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

Mon May 22 21:41:51 CDT 2023

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
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.mcs.anl.gov/pipermail/petsc-users/attachments/20230523/0755fe6b/attachment.html>