[petsc-users] DMPlexInterpolate error nonconforming object sizes

[Matthew Knepley]

On Sat, Jul 2, 2022 at 7:15 AM Prateek Gupta <prateekgupta1709 at gmail.com>
wrote:

> Hi Matt,
> you are right about the first DM being invalid. I wasn't reading the cells
> properly. But now that I have fixed it, the code seems to hang in an
> infinite loop in DMPlexStratify. I am attaching the working snippet which
> exhibits the issue.
>

Your depth ranges overlap:

[0]PETSC ERROR: Petsc has generated inconsistent data
[0]PETSC ERROR: New depth 2 range [0,4) overlaps with depth 1 range [0,4)
[0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting.
[0]PETSC ERROR: Petsc Development GIT revision: v3.17.1-558-g510ea5c820e
 GIT Date: 2022-06-08 21:35:46 -0400
[0]PETSC ERROR: ./dmplex_dist on a arch-master-debug named
MacBook-Pro.fios-router.home by knepley Sat Jul  2 07:33:55 2022
[0]PETSC ERROR: Configure options --PETSC_ARCH=arch-master-debug
--download-bamg --download-chaco --download-ctetgen --download-egads
--download-eigen --download-exodusii --download-fftw --download-hpddm
--download-ks --download-libceed --download-libpng --download-metis
--download-ml --download-mmg --download-mumps --download-netcdf
--download-opencascade --download-p4est --download-parmetis
--download-parmmg --download-pnetcdf --download-pragmatic
--download-ptscotch --download-scalapack --download-slepc
--download-suitesparse --download-superlu_dist --download-tetgen
--download-triangle --with-cmake-exec=/PETSc3/petsc/apple/bin/cmake
--with-ctest-exec=/PETSc3/petsc/apple/bin/ctest
--with-hdf5-dir=/PETSc3/petsc/apple --with-mpi-dir=/PETSc3/petsc/apple
--with-petsc4py=1 --with-shared-libraries --with-slepc --with-zlib
--download-bison
[0]PETSC ERROR: #1 DMPlexCreateDepthStratum() at
/PETSc3/petsc/petsc-dev/src/dm/impls/plex/plex.c:3864
[0]PETSC ERROR: #2 DMPlexStratify() at
/PETSc3/petsc/petsc-dev/src/dm/impls/plex/plex.c:3984
[0]PETSC ERROR: #3 main() at
/Users/knepley/Downloads/tmp/Prateek/dmplex_dist.cpp:167
[0]PETSC ERROR: PETSc Option Table entries:
[0]PETSC ERROR: -malloc_debug

I will try to figure out why.

  Thanks,

     Matt


> Thanks for your help!
>
>
> Sincerely,
> Prateek Gupta, PhD
>
>
> On Sat, Jul 2, 2022 at 4:37 PM Matthew Knepley <knepley at gmail.com> wrote:
>
>> On Sat, Jul 2, 2022 at 3:11 AM Prateek Gupta <prateekgupta1709 at gmail.com>
>> wrote:
>>
>>> Hi,
>>> I am trying to create a minimal example of reading nodes and elements
>>> from a text file and creating dmplex mesh. So far I am following the
>>> procedure as in plexfluent.c. However, while trying to interpolate the
>>> mesh, I get the error,
>>>
>>> [0]PETSC ERROR: Nonconforming object sizes
>>> [0]PETSC ERROR: The number of vertices in first DM 20 != 0 in the second
>>> DM
>>>
>>> The call trace looks like this,
>>> [0]PETSC ERROR: #1 DMPlexCopyCoordinates() line 1448 in
>>> /build/petsc-zg3KH7/petsc-3.12.4+dfsg1/src/dm/impls/plex/plexinterpolate.c
>>> [0]PETSC ERROR: #2 DMPlexInterpolate() line 1394 in
>>> /build/petsc-zg3KH7/petsc-3.12.4+dfsg1/src/dm/impls/plex/plexinterpolate.c
>>>
>>> The code snippet for interpolation is exactly same as in plexfluent.c
>>> except for the petscCall function,
>>>
>>> --------------------------------------------------
>>>   if (interpolate) {
>>>     DM idm;
>>>     PetscCall(DMPlexInterpolate(*dm, &idm));
>>>     PetscCall(DMDestroy(dm));
>>>     dm  = idm;
>>>   }
>>> --------------------------------------------------
>>>
>>> dm is the DM object declared within main only. Any help will be
>>> appreciated. I can guess that the idm object doesn't have memory allocated
>>> for copying the vertices, but my question is how come it works off-the-bat
>>> for fluent/gmsh files using functions in plexfluent.c and plexgmsh.c. Is
>>> there a way to allocate just the vertices? Or do I need to use
>>> DMPlexSetChart for idm object before interpolating?
>>>
>>
>> My guess is that the first DM is invalid. If you send the code, I will go
>> through it.
>>
>>   Thanks,
>>
>>      Matt
>>
>>
>>> Thank you.
>>> Sincerely,
>>> Prateek Gupta, PhD
>>>
>>
>>
>> --
>> 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/>
>>
>

-- 
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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