[petsc-users] matload and petsc4py

Thu Jun 6 12:08:28 CDT 2024

   Try without this line CALL PetscViewerPushFormat(viewer, PETSC_VIEWER_DEFAULT, ier)
it shouldn't matter but worth trying. 

> On Jun 6, 2024, at 9:50 AM, Klaij, Christiaan <C.Klaij at marin.nl> wrote:
> 
> This Message Is From an External Sender
> This message came from outside your organization.
> The matrix was saved as with this code:
> 
> CALL PetscViewerBinaryOpen(PETSC_COMM_WORLD, filename, FILE_MODE_WRITE, viewer, ier)
> CALL PetscViewerPushFormat(viewer, PETSC_VIEWER_DEFAULT, ier)
> CALL MatView(A, viewer, ier)
> CALL PetscViewerDestroy(viewer, ier)
> 
> I will try again to check for file corruption
> 
> ________________________________________
> From: Stefano Zampini <stefano.zampini at gmail.com <mailto:stefano.zampini at gmail.com>>
> Sent: Thursday, June 6, 2024 3:01 PM
> To: Klaij, Christiaan
> Cc: PETSc users list
> Subject: Re: [petsc-users] matload and petsc4py
> 
> You don't often get email from stefano.zampini at gmail.com <mailto:stefano.zampini at gmail.com>. Learn why this is important<https://urldefense.us/v3/__https://aka.ms/LearnAboutSenderIdentification__;!!G_uCfscf7eWS!dhd_vSPt_mzy9yVfgQZvw3KcZQwq--Wojmk9JdzuGmnjbC_54Z7IF0WH6qosvtdRyyjv94blDuN1lAlZepr0msg$>
> 
> 
> On Thu, Jun 6, 2024, 14:53 Klaij, Christiaan <C.Klaij at marin.nl <mailto:C.Klaij at marin.nl><mailto:C.Klaij at marin.nl>> wrote:
> I'm writing a matrix to file from my fortran code (that uses petsc-3. 19. 4) with -mat_view binary. Then, I'm trying to load this mat into python (that uses petsc-3. 21. 0). This works fine using single or multiple procs when the marix
> ZjQcmQRYFpfptBannerStart
> This Message Is From an External Sender
> This message came from outside your organization.
> 
> ZjQcmQRYFpfptBannerEnd
> I'm writing a matrix to file from my fortran code (that uses petsc-3.19.4) with -mat_view binary. Then, I'm trying to load this mat into python (that uses petsc-3.21.0). This works fine using single or multiple procs when the marix was written using a single proc (attached file a_mat_np_1.dat). However, when the matrix was written using mulitple procs (attached file a_mat_n_2.dat) I get the error below. Is this supposed to work? If so, what I'm I doing wrong?
> 
> 
> This should work. And your script seems ok too . How did you save the matrix in parallel? I suspect that file is corrupt
> 
> $ cat test_matrixImport_binary.py
> import sys
> import petsc4py
> from petsc4py import PETSc
> from mpi4py import MPI
> 
> # mat files
> #filename = "./a_mat_np_1.dat" # Works
> filename = "./a_mat_np_2.dat" # Doesn't work
> 
> # Initialize PETSc
> petsc4py.init(sys.argv)
> 
> # Create a viewer for reading the binary file
> viewer = PETSc.Viewer().createBinary(filename, mode='r', comm=PETSc.COMM_WORLD)
> 
> # Create a matrix and load data from the binary file
> A = PETSc.Mat().create(comm=PETSc.COMM_WORLD)
> A.load(viewer)
> 
> $ python test_matrixImport_binary.py
> Traceback (most recent call last):
> File "/projects/P35662.700/test_cklaij/test_matrixImport_binary.py", line 18, in <module>
> A.load(viewer)
> File "petsc4py/PETSc/Mat.pyx", line 2025, in petsc4py.PETSc.Mat.load
> petsc4py.PETSc.Error: error code 79
> [0] MatLoad() at /home/cklaij/petsc-3.21.0/src/mat/interface/matrix.c:1344
> [0] MatLoad_SeqAIJ() at /home/cklaij/petsc-3.21.0/src/mat/impls/aij/seq/aij.c:5091
> [0] MatLoad_SeqAIJ_Binary() at /home/cklaij/petsc-3.21.0/src/mat/impls/aij/seq/aij.c:5142
> [0] Unexpected data in file
> [0] Inconsistent matrix data in file: nonzeros = 460, sum-row-lengths = 761
> 
> $ mpirun -n 2 python test_matrixImport_binary.py
> Traceback (most recent call last):
> File "/projects/P35662.700/test_cklaij/test_matrixImport_binary.py", line 18, in <module>
> Traceback (most recent call last):
> File "/projects/P35662.700/test_cklaij/test_matrixImport_binary.py", line 18, in <module>
> A.load(viewer)
> File "petsc4py/PETSc/Mat.pyx", line 2025, in petsc4py.PETSc.Mat.load
> A.load(viewer)
> File "petsc4py/PETSc/Mat.pyx", line 2025, in petsc4py.PETSc.Mat.load
> petsc4py.PETSc.Error: error code 79
> [0] MatLoad() at /home/cklaij/petsc-3.21.0/src/mat/interface/matrix.c:1344
> [0] MatLoad_MPIAIJ() at /home/cklaij/petsc-3.21.0/src/mat/impls/aij/mpi/mpiaij.c:3035
> [0] MatLoad_MPIAIJ_Binary() at /home/cklaij/petsc-3.21.0/src/mat/impls/aij/mpi/mpiaij.c:3087
> [0] Unexpected data in file
> [0] Inconsistent matrix data in file: nonzeros = 460, sum-row-lengths = 761
> petsc4py.PETSc.Error: error code 79
> [1] MatLoad() at /home/cklaij/petsc-3.21.0/src/mat/interface/matrix.c:1344
> [1] MatLoad_MPIAIJ() at /home/cklaij/petsc-3.21.0/src/mat/impls/aij/mpi/mpiaij.c:3035
> [1] MatLoad_MPIAIJ_Binary() at /home/cklaij/petsc-3.21.0/src/mat/impls/aij/mpi/mpiaij.c:3087
> [1] Unexpected data in file
> [1] Inconsistent matrix data in file: nonzeros = 460, sum-row-lengths = 761
> 
> 
> [cid:ii_18feda229ee74859a161]
> dr. ir.     Christiaan       Klaij
>  |      Senior Researcher        |      Research & Development
> T +31 317 49 33 44<tel:+31%20317%2049%2033%2044>         |       C.Klaij at marin.nl <mailto:C.Klaij at marin.nl><mailto:C.Klaij at marin.nl>      | https://urldefense.us/v3/__http://www.marin.nl__;!!G_uCfscf7eWS!dhd_vSPt_mzy9yVfgQZvw3KcZQwq--Wojmk9JdzuGmnjbC_54Z7IF0WH6qosvtdRyyjv94blDuN1lAlZod9brMU$<https://urldefense.us/v3/__https://www.marin.nl/__;!!G_uCfscf7eWS!YrcVeQ6V8OD3jKxSzzxpyuTgFdncWh4YcL1SgDT8NHqystMpzO1pkd17oNGni-ll5I8qH9_ueOtj3WYWBYeP9zg$>
> [Facebook]<https://urldefense.us/v3/__https://www.facebook.com/marin.wageningen__;!!G_uCfscf7eWS!YrcVeQ6V8OD3jKxSzzxpyuTgFdncWh4YcL1SgDT8NHqystMpzO1pkd17oNGni-ll5I8qH9_ueOtj3WYWzqK6wKw$>
> [LinkedIn]<https://urldefense.us/v3/__https://www.linkedin.com/company/marin__;!!G_uCfscf7eWS!YrcVeQ6V8OD3jKxSzzxpyuTgFdncWh4YcL1SgDT8NHqystMpzO1pkd17oNGni-ll5I8qH9_ueOtj3WYWIUyfXbM$>
> [YouTube]<https://urldefense.us/v3/__https://www.youtube.com/marinmultimedia__;!!G_uCfscf7eWS!YrcVeQ6V8OD3jKxSzzxpyuTgFdncWh4YcL1SgDT8NHqystMpzO1pkd17oNGni-ll5I8qH9_ueOtj3WYWjtUkoeg$>
> <image337700.png><image563921.png><image268336.png><image799923.png>

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.mcs.anl.gov/pipermail/petsc-users/attachments/20240606/3824d73a/attachment-0001.html>