[petsc-users] PETSc using problem

Fri Dec 27 09:23:36 CST 2024

On Fri, Dec 27, 2024 at 2:57 AM jun hu via petsc-users <
petsc-users at mcs.anl.gov> wrote:

> Dear Developer:
>
>    I am a PETSc user and I have the following error when calculating 1
> million grids using PETSc in my windows computer. It came up after
> calculating it for a while,
>
This is an out-of-memory error. Perhaps you are holding onto memory? You
can run a small run using -malloc_debug and
it will show unfreed memory at the end.

  Thanks,

    Matt

> and before it could calculate many time steps.I wanted to know what
> caused it. The following is the error message:
>
> [1]PETSC ERROR: --------------------- Error Message
> --------------------------------------------------------------
>
> [1]PETSC ERROR: MatSeqAIJSetPreallocation_SeqAIJ
>
> [1]PETSC ERROR: See https://urldefense.us/v3/__https://petsc.org/release/faq/__;!!G_uCfscf7eWS!eAD-KairPbYZWQ-aKVerz_lz1iMg9eDKuiDquFFftoE6orMSZ_p0mceQ-3CXYflKBORJAbSjb6b5vV6LwXMP$ 
> <https://urldefense.us/v3/__https://petsc.org/release/faq/__;!!G_uCfscf7eWS!Yvk0IyBSNujv074PP5zehMZgi-UMJ2Gdw8YLIpjym2HIIXPdlZgEriAuhW47O-G879gHiHUPPkFysUrShi1LkTl9ZYck$>
> for trouble shooting.
>
> [1]PETSC ERROR: Petsc Release Version 3.18.6, unknown
>
> [1]PETSC ERROR: Unknown Name on a arch-mswin-c-opt named DESKTOP-B75P775
> by Administrator Wed Dec 25 15:56:22 2024
>
> [1]PETSC ERROR: Configure options --with-cc="win32fe cl"
> --with-cxx="win32fe cl" --with-fc=0 --with-debugging=0
> --with-shared-libraries=0 --with-x=0 --with-quad-precision=0
> --with-blaslapack-include=/cygdrive/c/PROGRA~2/Intel/oneAPI/mkl/latest/include
> --with-blaslapack-lib="-L/cygdrive/c/PROGRA~2/Intel/oneAPI/mkl/latest/lib/intel64
> -L/cygdrive/c/PROGRA~2/Intel/oneAPI/compiler/latest/windows/compiler/lib/intel64_win
> mkl_core.lib mkl_intel_thread.lib
>
> mkl_intel_lp64.lib libiomp5md.lib"
> --with-mpi-include=/cygdrive/c/PROGRA~2/Intel/oneAPI/mpi/latest/include
> --with-mpi-lib="-L/cygdrive/c/PROGRA~2/Intel/oneAPI/mpi/latest/lib/release
> impi.lib"
> --with-mpiexec=/cygdrive/c/PROGRA~2/Intel/oneAPI/mpi/latest/bin/mpiexec
> --with-metis-include=/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-metis/install/include
> --with-metis-lib="-L/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-metis/install/lib
> metis.lib"
> --with-parmetis-include=/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-parmetis/install/include
> --with-parmetis-lib="-L/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-parmetis/install/lib
> parmetis.lib"
> --with-hdf5-include=/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-hdf5/install/include
> --with-hdf5-lib="-L/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-hdf5/install/lib
> libhdf5.lib" --ignore-cygwin-link
>
> [5]PETSC ERROR: --------------------- Error Message
> --------------------------------------------------------------
>
> [5]PETSC ERROR: MatSeqAIJSetPreallocation_SeqAIJ
>
> [5]PETSC ERROR: See https://urldefense.us/v3/__https://petsc.org/release/faq/__;!!G_uCfscf7eWS!eAD-KairPbYZWQ-aKVerz_lz1iMg9eDKuiDquFFftoE6orMSZ_p0mceQ-3CXYflKBORJAbSjb6b5vV6LwXMP$ 
> <https://urldefense.us/v3/__https://petsc.org/release/faq/__;!!G_uCfscf7eWS!Yvk0IyBSNujv074PP5zehMZgi-UMJ2Gdw8YLIpjym2HIIXPdlZgEriAuhW47O-G879gHiHUPPkFysUrShi1LkTl9ZYck$>
> for trouble shooting.
>
> [5]PETSC ERROR: Petsc Release Version 3.18.6, unknown
>
> [5]PETSC ERROR: Unknown Name on a arch-mswin-c-opt named DESKTOP-B75P775
> by Administrator Wed Dec 25 15:56:22 2024
>
> [5]PETSC ERROR: Configure options --with-cc="win32fe cl"
> --with-cxx="win32fe cl" --with-fc=0 --with-debugging=0
> --with-shared-libraries=0 --with-x=0 --with-quad-precision=0
> --with-blaslapack-include=/cygdrive/c/PROGRA~2/Intel/oneAPI/mkl/latest/include
> --with-blaslapack-lib="-L/cygdrive/c/PROGRA~2/Intel/oneAPI/mkl/latest/lib/intel64
> -L/cygdrive/c/PROGRA~2/Intel/oneAPI/compiler/latest/windows/compiler/lib/intel64_win
> mkl_core.lib mkl_intel_thread.lib
>
> mkl_intel_lp64.lib libiomp5md.lib"
> --with-mpi-include=/cygdrive/c/PROGRA~2/Intel/oneAPI/mpi/latest/include
> --with-mpi-lib="-L/cygdrive/c/PROGRA~2/Intel/oneAPI/mpi/latest/lib/release
> impi.lib"
> --with-mpiexec=/cygdrive/c/PROGRA~2/Intel/oneAPI/mpi/latest/bin/mpiexec
> --with-metis-include=/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-metis/install/include
> --with-metis-lib="-L/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-metis/install/lib
> metis.lib"
> --with-parmetis-include=/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-parmetis/install/include
> --with-parmetis-lib="-L/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-parmetis/install/lib
> parmetis.lib"
> --with-hdf5-include=/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-hdf5/install/include
> --with-hdf5-lib="-L/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-hdf5/install/lib
> libhdf5.lib" --ignore-cygwin-link
>
> [4]PETSC ERROR: --------------------- Error Message
> --------------------------------------------------------------
>
> [4]PETSC ERROR: MatSeqAIJSetPreallocation_SeqAIJ
>
> [4]PETSC ERROR: See https://urldefense.us/v3/__https://petsc.org/release/faq/__;!!G_uCfscf7eWS!eAD-KairPbYZWQ-aKVerz_lz1iMg9eDKuiDquFFftoE6orMSZ_p0mceQ-3CXYflKBORJAbSjb6b5vV6LwXMP$ 
> <https://urldefense.us/v3/__https://petsc.org/release/faq/__;!!G_uCfscf7eWS!Yvk0IyBSNujv074PP5zehMZgi-UMJ2Gdw8YLIpjym2HIIXPdlZgEriAuhW47O-G879gHiHUPPkFysUrShi1LkTl9ZYck$>
> for trouble shooting.
>
> [4]PETSC ERROR: Petsc Release Version 3.18.6, unknown
>
> [4]PETSC ERROR: Unknown Name on a arch-mswin-c-opt named DESKTOP-B75P775
> by Administrator Wed Dec 25 15:56:22 2024
>
> [4]PETSC ERROR: Configure options --with-cc="win32fe cl"
> --with-cxx="win32fe cl" --with-fc=0 --with-debugging=0
> --with-shared-libraries=0 --with-x=0 --with-quad-precision=0
> --with-blaslapack-include=/cygdrive/c/PROGRA~2/Intel/oneAPI/mkl/latest/include
> --with-blaslapack-lib="-L/cygdrive/c/PROGRA~2/Intel/oneAPI/mkl/latest/lib/intel64
> -L/cygdrive/c/PROGRA~2/Intel/oneAPI/compiler/latest/windows/compiler/lib/intel64_win
> mkl_core.lib mkl_intel_thread.lib
>
> mkl_intel_lp64.lib libiomp5md.lib"
> --with-mpi-include=/cygdrive/c/PROGRA~2/Intel/oneAPI/mpi/latest/include
> --with-mpi-lib="-L/cygdrive/c/PROGRA~2/Intel/oneAPI/mpi/latest/lib/release
> impi.lib"
> --with-mpiexec=/cygdrive/c/PROGRA~2/Intel/oneAPI/mpi/latest/bin/mpiexec
> --with-metis-include=/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-metis/install/include
> --with-metis-lib="-L/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-metis/install/lib
> metis.lib"
> --with-parmetis-include=/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-parmetis/install/include
> --with-parmetis-lib="-L/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-parmetis/install/lib
> parmetis.lib"
> --with-hdf5-include=/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-hdf5/install/include
> --with-hdf5-lib="-L/cygdrive/d/PETSc/petsc-v3.18.6-pkgconfig//packages/pkg-hdf5/install/lib
> libhdf5.lib" --ignore-cygwin-link
>
> [1]PETSC ERROR: #1 PetscMallocAlign() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\sys\memory\mal.c:68
>
> [1]PETSC ERROR: #2 PetscMallocA() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\sys\memory\mal.c:410
>
> [1]PETSC ERROR: #3 MatSeqAIJSetPreallocation_SeqAIJ() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\mat\impls\aij\seq\aij.c:4008
>
> [1]PETSC ERROR: #4 MatCreateSubMatrix_SeqAIJ() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\mat\impls\aij\seq\aij.c:2588
>
> [1]PETSC ERROR: #5 MatCreateSubMatrix_MPIAIJ_SameRowColDist() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\mat\impls\aij\mpi\mpiaij.c:3283
>
> [1]PETSC ERROR: #6 MatCreateSubMatrix_MPIAIJ() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\mat\impls\aij\mpi\mpiaij.c:3390
>
> [1]PETSC ERROR: #7 MatCreateSubMatrix() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\mat\interface\matrix.c:8382
>
> [1]PETSC ERROR: #8 SNESSolve_VINEWTONRSLS() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\snes\impls\vi\rs\virs.c:392
>
> [1]PETSC ERROR: [5]PETSC ERROR: #1 PetscMallocAlign() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\sys\memory\mal.c:68
>
> [5]PETSC ERROR: #2 PetscMallocA() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\sys\memory\mal.c:410
>
> [5]PETSC ERROR: #3 MatSeqAIJSetPreallocation_SeqAIJ() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\mat\impls\aij\seq\aij.c:4008
>
> [5]PETSC ERROR: #4 MatCreateSubMatrix_SeqAIJ() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\mat\impls\aij\seq\aij.c:2588
>
> [5]PETSC ERROR: #5 MatCreateSubMatrix_MPIAIJ_SameRowColDist() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\mat\impls\aij\mpi\mpiaij.c:3283
>
> [5]PETSC ERROR: #6 MatCreateSubMatrix_MPIAIJ() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\mat\impls\aij\mpi\mpiaij.c:3390
>
> [5]PETSC ERROR: #7 MatCreateSubMatrix() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\mat\interface\matrix.c:8382
>
> [5]PETSC ERROR: #8 SNESSolve_VINEWTONRSLS() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\snes\impls\vi\rs\virs.c:392
>
> [5]PETSC ERROR: [4]PETSC ERROR: #1 PetscMallocAlign() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\sys\memory\mal.c:68
>
> [4]PETSC ERROR: #2 PetscMallocA() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\sys\memory\mal.c:410
>
> [4]PETSC ERROR: #3 MatSeqAIJSetPreallocation_SeqAIJ() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\mat\impls\aij\seq\aij.c:4008
>
> [4]PETSC ERROR: #4 MatCreateSubMatrix_SeqAIJ() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\mat\impls\aij\seq\aij.c:2588
>
> [4]PETSC ERROR: #5 MatCreateSubMatrix_MPIAIJ_SameRowColDist() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\mat\impls\aij\mpi\mpiaij.c:3283
>
> [4]PETSC ERROR: #6 MatCreateSubMatrix_MPIAIJ() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\mat\impls\aij\mpi\mpiaij.c:3390
>
> #9 SNESSolve() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\snes\interface\snes.c:4692
>
> [4]PETSC ERROR: #7 MatCreateSubMatrix() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\mat\interface\matrix.c:8382
>
> [4]PETSC ERROR: #8 SNESSolve_VINEWTONRSLS() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\snes\impls\vi\rs\virs.c:392
>
> [4]PETSC ERROR: #9 SNESSolve() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\snes\interface\snes.c:4692
>
> #9 SNESSolve() at
> D:\PETSc\petsc-v3.18.6-pkgconfig\src\snes\interface\snes.c:4692
>
>
>

-- 
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://urldefense.us/v3/__https://www.cse.buffalo.edu/*knepley/__;fg!!G_uCfscf7eWS!eAD-KairPbYZWQ-aKVerz_lz1iMg9eDKuiDquFFftoE6orMSZ_p0mceQ-3CXYflKBORJAbSjb6b5vUp9gcgS$  <https://urldefense.us/v3/__http://www.cse.buffalo.edu/*knepley/__;fg!!G_uCfscf7eWS!eAD-KairPbYZWQ-aKVerz_lz1iMg9eDKuiDquFFftoE6orMSZ_p0mceQ-3CXYflKBORJAbSjb6b5vZAJvHCJ$ >
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.mcs.anl.gov/pipermail/petsc-users/attachments/20241227/5357be51/attachment-0001.html>