Hi,
I tried again today and have (re?)discovered this example
https://urldefense.us/v3/__https://petsc.org/release/src/dm/impls/plex/tutorials/ex14.c.html__;!!G_uCfscf7eWS!fJpyioZNC3oN15Qm8-PTF_nxD_NYc-Ou_-moVFROjwZyZREL7e0PwP-rDwjCcynulDAeLGL1WqkN7tyuZepLZ0L7BfI88y7favtI0g$
, but I cannot understand if in my case I should call
PetscSFCreateSectionSF<https://urldefense.us/v3/__https://petsc.org/release/manualpages/PetscSF/PetscSFCreateSectionSF/__;!!G_uCfscf7eWS!fJpyioZNC3oN15Qm8-PTF_nxD_NYc-Ou_-moVFROjwZyZREL7e0PwP-rDwjCcynulDAeLGL1WqkN7tyuZepLZ0L7BfI88y41h-wz6w$
> and, if so, how should I then activate the returned SF.
Matteo
________________________________
Da: Semplice Matteo
Inviato: martedì 22 ottobre 2024 00:24
A: Matthew Knepley <[email protected]>
Cc: PETSc <[email protected]>
Oggetto: Re: [petsc-users] local/global DMPlex Vec output
Dear Matt,
I guess you're right: thresholding by rank==0 and rank==1 in paraview
reveals that it is indeed the overlap cells that are appear twice in the output.
The attached file is not exactly minimal but hopefully short enough. If I run
it in serial, all is ok, but with
mpirun -np 2 ./saveDemo
it creates a 10x10 grid, but I get "output.vtu" with a total of 120 cells.
However the pointSF of the DMPlex seems correct.
Thanks
Matteo
Il 21/10/24 19:15, Matthew Knepley ha scritto:
On Mon, Oct 21, 2024 at 12:22 PM Matteo Semplice via petsc-users
<[email protected]<mailto:[email protected]>> wrote:
Dear petsc-users,
I am having issues with output of parallel data attached to a DMPlex (or
maybe more fundamental ones about DMPlex...).
So I currently
1. create a DMPlex (DMPlexCreateGmshFromFile or DMPlexCreateBoxMesh)
2. partition it
3. and create a section for my data layout with
DMPlexCreateSection(ctx.dmMesh, NULL, numComp, numDof, numBC, NULL, NULL, NULL,
NULL, &sUavg)
4. DMSetLocalSection(ctx.dmMesh, sUavg)
5. create solLoc and solGlob vectors with DMCreateGlobalVector and
DMCreateLocalVector
6. solve ....
7. VecView(ctx.solGlob, vtkViewer) on a .vtu file
but when I load data in ParaView I get more cells than expected and it is as if
the cells in the halo are put twice in output. (I could create a MWE if the
above is not clear)
I think we need an MWE here, because from the explanation above, it should work.
However, I can try to guess the problem. When you partition the mesh, I am
guessing that you have cells in the overlap. These cells
must be in the point SF in order for the global section to give them a unique
owner. Perhaps something has gone wrong here.
Thanks,
Matt
I guess that the culprit is point (4), but if I replace it with
DMSetGlobalSection then I cannot create the local vector at point (5).
How should I handle this properly? In my code I need to create both local and
global vectors, to perform at least GlobalToLocal and to save the global data.
(On a side note, I tried also HDF5 but then it complains about the DM not
having a DS...; really, any working solution that allows data to be explored
with Paraview is fine)
Thanks for any advice!
Matteo Semplice
--
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!fJpyioZNC3oN15Qm8-PTF_nxD_NYc-Ou_-moVFROjwZyZREL7e0PwP-rDwjCcynulDAeLGL1WqkN7tyuZepLZ0L7BfI88y7jE-NoBQ$
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Dipartimento di Scienza e Alta Tecnologia
Università degli Studi dell'Insubria
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