 0
>>>>>>> /nfs/opt/cascadelake/linux-centos7-cascadelake/gcc-9.4.0/mpich-3.4.2-qgtz76gekvjzuacy7wq5a26rqlewoxfc/lib/libmpi.so.12(MPL_backtrace_show+0x26)
>>>>>>> [0x7f6076063f2c]
>>>>>>> /nfs/opt/cascadelake/linux-centos7-cascadelake/gcc-9.4.0/mpich-3.4.2-qgtz76gekvjzuacy7wq5a26rqlewoxfc/lib/libmpi.so.12(+0x41dc24)
>>>>>>> [0x7f6075fc5c24]
>>>>>>> /nfs/opt/cascadelake/linux-centos7-cascadelake/gcc-9.4.0/mpich-3.4.2-qgtz76gekvjzuacy7wq5a26rqlewoxfc/lib/libmpi.so.12(+0x49cc51)
>>>>>>> [0x7f6076044c51]
>>>>>>> /nfs/opt/cascadelake/linux-centos7-cascadelake/gcc-9.4.0/mpich-3.4.2-qgtz76gekvjzuacy7wq5a26rqlewoxfc/lib/libmpi.so.12(+0x49f799)
>>>>>>> [0x7f6076047799]
>>>>>>> /nfs/opt/cascadelake/linux-centos7-cascadelake/gcc-9.4.0/mpich-3.4.2-qgtz76gekvjzuacy7wq5a26rqlewoxfc/lib/libmpi.so.12(+0x451e18)
>>>>>>> [0x7f6075ff9e18]
>>>>>>> /nfs/opt/cascadelake/linux-centos7-cascadelake/gcc-9.4.0/mpich-3.4.2-qgtz76gekvjzuacy7wq5a26rqlewoxfc/lib/libmpi.so.12(+0x452272)
>>>>>>> [0x7f6075ffa272]
>>>>>>> /nfs/opt/cascadelake/linux-centos7-cascadelake/gcc-9.4.0/mpich-3.4.2-qgtz76gekvjzuacy7wq5a26rqlewoxfc/lib/libmpi.so.12(+0x2ce836)
>>>>>>> [0x7f6075e76836]
>>>>>>> /nfs/opt/cascadelake/linux-centos7-cascadelake/gcc-9.4.0/mpich-3.4.2-qgtz76gekvjzuacy7wq5a26rqlewoxfc/lib/libmpi.so.12(+0x2ce90d)
>>>>>>> [0x7f6075e7690d]
>>>>>>> /nfs/opt/cascadelake/linux-centos7-cascadelake/gcc-9.4.0/mpich-3.4.2-qgtz76gekvjzuacy7wq5a26rqlewoxfc/lib/libmpi.so.12(+0x48137b)
>>>>>>> [0x7f607602937b]
>>>>>>> /nfs/opt/cascadelake/linux-centos7-cascadelake/gcc-9.4.0/mpich-3.4.2-qgtz76gekvjzuacy7wq5a26rqlewoxfc/lib/libmpi.so.12(+0x44d471)
>>>>>>> [0x7f6075ff5471]
>>>>>>> /nfs/opt/cascadelake/linux-centos7-cascadelake/gcc-9.4.0/mpich-3.4.2-qgtz76gekvjzuacy7wq5a26rqlewoxfc/lib/libmpi.so.12(+0x407acd)
>>>>>>> [0x7f6075fafacd]
>>>>>>> /nfs/opt/cascadelake/linux-centos7-cascadelake/gcc-9.4.0/mpich-3.4.2-qgtz76gekvjzuacy7wq5a26rqlewoxfc/lib/libmpi.so.12(MPIR_Err_return_comm+0x10a)
>>>>>>> [0x7f6075fafbea]
>>>>>>> /nfs/opt/cascadelake/linux-centos7-cascadelake/gcc-9.4.0/mpich-3.4.2-qgtz76gekvjzuacy7wq5a26rqlewoxfc/lib/libmpi.so.12(MPI_Iprobe+0x312)
>>>>>>> [0x7f6075ddd542]
>>>>>>> /nfs/opt/cascadelake/linux-centos7-cascadelake/gcc-9.4.0/mpich-3.4.2-qgtz76gekvjzuacy7wq5a26rqlewoxfc/lib/libmpifort.so.12(pmpi_iprobe+0x2f)
>>>>>>> [0x7f606e08f19f]
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/mumps-5.5.1-gb7wlwxwbalf5rw5vkp6gtkhfkdqpntz/lib/libzmumps.so(__zmumps_load_MOD_zmumps_load_recv_msgs+0x142)
>>>>>>> [0x7f60737b194d]
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/mumps-5.5.1-gb7wlwxwbalf5rw5vkp6gtkhfkdqpntz/lib/libzmumps.so(zmumps_try_recvtreat_+0x34)
>>>>>>> [0x7f60738ab735]
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/mumps-5.5.1-gb7wlwxwbalf5rw5vkp6gtkhfkdqpntz/lib/libzmumps.so(__zmumps_fac_par_m_MOD_zmumps_fac_par+0x991)
>>>>>>> [0x7f607378bcc8]
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/mumps-5.5.1-gb7wlwxwbalf5rw5vkp6gtkhfkdqpntz/lib/libzmumps.so(zmumps_fac_par_i_+0x240)
>>>>>>> [0x7f6073881d36]
>>>>>>> Abort(805938831) on node 51 (rank 51 in comm 240): Fatal error in
>>>>>>> PMPI_Iprobe: Other MPI error, error stack:
>>>>>>> PMPI_Iprobe(124)..............: MPI_Iprobe(src=MPI_ANY_SOURCE,
>>>>>>> tag=MPI_ANY_TAG, comm=0xc4000017, flag=0x7ffe20e1402c,
>>>>>>> status=0x7ffe20e14260) failed
>>>>>>> MPID_Iprobe(244)..............:
>>>>>>> progress_test(100)............:
>>>>>>> MPIDI_OFI_handle_cq_error(949): OFI poll failed
>>>>>>> (ofi_events.c:951:MPIDI_OFI_handle_cq_error:Input/output error)
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/mumps-5.5.1-gb7wlwxwbalf5rw5vkp6gtkhfkdqpntz/lib/libzmumps.so(zmumps_fac_b_+0x1463)
>>>>>>> [0x7f60738831a1]
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/mumps-5.5.1-gb7wlwxwbalf5rw5vkp6gtkhfkdqpntz/lib/libzmumps.so(zmumps_fac_driver_+0x6969)
>>>>>>> [0x7f60738446c9]
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/mumps-5.5.1-gb7wlwxwbalf5rw5vkp6gtkhfkdqpntz/lib/libzmumps.so(zmumps_+0x2d83)
>>>>>>> [0x7f60738bf9cf]
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/mumps-5.5.1-gb7wlwxwbalf5rw5vkp6gtkhfkdqpntz/lib/libzmumps.so(zmumps_f77_+0x178c)
>>>>>>> [0x7f60738c33bc]
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/mumps-5.5.1-gb7wlwxwbalf5rw5vkp6gtkhfkdqpntz/lib/libzmumps.so(zmumps_c+0x8f8)
>>>>>>> [0x7f60738baacb]
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/petsc-develop-5wrc3y6lyelr3iyrlm3sr2jlh2wxif3k/lib/libpetsc.so.3.019(+0x894560)
>>>>>>> [0x7f6077297560]
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/petsc-develop-5wrc3y6lyelr3iyrlm3sr2jlh2wxif3k/lib/libpetsc.so.3.019(MatLUFactorNumeric+0x32e)
>>>>>>> [0x7f60773bb1e6]
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/petsc-develop-5wrc3y6lyelr3iyrlm3sr2jlh2wxif3k/lib/libpetsc.so.3.019(+0xf51665)
>>>>>>> [0x7f6077954665]
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/petsc-develop-5wrc3y6lyelr3iyrlm3sr2jlh2wxif3k/lib/libpetsc.so.3.019(PCSetUp+0x64b)
>>>>>>> [0x7f60779c77e0]
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/petsc-develop-5wrc3y6lyelr3iyrlm3sr2jlh2wxif3k/lib/libpetsc.so.3.019(KSPSetUp+0xfb6)
>>>>>>> [0x7f6077ac2d53]
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/petsc-develop-5wrc3y6lyelr3iyrlm3sr2jlh2wxif3k/lib/libpetsc.so.3.019(+0x10c1c28)
>>>>>>> [0x7f6077ac4c28]
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/petsc-develop-5wrc3y6lyelr3iyrlm3sr2jlh2wxif3k/lib/libpetsc.so.3.019(KSPSolve+0x13)
>>>>>>> [0x7f6077ac8070]
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/petsc-develop-5wrc3y6lyelr3iyrlm3sr2jlh2wxif3k/lib/libpetsc.so.3.019(+0x11249df)
>>>>>>> [0x7f6077b279df]
>>>>>>> /nfs/home/zzyang/opt/software/linux-centos7-cascadelake/gcc-9.4.0/petsc-develop-5wrc3y6lyelr3iyrlm3sr2jlh2wxif3k/lib/libpetsc.so.3.019(SNESSolve+0x10df)
>>>>>>> [0x7f6077b676c6]
>>>>>>> Abort(1) on node 60: Internal error
>>>>>>> Abort(1007265423) on node 65 (rank 65 in comm 240): Fatal error in
>>>>>>> PMPI_Iprobe: Other MPI error, error stack:
>>>>>>> PMPI_Iprobe(124)..............: MPI_Iprobe(src=MPI_ANY_SOURCE,
>>>>>>> tag=MPI_ANY_TAG, comm=0xc4000017, flag=0x7fff4d82827c,
>>>>>>> status=0x7fff4d8284b0) failed
>>>>>>> MPID_Iprobe(244)..............:
>>>>>>> progress_test(100)............:
>>>>>>> MPIDI_OFI_handle_cq_error(949): OFI poll failed
>>>>>>> (ofi_events.c:951:MPIDI_OFI_handle_cq_error:Input/output error)
>>>>>>> Abort(941205135) on node 32 (rank 32 in comm 240): Fatal error in
>>>>>>> PMPI_Iprobe: Other MPI error, error stack:
>>>>>>> PMPI_Iprobe(124)..............: MPI_Iprobe(src=MPI_ANY_SOURCE,
>>>>>>> tag=MPI_ANY_TAG, comm=0xc4000017, flag=0x7fff715ba3fc,
>>>>>>> status=0x7fff715ba630) failed
>>>>>>> MPID_Iprobe(240)..............:
>>>>>>> MPIDI_iprobe_safe(108)........:
>>>>>>> MPIDI_iprobe_unsafe(35).......:
>>>>>>> MPIDI_OFI_do_iprobe(69).......:
>>>>>>> MPIDI_OFI_handle_cq_error(949): OFI poll failed
>>>>>>> (ofi_events.c:951:MPIDI_OFI_handle_cq_error:Input/output error)
>>>>>>> Abort(470941839) on node 75 (rank 75 in comm 0): Fatal error in
>>>>>>> PMPI_Test: Other MPI error, error stack:
>>>>>>> PMPI_Test(188)................: MPI_Test(request=0x7efe31e03014,
>>>>>>> flag=0x7ffea65d673c, status=0x7ffea65d6760) failed
>>>>>>> MPIR_Test(73).................:
>>>>>>> MPIR_Test_state(33)...........:
>>>>>>> progress_test(100)............:
>>>>>>> MPIDI_OFI_handle_cq_error(949): OFI poll failed
>>>>>>> (ofi_events.c:951:MPIDI_OFI_handle_cq_error:Input/output error)
>>>>>>> Abort(805946511) on node 31 (rank 31 in comm 256): Fatal error in
>>>>>>> PMPI_Probe: Other MPI error, error stack:
>>>>>>> PMPI_Probe(118)...............: MPI_Probe(src=MPI_ANY_SOURCE, tag=7,
>>>>>>> comm=0xc4000015, status=0x7fff9538b7a0) failed
>>>>>>> MPID_Probe(159)...............:
>>>>>>> progress_test(100)............:
>>>>>>> MPIDI_OFI_handle_cq_error(949): OFI poll failed
>>>>>>> (ofi_events.c:951:MPIDI_OFI_handle_cq_error:Input/output error)
>>>>>>> Abort(1179791) on node 73 (rank 73 in comm 0): Fatal error in
>>>>>>> PMPI_Test: Other MPI error, error stack:
>>>>>>> PMPI_Test(188)................: MPI_Test(request=0x5b638d4,
>>>>>>> flag=0x7ffd755119cc, status=0x7ffd755121b0) failed
>>>>>>> MPIR_Test(73).................:
>>>>>>> MPIR_Test_state(33)...........:
>>>>>>> progress_test(100)............:
>>>>>>> MPIDI_OFI_handle_cq_error(949): OFI poll failed
>>>>>>> (ofi_events.c:951:MPIDI_OFI_handle_cq_error:Input/output error)
>>>>>>> ```
>>>>>>>
>>>>>>> Thank you very much for your time and consideration.
>>>>>>>
>>>>>>> Best wishes,
>>>>>>> Zongze
>>>>>>>
>>>>>>
>>>>>>
>>>>>> --
>>>>>> 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/>
>>>>>>
>>>>> --
>>>>> Best wishes,
>>>>> Zongze
>>>>>
>>>>
>>>>
>>>> --
>>>> Stefano
>>>>
>>>
>
> --
> 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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