On Mon, May 22, 2023 at 10:42 PM Zongze Yang <[email protected]> wrote:
> On Tue, 23 May 2023 at 05:31, Stefano Zampini <[email protected]> > 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 <[email protected]> >> ha scritto: >> >>> Thanks! >>> >>> Zongze >>> >>> Matthew Knepley <[email protected]>于2023年5月23日 周二00:09写道： >>> >>>> On Mon, May 22, 2023 at 11:07 AM Zongze Yang <[email protected]> >>>> 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/>
