Hi, Philip, Can you tell me instructions to build Xolotl to reproduce the error? --Junchao Zhang On Mon, Nov 14, 2022 at 12:24 PM Fackler, Philip via petsc-users < [email protected]> wrote:
In Xolotl's "feature-petsc-kokkos" branch, I have moved our code to use the COO interface for preallocating and setting values in the Jacobian matrix. I have found that with some of our test cases, using more than one MPI rank results in a crash. Way down in the preconditioner code in petsc a Mat gets computed that has "null" for the "productsymbolic" member of its "ops". It's pretty far removed from where we compute the Jacobian entries, so I haven't been able (so far) to track it back to an error in my code. I'd appreciate some help with this from someone who is more familiar with the petsc guts so we can figure out what I'm doing wrong. (I'm assuming it's a bug in Xolotl.)
Note that this is using the kokkos backend for Mat and Vec in petsc, but with a serial-only build of kokkos and kokkos-kernels. So, it's a CPU-only multiple MPI rank run.
Here's a paste of the error output showing the relevant parts of the call stack:
[ERROR] [0]PETSC ERROR: [ERROR] --------------------- Error Message -------------------------------------------------------------- [ERROR] [1]PETSC ERROR: [ERROR] --------------------- Error Message -------------------------------------------------------------- [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] No support for this operation for this object type [ERROR] [1]PETSC ERROR: [ERROR] No support for this operation for this object type [ERROR] [0]PETSC ERROR: [ERROR] No method productsymbolic for Mat of type (null) [ERROR] No method productsymbolic for Mat of type (null) [ERROR] [0]PETSC ERROR: [ERROR] [1]PETSC ERROR: [ERROR] See https://petsc.org/release/faq/ for trouble shooting. [ERROR] See https://petsc.org/release/faq/ for trouble shooting. [ERROR] [0]PETSC ERROR: [ERROR] [1]PETSC ERROR: [ERROR] Petsc Development GIT revision: v3.18.1-115-gdca010e0e9a GIT Date: 2022-10-28 14:39:41 +0000 [ERROR] Petsc Development GIT revision: v3.18.1-115-gdca010e0e9a GIT Date: 2022-10-28 14:39:41 +0000 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] Unknown Name on a named PC0115427 by 4pf Mon Nov 14 13:22:01 2022 [ERROR] Unknown Name on a named PC0115427 by 4pf Mon Nov 14 13:22:01 2022 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] Configure options PETSC_DIR=/home/4pf/repos/petsc PETSC_ARCH=arch-kokkos-serial-debug --with-debugging=1 --with-cc=mpicc --with-cxx=mpicxx --with-fc=0 --with-cudac=0 --prefix=/home/4pf/build/petsc/serial-debug/install --with-64-bit-indices --with-shared-libraries --with-kokkos-dir=/home/4pf/build/kokkos/serial/install --with-kokkos-kernels-dir=/home/4pf/build/kokkos-kernels/serial/install [ERROR] Configure options PETSC_DIR=/home/4pf/repos/petsc PETSC_ARCH=arch-kokkos-serial-debug --with-debugging=1 --with-cc=mpicc --with-cxx=mpicxx --with-fc=0 --with-cudac=0 --prefix=/home/4pf/build/petsc/serial-debug/install --with-64-bit-indices --with-shared-libraries --with-kokkos-dir=/home/4pf/build/kokkos/serial/install --with-kokkos-kernels-dir=/home/4pf/build/kokkos-kernels/serial/install [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] #1 MatProductSymbolic_MPIAIJKokkos_AB() at /home/4pf/repos/petsc/src/mat/impls/aij/mpi/kokkos/mpiaijkok.kokkos.cxx:918 [ERROR] #1 MatProductSymbolic_MPIAIJKokkos_AB() at /home/4pf/repos/petsc/src/mat/impls/aij/mpi/kokkos/mpiaijkok.kokkos.cxx:918 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] #2 MatProductSymbolic_MPIAIJKokkos() at /home/4pf/repos/petsc/src/mat/impls/aij/mpi/kokkos/mpiaijkok.kokkos.cxx:1138 [ERROR] #2 MatProductSymbolic_MPIAIJKokkos() at /home/4pf/repos/petsc/src/mat/impls/aij/mpi/kokkos/mpiaijkok.kokkos.cxx:1138 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] #3 MatProductSymbolic() at /home/4pf/repos/petsc/src/mat/interface/matproduct.c:793 [ERROR] #3 MatProductSymbolic() at /home/4pf/repos/petsc/src/mat/interface/matproduct.c:793 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] #4 MatProduct_Private() at /home/4pf/repos/petsc/src/mat/interface/matrix.c:9820 [ERROR] #4 MatProduct_Private() at /home/4pf/repos/petsc/src/mat/interface/matrix.c:9820 [ERROR] [0]PETSC ERROR: [ERROR] [1]PETSC ERROR: [ERROR] #5 MatMatMult() at /home/4pf/repos/petsc/src/mat/interface/matrix.c:9897 [ERROR] #5 MatMatMult() at /home/4pf/repos/petsc/src/mat/interface/matrix.c:9897 [ERROR] [0]PETSC ERROR: [ERROR] [1]PETSC ERROR: [ERROR] #6 PCGAMGOptProlongator_AGG() at /home/4pf/repos/petsc/src/ksp/pc/impls/gamg/agg.c:769 [ERROR] #6 PCGAMGOptProlongator_AGG() at /home/4pf/repos/petsc/src/ksp/pc/impls/gamg/agg.c:769 [ERROR] [0]PETSC ERROR: [ERROR] [1]PETSC ERROR: [ERROR] #7 PCSetUp_GAMG() at /home/4pf/repos/petsc/src/ksp/pc/impls/gamg/gamg.c:639 [ERROR] #7 PCSetUp_GAMG() at /home/4pf/repos/petsc/src/ksp/pc/impls/gamg/gamg.c:639 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] #8 PCSetUp() at /home/4pf/repos/petsc/src/ksp/pc/interface/precon.c:994 [ERROR] #8 PCSetUp() at /home/4pf/repos/petsc/src/ksp/pc/interface/precon.c:994 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] #9 KSPSetUp() at /home/4pf/repos/petsc/src/ksp/ksp/interface/itfunc.c:406 [ERROR] #9 KSPSetUp() at /home/4pf/repos/petsc/src/ksp/ksp/interface/itfunc.c:406 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] #10 KSPSolve_Private() at /home/4pf/repos/petsc/src/ksp/ksp/interface/itfunc.c:825 [ERROR] #10 KSPSolve_Private() at /home/4pf/repos/petsc/src/ksp/ksp/interface/itfunc.c:825 [ERROR] [0]PETSC ERROR: [ERROR] [1]PETSC ERROR: [ERROR] #11 KSPSolve() at /home/4pf/repos/petsc/src/ksp/ksp/interface/itfunc.c:1071 [ERROR] #11 KSPSolve() at /home/4pf/repos/petsc/src/ksp/ksp/interface/itfunc.c:1071 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] #12 PCApply_FieldSplit() at /home/4pf/repos/petsc/src/ksp/pc/impls/fieldsplit/fieldsplit.c:1246 [ERROR] #12 PCApply_FieldSplit() at /home/4pf/repos/petsc/src/ksp/pc/impls/fieldsplit/fieldsplit.c:1246 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] #13 PCApply() at /home/4pf/repos/petsc/src/ksp/pc/interface/precon.c:441 [ERROR] #13 PCApply() at /home/4pf/repos/petsc/src/ksp/pc/interface/precon.c:441 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] #14 KSP_PCApply() at /home/4pf/repos/petsc/include/petsc/private/kspimpl.h:380 [ERROR] #14 KSP_PCApply() at /home/4pf/repos/petsc/include/petsc/private/kspimpl.h:380 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] #15 KSPFGMRESCycle() at /home/4pf/repos/petsc/src/ksp/ksp/impls/gmres/fgmres/fgmres.c:152 [ERROR] #15 KSPFGMRESCycle() at /home/4pf/repos/petsc/src/ksp/ksp/impls/gmres/fgmres/fgmres.c:152 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] #16 KSPSolve_FGMRES() at /home/4pf/repos/petsc/src/ksp/ksp/impls/gmres/fgmres/fgmres.c:273 [ERROR] #16 KSPSolve_FGMRES() at /home/4pf/repos/petsc/src/ksp/ksp/impls/gmres/fgmres/fgmres.c:273 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] #17 KSPSolve_Private() at /home/4pf/repos/petsc/src/ksp/ksp/interface/itfunc.c:899 [ERROR] #17 KSPSolve_Private() at /home/4pf/repos/petsc/src/ksp/ksp/interface/itfunc.c:899 [ERROR] [0]PETSC ERROR: [ERROR] [1]PETSC ERROR: [ERROR] #18 KSPSolve() at /home/4pf/repos/petsc/src/ksp/ksp/interface/itfunc.c:1071 [ERROR] #18 KSPSolve() at /home/4pf/repos/petsc/src/ksp/ksp/interface/itfunc.c:1071 [ERROR] [0]PETSC ERROR: [ERROR] [1]PETSC ERROR: [ERROR] #19 SNESSolve_NEWTONLS() at /home/4pf/repos/petsc/src/snes/impls/ls/ls.c:210 [ERROR] #19 SNESSolve_NEWTONLS() at /home/4pf/repos/petsc/src/snes/impls/ls/ls.c:210 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] #20 SNESSolve() at /home/4pf/repos/petsc/src/snes/interface/snes.c:4689 [ERROR] #20 SNESSolve() at /home/4pf/repos/petsc/src/snes/interface/snes.c:4689 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] #21 TSStep_ARKIMEX() at /home/4pf/repos/petsc/src/ts/impls/arkimex/arkimex.c:791 [ERROR] #21 TSStep_ARKIMEX() at /home/4pf/repos/petsc/src/ts/impls/arkimex/arkimex.c:791 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] #22 TSStep() at /home/4pf/repos/petsc/src/ts/interface/ts.c:3445 [ERROR] #22 TSStep() at /home/4pf/repos/petsc/src/ts/interface/ts.c:3445 [ERROR] [1]PETSC ERROR: [ERROR] [0]PETSC ERROR: [ERROR] #23 TSSolve() at /home/4pf/repos/petsc/src/ts/interface/ts.c:3836 [ERROR] #23 TSSolve() at /home/4pf/repos/petsc/src/ts/interface/ts.c:3836 [ERROR] PetscSolver::solve: TSSolve failed. [ERROR] PetscSolver::solve: TSSolve failed. Aborting. Aborting.
Thanks for the help,
*Philip Fackler * Research Software Engineer, Application Engineering Group Advanced Computing Systems Research Section Computer Science and Mathematics Division *Oak Ridge National Laboratory*