[petsc-users] HYPRE AMS - Segmentation Violation with discrete gradient
Matthew Knepley
knepley at gmail.com
Fri Jan 21 09:34:25 CST 2022
On Fri, Jan 21, 2022 at 9:50 AM Nicolas Alejandro Barnafi <
nicolas.barnafi at unimi.it> wrote:
> Dear community,
>
> I'm giving the discrete gradient to a PC object (sub PC of a fieldsplit)
> but HYPRE internally gives a segmentation violation error. The matrix has
> been adequately set, as I have added it to the program output for
> inspection. Has this happened to anyone?
>
Is there a chance of sending us something that we can run? Alternatively,
can you run
https://gitlab.com/petsc/petsc/-/blob/main/src/ksp/ksp/tutorials/ex10.c
loading your matrix and giving options to select Hypre? Then we can do the
same thing here with your matrix.
Thanks,
Matt
> I have attached the error below together with the discrete gradient, in
> case you see something I am missing.
>
> The code is currently running in serial, so I don't expect
> communication/partitioning to be an issue (although it could be in the
> future).
>
> Thanks in advance,
> Nicolas
>
>
> ------------------------------ PETSc output
> ------------------------------------
>
> Mat Object: 1 MPI processes
> type: seqaij
> -1.00000e+00 1.00000e+00 0.00000e+00 0.00000e+00 0.00000e+00
> 0.00000e+00 0.00000e+00 0.00000e+00
> 1.00000e+00 0.00000e+00 -1.00000e+00 0.00000e+00 0.00000e+00
> 0.00000e+00 0.00000e+00 0.00000e+00
> -1.00000e+00 0.00000e+00 0.00000e+00 0.00000e+00 1.00000e+00
> 0.00000e+00 0.00000e+00 0.00000e+00
> 0.00000e+00 -1.00000e+00 0.00000e+00 1.00000e+00 0.00000e+00
> 0.00000e+00 0.00000e+00 0.00000e+00
> 0.00000e+00 1.00000e+00 0.00000e+00 0.00000e+00 0.00000e+00
> -1.00000e+00 0.00000e+00 0.00000e+00
> 0.00000e+00 0.00000e+00 1.00000e+00 -1.00000e+00 0.00000e+00
> 0.00000e+00 0.00000e+00 0.00000e+00
> 0.00000e+00 0.00000e+00 1.00000e+00 0.00000e+00 0.00000e+00
> 0.00000e+00 -1.00000e+00 0.00000e+00
> 0.00000e+00 0.00000e+00 0.00000e+00 -1.00000e+00 0.00000e+00
> 0.00000e+00 0.00000e+00 1.00000e+00
> 0.00000e+00 0.00000e+00 0.00000e+00 0.00000e+00 1.00000e+00
> -1.00000e+00 0.00000e+00 0.00000e+00
> 0.00000e+00 0.00000e+00 0.00000e+00 0.00000e+00 -1.00000e+00
> 0.00000e+00 1.00000e+00 0.00000e+00
> 0.00000e+00 0.00000e+00 0.00000e+00 0.00000e+00 0.00000e+00
> 1.00000e+00 0.00000e+00 -1.00000e+00
> 0.00000e+00 0.00000e+00 0.00000e+00 0.00000e+00 0.00000e+00
> 0.00000e+00 -1.00000e+00 1.00000e+00
> [0]PETSC ERROR:
> ------------------------------------------------------------------------
> [0]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation,
> probably memory access out of range
> [0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
> [0]PETSC ERROR: or see
> https://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind
> [0]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac OS
> X to find memory corruption errors
> [0]PETSC ERROR: likely location of problem given in stack below
> [0]PETSC ERROR: --------------------- Stack Frames
> ------------------------------------
> [0]PETSC ERROR: Note: The EXACT line numbers in the stack are not
> available,
> [0]PETSC ERROR: INSTEAD the line number of the start of the function
> [0]PETSC ERROR: is given.
> [0]PETSC ERROR: [0] jac->setup line 408
> /home/ubuntu/petsc/src/ksp/pc/impls/hypre/hypre.c
> [0]PETSC ERROR: [0] PCSetUp_HYPRE line 223
> /home/ubuntu/petsc/src/ksp/pc/impls/hypre/hypre.c
> [0]PETSC ERROR: [0] PCSetUp line 971
> /home/ubuntu/petsc/src/ksp/pc/interface/precon.c
> [0]PETSC ERROR: [0] KSPSetUp line 319
> /home/ubuntu/petsc/src/ksp/ksp/interface/itfunc.c
> [0]PETSC ERROR: [0] KSPSolve_Private line 615
> /home/ubuntu/petsc/src/ksp/ksp/interface/itfunc.c
> [0]PETSC ERROR: [0] KSPSolve line 884
> /home/ubuntu/petsc/src/ksp/ksp/interface/itfunc.c
> [0]PETSC ERROR: [0] PCApply_FieldSplit line 1241
> /home/ubuntu/petsc/src/ksp/pc/impls/fieldsplit/fieldsplit.c
> [0]PETSC ERROR: [0] PCApply line 426
> /home/ubuntu/petsc/src/ksp/pc/interface/precon.c
> [0]PETSC ERROR: [0] KSP_PCApply line 281
> /home/ubuntu/petsc/include/petsc/private/kspimpl.h
> [0]PETSC ERROR: [0] KSPInitialResidual line 40
> /home/ubuntu/petsc/src/ksp/ksp/interface/itres.c
> [0]PETSC ERROR: [0] KSPSolve_GMRES line 233
> /home/ubuntu/petsc/src/ksp/ksp/impls/gmres/gmres.c
> [0]PETSC ERROR: [0] KSPSolve_Private line 615
> /home/ubuntu/petsc/src/ksp/ksp/interface/itfunc.c
> [0]PETSC ERROR: [0] KSPSolve line 884
> /home/ubuntu/petsc/src/ksp/ksp/interface/itfunc.c
> [0]PETSC ERROR: --------------------- Error Message
> --------------------------------------------------------------
> [0]PETSC ERROR: Signal received
> [0]PETSC ERROR: See https://www.mcs.anl.gov/petsc/documentation/faq.html
> for trouble shooting.
> [0]PETSC ERROR: Petsc Release Version 3.14.6, unknown
> [0]PETSC ERROR: Unknown Name on a arch-linux-c-debug named
> ubuntu-ThinkPad-L14-Gen-1 by ubuntu Fri Jan 21 15:37:45 2022
> [0]PETSC ERROR: Configure options --with-cc=gcc --with-cxx=g++
> --with-fc=gfortran --download-mpich --download-fblaslapack --with-mpi=1
> --download-superlu_dist --download-mumps --download-hypre
> --with-debugging=1 COPTFLAGS="-O3 -march=native -mtune=native"
> CXXOPTFLAGS="-O3 -march=native -mtune=native" FOPTFLAGS="-O3 -march=native
> -mtune=native" --download-scalapack --download-hpddm
> [0]PETSC ERROR: #1 User provided function() line 0 in unknown file
> [0]PETSC ERROR: Checking the memory for corruption.
> application called MPI_Abort(MPI_COMM_WORLD, 50176059) - process 0
> [unset]: write_line error; fd=-1 buf=:cmd=abort exitcode=50176059
> :
> system msg for write_line failure : Bad file descriptor
>
--
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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