From: Junchao Z. <jun...@gm...> - 2024-03-01 21:58:27
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It is weird, with jsrun --smpiargs "-gpu" -n 6 -a 1 -c 1 -g 1 /gpfs/alpine2/mat267/proj- shared/dependencies/petsc-kokkos/src/ksp/ksp/tutorials/bench_kspsolve -mat_type aijkokkos -use_gpu_aware_mpi 1 petsc tried to test if the MPI is gpu aware (by doing an MPI_Allreduce on device buffers). It tried and found it was not, so it threw out the complaint in the error message. From https://docs.olcf.ornl.gov/systems/summit_user_guide.html#cuda-aware-mpi, I think your flags were right. I just got my Summit account reactivated today. I will give it a try. --Junchao Zhang On Fri, Mar 1, 2024 at 3:32 PM Blondel, Sophie <sbl...@ut...> wrote: > I have been using --smpiargs "-gpu". > > I tried the benchmark with "jsrun --smpiargs "-gpu" -n 6 -a 1 -c 1 -g 1 > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos/src/ksp/ksp/tutorials/bench_kspsolve > -mat_type aijkokkos -use_gpu_aware_mpi 0" and it seems to work: > Fri Mar 1 16:27:14 EST 2024 > =========================================== > Test: KSP performance - Poisson > Input matrix: 27-pt finite difference stencil > -n 100 > DoFs = 1000000 > Number of nonzeros = 26463592 > > Step1 - creating Vecs and Mat... > Step2 - running KSPSolve()... > Step3 - calculating error norm... > > Error norm: 5.591e-02 > KSP iters: 63 > KSPSolve: 3.16646 seconds > FOM: 3.158e+05 DoFs/sec > =========================================== > > ------------------------------------------------------------ > Sender: LSF System <lsfadmin@batch3> > Subject: Job 3322694: <xolotlTest> in cluster <summit> Done > > Job <xolotlTest> was submitted from host <login2> by user <bqo> in cluster > <summit> at Fri Mar 1 16:26:58 2024 > Job was executed on host(s) <1*batch3>, in queue <debug>, as user <bqo> in > cluster <summit> at Fri Mar 1 16:27:00 2024 > <42*a35n05> > </ccs/home/bqo> was used as the home directory. > </gpfs/alpine2/mat267/scratch/bqo/test> was used as the working directory. > Started at Fri Mar 1 16:27:00 2024 > Terminated at Fri Mar 1 16:27:26 2024 > Results reported at Fri Mar 1 16:27:26 2024 > > The output (if any) is above this job summary. > > > If I switch to "jsrun --smpiargs "-gpu" -n 6 -a 1 -c 1 -g 1 > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos/src/ksp/ksp/tutorials/bench_kspsolve > -mat_type aijkokkos -use_gpu_aware_mpi 1" it complains: > Fri Mar 1 16:25:02 EST 2024 > =========================================== > Test: KSP performance - Poisson > Input matrix: 27-pt finite difference stencil > -n 100 > DoFs = 1000000 > Number of nonzeros = 26463592 > > Step1 - creating Vecs and Mat... > [5]PETSC ERROR: PETSc is configured with GPU support, but your MPI is not > GPU-aware. For better performance, please use a GPU-aware MPI. > [5]PETSC ERROR: If you do not care, add option -use_gpu_aware_mpi 0. To > not see the message again, add the option to your .petscrc, OR add it to > the env var PETSC_OPTIONS. > [5]PETSC ERROR: If you do care, for IBM Spectrum MPI on OLCF Summit, you > may need jsrun --smpiargs=-gpu. > [5]PETSC ERROR: For Open MPI, you need to configure it --with-cuda ( > https://www.open-mpi.org/faq/?category=buildcuda) > [5]PETSC ERROR: For MVAPICH2-GDR, you need to set MV2_USE_CUDA=1 ( > http://mvapich.cse.ohio-state.edu/userguide/gdr/) > [5]PETSC ERROR: For Cray-MPICH, you need to set > MPICH_GPU_SUPPORT_ENABLED=1 (man mpi to see manual of cray-mpich) > -------------------------------------------------------------------------- > MPI_ABORT was invoked on rank 0 in communicator MPI_COMM_SELF > with errorcode 76. > > Best, > > Sophie > ------------------------------ > *From:* Junchao Zhang <jun...@gm...> > *Sent:* Thursday, February 29, 2024 17:09 > *To:* Blondel, Sophie <sbl...@ut...> > *Cc:* xol...@li... < > xol...@li...>; pet...@mc... < > pet...@mc...> > *Subject:* Re: [petsc-users] PAMI error on Summit > > You don't often get email from jun...@gm.... Learn why this is > important <https://aka.ms/LearnAboutSenderIdentification> > Could you try a petsc example to see if the environment is good? > For example, > > cd src/ksp/ksp/tutorials > make bench_kspsolve > mpirun -n 6 ./bench_kspsolve -mat_type aijkokkos -use_gpu_aware_mpi {0 or > 1} > > BTW, I remember to use gpu-aware mpi on Summit, one needs to pass > --smpiargs "-gpu" to jsrun > > --Junchao Zhang > > > On Thu, Feb 29, 2024 at 3:22 PM Blondel, Sophie via petsc-users < > pet...@mc...> wrote: > > I still get the same error when deactivating GPU-aware MPI. I also tried > unloading spectrum MPI and using openMPI instead (recompiling everything) > and I get a segfault in PETSc in that case (still using GPU-aware MPI I > think, at least not explicitly > ZjQcmQRYFpfptBannerStart > This Message Is From an External Sender > This message came from outside your organization. > > ZjQcmQRYFpfptBannerEnd > I still get the same error when deactivating GPU-aware MPI. > > I also tried unloading spectrum MPI and using openMPI instead (recompiling > everything) and I get a segfault in PETSc in that case (still using > GPU-aware MPI I think, at least not explicitly turning it off): > > 0 TS dt 1e-12 time 0. > > [ERROR] [0]PETSC ERROR: > > [ERROR] > ------------------------------------------------------------------------ > > [ERROR] [0]PETSC ERROR: > > [ERROR] Caught signal number 11 SEGV: Segmentation Violation, probably > memory access out of range > > [ERROR] [0]PETSC ERROR: > > [ERROR] Try option -start_in_debugger or -on_error_attach_debugger > > [ERROR] [0]PETSC ERROR: > > [ERROR] or see https://petsc.org/release/faq/#valgrind > <https://urldefense.us/v3/__https://urldefense.us/v2/url?u=https-3A__petsc.org_release_faq_-23valgrind&d=DwQGaQ&c=v4IIwRuZAmwupIjowmMWUmLasxPEgYsgNI-O7C4ViYc&r=SNsmM8pc4pmx4j-bqFq40w&m=1GLMwF9jewRd8MBil83VSwu-tVEn7Tkm_YfSAcgEMsZ9hDb2HvlnscmeqXsnzv5S&s=Loebf9sk4dgXGOOKPK3IHxp-C5SjGtr7Svr49LwaM4E&e=__;!!G_uCfscf7eWS!bhpq7UF4Rq9PhMMRRb_zeSflUb9Cs5My48ggt02OxSWxoM4eIU_MDt3H6e2YnrxJizIsA21q76YdORVhI0jsXekj$> and > https://petsc.org/release/faq/ > <https://urldefense.us/v3/__https://urldefense.us/v2/url?u=https-3A__petsc.org_release_faq_&d=DwQGaQ&c=v4IIwRuZAmwupIjowmMWUmLasxPEgYsgNI-O7C4ViYc&r=SNsmM8pc4pmx4j-bqFq40w&m=1GLMwF9jewRd8MBil83VSwu-tVEn7Tkm_YfSAcgEMsZ9hDb2HvlnscmeqXsnzv5S&s=7e9oLVYLacda_1-8rSkzDEHL4Zy1BFnO4pnrfMNlgO4&e=__;!!G_uCfscf7eWS!bhpq7UF4Rq9PhMMRRb_zeSflUb9Cs5My48ggt02OxSWxoM4eIU_MDt3H6e2YnrxJizIsA21q76YdORVhI74qqyaL$> > > [ERROR] [0]PETSC ERROR: > > [ERROR] or try https://docs.nvidia.com/cuda/cuda-memcheck/index.html > <https://urldefense.us/v3/__https://urldefense.us/v2/url?u=https-3A__docs.nvidia.com_cuda_cuda-2Dmemcheck_index.html&d=DwQGaQ&c=v4IIwRuZAmwupIjowmMWUmLasxPEgYsgNI-O7C4ViYc&r=SNsmM8pc4pmx4j-bqFq40w&m=1GLMwF9jewRd8MBil83VSwu-tVEn7Tkm_YfSAcgEMsZ9hDb2HvlnscmeqXsnzv5S&s=2gHentsiEM2njpPim4k40mYA96k7v_ivjI3erSECebM&e=__;!!G_uCfscf7eWS!bhpq7UF4Rq9PhMMRRb_zeSflUb9Cs5My48ggt02OxSWxoM4eIU_MDt3H6e2YnrxJizIsA21q76YdORVhI3YGCBJ5$> on > NVIDIA CUDA systems to find memory corruption errors > > [ERROR] [0]PETSC ERROR: > > [ERROR] configure using --with-debugging=yes, recompile, link, and run > > [ERROR] [0]PETSC ERROR: > > [ERROR] to get more information on the crash. > > [ERROR] [0]PETSC ERROR: > > [ERROR] Run with -malloc_debug to check if memory corruption is causing > the crash. > > -------------------------------------------------------------------------- > > Best, > > Sophie > ------------------------------ > *From:* Blondel, Sophie via Xolotl-psi-development < > xol...@li...> > *Sent:* Thursday, February 29, 2024 10:17 > *To:* xol...@li... < > xol...@li...>; pet...@mc... < > pet...@mc...> > *Subject:* [Xolotl-psi-development] PAMI error on Summit > > Hi, > > I am using PETSc build with the Kokkos CUDA backend on Summit but when I > run my code with multiple MPI tasks I get the following error: > 0 TS dt 1e-12 time 0. > errno 14 pid 864558 > xolotl: > /__SMPI_build_dir__________________________/ibmsrc/pami/ibm-pami/buildtools/pami_build_port/../pami/components/devices/shmem/shaddr/CMAShaddr.h:164: > size_t PAMI::Dev > ice::Shmem::CMAShaddr::read_impl(PAMI::Memregion*, size_t, > PAMI::Memregion*, size_t, size_t, bool*): Assertion `cbytes > 0' failed. > errno 14 pid 864557 > xolotl: > /__SMPI_build_dir__________________________/ibmsrc/pami/ibm-pami/buildtools/pami_build_port/../pami/components/devices/shmem/shaddr/CMAShaddr.h:164: > size_t PAMI::Dev > ice::Shmem::CMAShaddr::read_impl(PAMI::Memregion*, size_t, > PAMI::Memregion*, size_t, size_t, bool*): Assertion `cbytes > 0' failed. > [e28n07:864557] *** Process received signal *** > [e28n07:864557] Signal: Aborted (6) > [e28n07:864557] Signal code: (-6) > [e28n07:864557] [ 0] > linux-vdso64.so.1(__kernel_sigtramp_rt64+0x0)[0x2000000604d8] > [e28n07:864557] [ 1] /lib64/glibc-hwcaps/power9/libc-2.28.so > (gsignal+0xd8)[0x200005d796f8] > [e28n07:864557] [ 2] /lib64/glibc-hwcaps/power9/libc-2.28.so > (abort+0x164)[0x200005d53ff4] > [e28n07:864557] [ 3] /lib64/glibc-hwcaps/power9/libc-2.28.so > (+0x3d280)[0x200005d6d280] > [e28n07:864557] [ 4] [e28n07:864558] *** Process received signal *** > [e28n07:864558] Signal: Aborted (6) > [e28n07:864558] Signal code: (-6) > [e28n07:864558] [ 0] > linux-vdso64.so.1(__kernel_sigtramp_rt64+0x0)[0x2000000604d8] > [e28n07:864558] [ 1] /lib64/glibc-hwcaps/power9/libc-2.28.so > (gsignal+0xd8)[0x200005d796f8] > [e28n07:864558] [ 2] /lib64/glibc-hwcaps/power9/libc-2.28.so > (abort+0x164)[0x200005d53ff4] > [e28n07:864558] [ 3] /lib64/glibc-hwcaps/power9/libc-2.28.so > (+0x3d280)[0x200005d6d280] > [e28n07:864558] [ 4] /lib64/glibc-hwcaps/power9/libc-2.28.so > (__assert_fail+0x64)[0x200005d6d324] > [e28n07:864557] [ 5] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/pami_port/libpami.so.3 > > (_ZN4PAMI8Protocol3Get7GetRdmaINS_6Device5Shmem8DmaModelINS3_11ShmemDeviceINS_4Fifo8WrapFifoINS7_10FifoPacketILj64ELj4096EEENS_7Counter15IndirectBoundedINS_6Atomic12NativeAt > > omicEEELj256EEENSB_8IndirectINSB_6NativeEEENS4_9CMAShaddrELj256ELj512EEELb0EEESL_E6simpleEP18pami_rget_simple_t+0x1d8)[0x20007f3971d8] > [e28n07:864557] [ 6] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/pami_port/libpami.so.3 > > (_ZN4PAMI8Protocol3Get13CompositeRGetINS1_4RGetES3_E6simpleEP18pami_rget_simple_t+0x40)[0x20007f2ecc10] > [e28n07:864557] [ 7] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/pami_port/libpami.so.3 > (_ZN4PAMI7Context9rget_implEP18pami_rget_simple_t+0x28c)[0x20007f31a78c] > [e28n07:864557] [ 8] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/pami_port/libpami.so.3 > (PAMI_Rget+0x18)[0x20007f2d94a8] > [e28n07:864557] [ 9] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/spectrum_mpi/mca_pml_p > ami.so(process_rndv_msg+0x46c)[0x2000a80159ac] > [e28n07:864557] [10] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/spectrum_mpi/mca_pml_p > ami.so(pml_pami_recv_rndv_cb+0x2bc)[0x2000a801670c] > [e28n07:864557] [11] /lib64/glibc-hwcaps/power9/libc-2.28.so > (__assert_fail+0x64)[0x200005d6d324] > [e28n07:864558] [ 5] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/pami_port/libpami.so.3 > > (_ZN4PAMI8Protocol3Get7GetRdmaINS_6Device5Shmem8DmaModelINS3_11ShmemDeviceINS_4Fifo8WrapFifoINS7_10FifoPacketILj64ELj4096EEENS_7Counter15IndirectBoundedINS_6Atomic12NativeAt > > omicEEELj256EEENSB_8IndirectINSB_6NativeEEENS4_9CMAShaddrELj256ELj512EEELb0EEESL_E6simpleEP18pami_rget_simple_t+0x1d8)[0x20007f3971d8] > [e28n07:864558] [ 6] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/pami_port/libpami.so.3 > > (_ZN4PAMI8Protocol3Get13CompositeRGetINS1_4RGetES3_E6simpleEP18pami_rget_simple_t+0x40)[0x20007f2ecc10] > [e28n07:864558] [ 7] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/pami_port/libpami.so.3 > (_ZN4PAMI7Context9rget_implEP18pami_rget_simple_t+0x28c)[0x20007f31a78c] > [e28n07:864558] [ 8] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/pami_port/libpami.so.3 > (PAMI_Rget+0x18)[0x20007f2d94a8] > [e28n07:864558] [ 9] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/spectrum_mpi/mca_pml_p > ami.so(process_rndv_msg+0x46c)[0x2000a80159ac] > [e28n07:864558] [10] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/spectrum_mpi/mca_pml_p > ami.so(pml_pami_recv_rndv_cb+0x2bc)[0x2000a801670c] > [e28n07:864558] [11] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/pami_port/libpami.so.3 > > (_ZN4PAMI8Protocol4Send11EagerSimpleINS_6Device5Shmem11PacketModelINS3_11ShmemDeviceINS_4Fifo8WrapFifoINS7_10FifoPacketILj64ELj4096EEENS_7Counter15IndirectBoundedINS_6Atomic > > 12NativeAtomicEEELj256EEENSB_8IndirectINSB_6NativeEEENS4_9CMAShaddrELj256ELj512EEEEELNS1_15configuration_tE5EE15dispatch_packedEPvSP_mSP_SP_+0x4c)[0x20007f2e30ac] > [e28n07:864557] [12] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/pami_port/libpami.so.3 > (PAMI_Context_advancev+0x6b0)[0x20007f2da540] > [e28n07:864557] [13] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/spectrum_mpi/mca_pml_p > ami.so(mca_pml_pami_progress+0x34)[0x2000a80073e4] > [e28n07:864557] [14] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/libopen-pal.so.3(opal_ > progress+0x6c)[0x20003d60640c] > [e28n07:864557] [15] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/libmpi_ibm.so.3(ompi_r > equest_default_wait_all+0x144)[0x2000034c4b04] > [e28n07:864557] [16] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/libmpi_ibm.so.3(PMPI_W > aitall+0x10c)[0x20000352790c] > [e28n07:864557] [17] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/pami_port/libpami.so.3 > > (_ZN4PAMI8Protocol4Send11EagerSimpleINS_6Device5Shmem11PacketModelINS3_11ShmemDeviceINS_4Fifo8WrapFifoINS7_10FifoPacketILj64ELj4096EEENS_7Counter15IndirectBoundedINS_6Atomic > > 12NativeAtomicEEELj256EEENSB_8IndirectINSB_6NativeEEENS4_9CMAShaddrELj256ELj512EEEEELNS1_15configuration_tE5EE15dispatch_packedEPvSP_mSP_SP_+0x4c)[0x20007f2e30ac] > [e28n07:864558] [12] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/pami_port/libpami.so.3 > (PAMI_Context_advancev+0x6b0)[0x20007f2da540] > [e28n07:864558] [13] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/spectrum_mpi/mca_pml_p > ami.so(mca_pml_pami_progress+0x34)[0x2000a80073e4] > [e28n07:864558] [14] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/libopen-pal.so.3(opal_ > progress+0x6c)[0x20003d60640c] > [e28n07:864558] [15] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/libmpi_ibm.so.3(ompi_r > equest_default_wait_all+0x144)[0x2000034c4b04] > [e28n07:864558] [16] > /sw/summit/spack-envs/summit-plus/opt/gcc-12.1.0/spectrum-mpi-10.4.0.6-20230210-db5xakaaqowbhp3nqwebpxrdbwtm4knu/container/../lib/libmpi_ibm.so.3(PMPI_W > aitall+0x10c)[0x20000352790c] > [e28n07:864558] [17] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(+0x3ca7b0)[0x2000004ea7b0] > [e28n07:864557] [18] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(+0x3ca7b0)[0x2000004ea7b0] > [e28n07:864558] [18] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(+0x3c5e68)[0x2000004e5e68] > [e28n07:864557] [19] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(+0x3c5e68)[0x2000004e5e68] > [e28n07:864558] [19] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(PetscSFBcastEnd+0x74)[0x2000004c9214] > [e28n07:864557] [20] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(PetscSFBcastEnd+0x74)[0x2000004c9214] > [e28n07:864558] [20] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(+0x3b4cb0)[0x2000004d4cb0] > [e28n07:864557] [21] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(+0x3b4cb0)[0x2000004d4cb0] > [e28n07:864558] [21] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(VecScatterEnd+0x178)[0x2000004dd038] > [e28n07:864558] [22] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(VecScatterEnd+0x178)[0x2000004dd038] > [e28n07:864557] [22] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(+0x1112be0)[0x200001232be0] > [e28n07:864558] [23] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(+0x1112be0)[0x200001232be0] > [e28n07:864557] [23] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(DMGlobalToLocalEnd+0x470)[0x200000e9b0f0] > [e28n07:864557] [24] > /gpfs/alpine2/mat267/proj-shared/code/xolotl-stable-cuda/xolotl/solver/libxolotlSolver.so(_ZN6xolotl6solver11PetscSolver11rhsFunctionEP5_p_TSdP6_p_VecS5 > _+0xc4)[0x200005f710d4] > [e28n07:864557] [25] > /gpfs/alpine2/mat267/proj-shared/code/xolotl-stable-cuda/xolotl/solver/libxolotlSolver.so(_ZN6xolotl6solver11RHSFunctionEP5_p_TSdP6_p_VecS4_Pv+0x2c)[0x2 > 00005f7130c] > [e28n07:864557] [26] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(DMGlobalToLocalEnd+0x470)[0x200000e9b0f0] > [e28n07:864558] [24] > /gpfs/alpine2/mat267/proj-shared/code/xolotl-stable-cuda/xolotl/solver/libxolotlSolver.so(_ZN6xolotl6solver11PetscSolver11rhsFunctionEP5_p_TSdP6_p_VecS5 > _+0xc4)[0x200005f710d4] > [e28n07:864558] [25] > /gpfs/alpine2/mat267/proj-shared/code/xolotl-stable-cuda/xolotl/solver/libxolotlSolver.so(_ZN6xolotl6solver11RHSFunctionEP5_p_TSdP6_p_VecS4_Pv+0x2c)[0x2 > 00005f7130c] > [e28n07:864558] [26] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(TSComputeRHSFunction+0x1bc)[0x2000017621dc] > [e28n07:864557] [27] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(TSComputeRHSFunction+0x1bc)[0x2000017621dc] > [e28n07:864558] [27] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(TSComputeIFunction+0x418)[0x200001763ad8] > [e28n07:864557] [28] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(TSComputeIFunction+0x418)[0x200001763ad8] > [e28n07:864558] [28] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(+0x16f2ef0)[0x200001812ef0] > [e28n07:864557] [29] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(+0x16f2ef0)[0x200001812ef0] > [e28n07:864558] [29] > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(TSStep+0x228)[0x200001768088] > [e28n07:864557] *** End of error message *** > > /gpfs/alpine2/mat267/proj-shared/dependencies/petsc-kokkos-cuda/lib/libpetsc.so.3.020(TSStep+0x228)[0x200001768088] > [e28n07:864558] *** End of error message *** > > It seems to be pointing to > https://petsc.org/release/manualpages/PetscSF/PetscSFBcastEnd/ > <https://urldefense.us/v3/__https://petsc.org/release/manualpages/PetscSF/PetscSFBcastEnd/__;!!G_uCfscf7eWS!bhpq7UF4Rq9PhMMRRb_zeSflUb9Cs5My48ggt02OxSWxoM4eIU_MDt3H6e2YnrxJizIsA21q76YdORVhI30Ylvr6$> > so I wanted to check if you had seen this type of error before and if it > could be related to how the code is compiled or run. Let me know if I can > provide any additional information. > > Best, > > Sophie > > |