[petsc-dev] snes_monitor_residual

[Matthew Knepley]

On Wed, Dec 21, 2016 at 12:56 PM, Mark Adams <mfadams at lbl.gov> wrote:

> I ran with:
>
> -snes_monitor_residual hdf5:res.h5
> -snes_monitor_solution hdf5:sol.h5
>
> and got h5 files that look OK:
>

That will stash vectors in the HDF5 file, but you still need to put in the
DM as well

  -dm_view hdf5:ex1.h5
 -snes_monitor_residual hdf5:ex1.h5::append
 -snes_monitor_solution hdf5:ex1.h5::append

    Matt

-rw-r--r--  1 markadams  staff   19760 Dec 21 13:46 res.h5
> -rw-r--r--  1 markadams  staff   19760 Dec 21 13:46 sol.h5
>
> but then got this. Am I doing this wrong?
>
> 13:46 multi-species *+> ~/Codes/landaufem/Plex$
> ~/Codes/petsc/bin/petsc_gen_xdmf.py res.h5
> Traceback (most recent call last):
>   File "/Users/markadams/Codes/petsc/bin/petsc_gen_xdmf.py", line 241, in
> <module>
>     generateXdmf(f)
>   File "/Users/markadams/Codes/petsc/bin/petsc_gen_xdmf.py", line 211, in
> generateXdmf
>     geom      = h5['geometry']
>   File "h5py/_objects.pyx", line 54, in h5py._objects.with_phil.wrapper
> (/Users/travis/build/MacPython/h5py-wheels/h5py/h5py/_objects.c:2405)
>   File "h5py/_objects.pyx", line 55, in h5py._objects.with_phil.wrapper
> (/Users/travis/build/MacPython/h5py-wheels/h5py/h5py/_objects.c:2362)
>   File "/Users/markadams/homebrew/lib/python2.7/site-packages/h5py/_hl/group.py",
> line 160, in __getitem__
>     oid = h5o.open(self.id, self._e(name), lapl=self._lapl)
>   File "h5py/_objects.pyx", line 54, in h5py._objects.with_phil.wrapper
> (/Users/travis/build/MacPython/h5py-wheels/h5py/h5py/_objects.c:2405)
>   File "h5py/_objects.pyx", line 55, in h5py._objects.with_phil.wrapper
> (/Users/travis/build/MacPython/h5py-wheels/h5py/h5py/_objects.c:2362)
>   File "h5py/h5o.pyx", line 190, in h5py.h5o.open (/Users/travis/build/
> MacPython/h5py-wheels/h5py/h5py/h5o.c:3456)
> KeyError: "Unable to open object (Object 'geometry' doesn't exist)"
>



-- 
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
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