: [petsc-users] DMView and DMLoad
Dear Koki,
Many thanks for your help - that was very useful!
We have been able to save/load non-periodic meshes. Unfortunately, the
periodic ones are still not working for us, and I attach a small example
code and output.
As you suggested
and see if
it works.
Thanks,
Koki
*From:* Berend van Wachem
*Sent:* Thursday, February 17, 2022 9:06 AM
*To:* Sagiyama, Koki ; Hapla Vaclav
; PETSc users list ;
Lawrence Mitchell
*Subject:* Re: [petsc-users] DMView and DMLoad
Dear Koki,
Many thanks for your help and sorry for the slow reply.
I
sion 2.0.0` option
when saving and see if it works.
Thanks,
Koki
From: Berend van Wachem
Sent: Thursday, February 17, 2022 9:06 AM
To: Sagiyama, Koki ; Hapla Vaclav
; PETSc users list ;
Lawrence Mitchell
Subject: Re: [petsc-users] DMView and DMLoad
Dear Koki,
M
;
Lawrence Mitchell
*Subject:* Re: [petsc-users] DMView and DMLoad
Dear Koki,
Thanks for your email. In the example of your last email
DMPlexCoordinatesLoad() takes sF0 (PetscSF) as a third argument. In our
code this modification does not fix the error when loading a periodic
dm. Are we doing something
-users] DMView and DMLoad
Dear Koki,
Thanks for your email. In the example of your last email
DMPlexCoordinatesLoad() takes sF0 (PetscSF) as a third argument. In our
code this modification does not fix the error when loading a periodic
dm. Are we doing something wrong? I've included an example code
ing topology/coordinates.
Thanks,
Koki
--------
*From:* Berend van Wachem
*Sent:* Wednesday, November 17, 2021 3:16 PM
*To:* Hapla Vaclav ; PETSc users list
; Lawrence Mitchell ; Sagiyama,
Koki
*Subject:* Re: [petsc-users] DMView and
5_storage_version 2.0.0"
option when saving topology/coordinates.
Thanks,
Koki
From: Berend van Wachem
Sent: Wednesday, November 17, 2021 3:16 PM
To: Hapla Vaclav ; PETSc users list
; Lawrence Mitchell ; Sagiyama, Koki
Subject: Re: [petsc-users] DMVi
Dear Vaclav, Lawrence, Koki,
Thanks for your help! Following your advice and following your example
(https://petsc.org/main/docs/manual/dmplex/#saving-and-loading-data-with-hdf5)
we are able to save and load the DM with a wrapped Vector in h5 format
(PETSC_VIEWER_HDF5_PETSC) successfully.
accordingly.
Thanks,
Koki
From: petsc-users on behalf of Berend van
Wachem
Sent: Thursday, September 30, 2021 12:02 PM
To: Hapla Vaclav
Cc: PETSc users list
Subject: Re: [petsc-users] DMView and DMLoad
***
This email originates from outside
Dear Vaclav, Lawrence,
following your example, we have managed to save the DM with a wrapped
Vector in h5 format (PETSC_VIEWER_HDF5_PETSC) with:
DMPlexTopologyView(dm, viewer);
DMClone(dm, );
...
DMPlexSectionView(dm, viewer, sdm);
DMGetLocalVector(sdm, );
...
To avoid confusions here, Berend seems to be specifically demanding XDMF
(PETSC_VIEWER_HDF5_XDMF). The stuff we are now working on is parallel
checkpointing in our own HDF5 format (PETSC_VIEWER_HDF5_PETSC), I will make a
series of MRs on this topic in the following days.
For XDMF, we are
Thanks for reporting that! There are still some things in the "classic"
docs build that we could make more robust but it's not clear if we should
devote the energy to that or to continuing to replace those processes with
new ones which are better integrated with the Sphinx build.
MR that should
> On 20 Sep 2021, at 3:38 PM, Lawrence Mitchell wrote:
>
> Dear Sergio,
>
> (Added petsc-users back to cc),
>
>> On 20 Sep 2021, at 14:08, sergio.bengoec...@ovgu.de wrote:
>>
>> Dear Lawrence,
>>
>> thanks for the HDF5 saving and loading example.
>>
>> In the documentation you sent
>>
Dear Sergio,
(Added petsc-users back to cc),
> On 20 Sep 2021, at 14:08, sergio.bengoec...@ovgu.de wrote:
>
> Dear Lawrence,
>
> thanks for the HDF5 saving and loading example.
>
> In the documentation you sent
> (https://petsc.org/main/docs/manual/dmplex/#saving-and-loading-data-with-hdf5)
Hi Berend,
> On 14 Sep 2021, at 12:23, Matthew Knepley wrote:
>
> On Tue, Sep 14, 2021 at 5:15 AM Berend van Wachem
> wrote:
> Dear PETSc-team,
>
> We are trying to save and load distributed DMPlex and its associated
> physical fields (created with DMCreateGlobalVector) (Uvelocity,
>
On Tue, Sep 14, 2021 at 5:15 AM Berend van Wachem
wrote:
> Dear PETSc-team,
>
> We are trying to save and load distributed DMPlex and its associated
> physical fields (created with DMCreateGlobalVector) (Uvelocity,
> VVelocity, ...) in HDF5_XDMF format. To achieve this, we do the following:
>
Dear PETSc-team,
We are trying to save and load distributed DMPlex and its associated
physical fields (created with DMCreateGlobalVector) (Uvelocity,
VVelocity, ...) in HDF5_XDMF format. To achieve this, we do the following:
1) save in the same xdmf.h5 file:
DMView( DM ,
I have fixed this bug. The fix is merged to next, and will make it to
master soon.
Thanks,
Matt
On Tue, Mar 10, 2015 at 5:05 PM, Matthew Knepley knep...@gmail.com wrote:
On Tue, Mar 10, 2015 at 5:02 PM, Ataollah Mesgarnejad
ames...@tigers.lsu.edu wrote:
Thanks Matt,
I changed
On Mon, Mar 9, 2015 at 11:28 AM, Ataollah Mesgarnejad
ames...@tigers.lsu.edu wrote:
Dear all,
I'm trying to save and load distributed DMPlex in HDF5 format with DMView
and DMLoad. The problem is even though there are no errors while loading
the DM when I look at the DM loaded from file is
Thanks Matt,
I changed your file to reproduce the error. If you run it on more than one
processor you will get something similar to:
[0]PETSC ERROR: - Error Message
--
[0]PETSC ERROR: Invalid argument
[0]PETSC
On Tue, Mar 10, 2015 at 5:02 PM, Ataollah Mesgarnejad
ames...@tigers.lsu.edu wrote:
Thanks Matt,
I changed your file to reproduce the error. If you run it on more than one
processor you will get something similar to:
[0]PETSC ERROR: - Error Message
Dear all,
I'm trying to save and load distributed DMPlex in HDF5 format with DMView
and DMLoad. The problem is even though there are no errors while loading
the DM when I look at the DM loaded from file is not equal to the DM that
was saved. Also, when loading the DM if DMSetType is called before
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