[petsc-users] DMPlex read partitionned Gmsh

[Thibault Bridel-Bertomeu]

Dear Matthew,

Sorry it took me so long to answer.
Thank you for the details on the HDF5 reader, I think I can work with that
indeed. Gotta find a way to write the *.msh in the custom HDF5 format first
but as you say I might just go with a snippet based on PETSc, this way I'm
sure it will be consistent.

Cheers,

Thibault

Le mar. 23 févr. 2021 à 11:50, Matthew Knepley <knepley at gmail.com> a écrit :

> On Tue, Feb 23, 2021 at 2:37 AM Thibault Bridel-Bertomeu <
> thibault.bridelbertomeu at gmail.com> wrote:
>
>> Dear all,
>>
>> I was wondering if there was a plan in motion to implement yet another
>> possibility for DMPlexCreateGmshFromFile: read a group of foo_*.msh
>> generated from a partition done directly in Gmsh ?
>>
>
> What we have implemented now is a system that reads a mesh in parallel
> from disk into a naive partition, then repartitions and redistributes.
> We have a paper about this strategy: https://arxiv.org/abs/2004.08729 .
> Right now it is only implemented in HDF5. This is mainly because:
>
> 1) Parallel block reads are easy in HDF5.
>
> 2) We use it for checkpointing as well as load, and it is flexible enough
> for this
>
> 3) Label information can be stored in a scalable way
>
> It is easy to convert from GMsh to HDF5 (it's a few lines of PETSc). The
> GMsh format is not ideal for parallelism, and in fact the GMsh reader
> was also using MED, which is an HDF5 format. We originally wrote an MED
> reader, but the documentation and support for the library were
> not up to snuff, so we went with a custom HDF5 format.
>
>   Is this helpful?
>
>      Matt
>
>
>> Have a great day,
>>
>> Thibault B.-B.
>>
>
>
> --
> 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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