[petsc-users] PETSc using problem

Fri Dec 27 10:22:47 CST 2024

Perhaps --with-64-bit-indices=1 would help this use case?

if using latest petsc version - the following build might work:

--with-cc=win32fe_cl --with-cxx=win32fe_cl --with-64-bit-indices=1 --download-metis --download-parmetis ....

Satish

On Fri, 27 Dec 2024, Matthew Knepley wrote:

> 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
> >
> >
> >
> 
> 