[petsc-users] SNES ex12 visualization

[Adriano Côrtes]

Dear Matthew,

Thank you for your return. It worked, but this prompts another question. So
why PetscViewer does not write both files (.h5 and .xmf) directly, instead
of having to post-proc the .h5 file (in serial)?
And what about big 3D simulations? PETSc always serialize the output of the
distributed dmplex? Is there a way to output one .h5 per mesh partition?

Best regards,
Adriano.


2017-09-14 12:00 GMT-03:00 Matthew Knepley <knepley at gmail.com>:

> On Thu, Sep 14, 2017 at 10:30 AM, Adriano Côrtes <adrimacortes at gmail.com>
> wrote:
>
>> Dear all,
>>
>> I am running the SNES ex12  and I'm passing the options -dm_view
>> hdf5:sol.h5 -vec_view hdf5:sol.h5::append to generate an output file. The
>> .h5 file is generated, but I'm not being able to load it in Paraview
>> (5.4.0-64bits). Paraview recognizes the file and offers severel options to
>> read it, here is the complete list
>>
>> Chombo Files
>> GTC Files
>> M3DC1 Files
>> Multilevel 3D Plasma Files
>> PFLOTRAN Files
>> Pixie Files
>> Tetrad Files
>> UNIC Files
>> VizSchema Files
>>
>> The problem is none of the options above work :(
>> I'm using the configure option '-download-hdf5' and it installs hdf5
>> version 1.8.18
>> Any hint of how to fix it and have the visualization working?
>>
>
> Yes, Paraview does not directly read HDF5. It needs you to tell it what
> the data in the HDF5 file means. You do
> this by creating a *.xdmf file, which is XML. We provide a tool
>
>   $PETSC_DIR/bin/petsc_gen_xdmf.py <HDF5 file>
>
> which should automatically produce this file for you. Let us know if it
> does not work.
>
>   Thanks,
>
>     Matt
>
>
>>
>> Best regards,
>> Adriano.
>>
>> --
>> Adriano Côrtes
>> =================================================
>> *Campus Duque de Caxias and*
>> *High-performance Computing Center (NACAD/COPPE)*
>> Federal University of Rio de Janeiro (UFRJ)
>>
>
>
>
> --
> 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
>
> http://www.caam.rice.edu/~mk51/
>



-- 
Adriano Côrtes
=================================================
*Campus Duque de Caxias and*
*High-performance Computing Center (NACAD/COPPE)*
Federal University of Rio de Janeiro (UFRJ)
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