How about adding a least some documentation to bin/petsc_gen_xdmf.py
> On Dec 21, 2016, at 1:14 PM, Matthew Knepley <[email protected]> wrote: > > On Wed, Dec 21, 2016 at 12:56 PM, Mark Adams <[email protected]> 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
