[petsc-users] MPI_Iprobe Error with MUMPS Solver on Multi-Nodes
Yann Jobic
yann.jobic at univ-amu.fr
Tue May 23 07:08:54 CDT 2023
If i may, you can use the command line option "-mat_mumps_icntl_4 2"
MUMPS then gives infomations about the factorization step, such as the
estimated needed memory.
Best regards,
Yann
Le 5/23/2023 à 11:59 AM, Matthew Knepley a écrit :
> On Mon, May 22, 2023 at 10:42 PM Zongze Yang <yangzongze at gmail.com
> <mailto:yangzongze at gmail.com>> wrote:
>
> On Tue, 23 May 2023 at 05:31, Stefano Zampini
> <stefano.zampini at gmail.com <mailto: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?
>
>
> It really depends on the fill. Suppose that you get 1% fill, then
>
> (3e6)^2 * 0.01 * 8 = 1e12 B
>
> and you have 1.5e12 B, so I could easily see running out of memory.
>
> Thanks,
>
> Matt
>
> Thanks!
> Zongze
>
> Il giorno lun 22 mag 2023 alle ore 20:03 Zongze Yang
> <yangzongze at gmail.com <mailto:yangzongze at gmail.com>> ha scritto:
>
> Thanks!
>
> Zongze
>
> Matthew Knepley <knepley at gmail.com
> <mailto: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 <mailto: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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