[petsc-users] Generating xdmf from h5 file.

[subramanya sadasiva]

Hi, 
i was trying to use petsc_gen_xdmf.py to convert a h5 file to a xdmf file. The h5 file was generated by snes/ex12 which was run as, 

ex12 -dm_view hdf5:my.h5 

When I do, 
petsc_gen_xdmf.py my.h5 

I get the following error, 

 File "/home/ssadasiv/software/petsc/bin/pythonscripts/petsc_gen_xdmf.py", line 220, in <module>
    generateXdmf(sys.argv[1])
  File "/home/ssadasiv/software/petsc/bin/pythonscripts/petsc_gen_xdmf.py", line 208, in generateXdmf
    time        = np.array(h5['time']).flatten()
  File "/usr/lib/python2.7/dist-packages/h5py/_hl/group.py", line 153, in __getitem__
    oid = h5o.open(self.id, self._e(name), lapl=self._lapl)
  File "h5o.pyx", line 173, in h5py.h5o.open (h5py/h5o.c:3403)
KeyError: "unable to open object (Symbol table: Can't open object)"

I am not sure if the error is on my end. This is on Ubuntu 14.04 with the serial version of hdf5. I built petsc with --download-hdf5, is it necessary to use the same version of hdf5 to generate the xdmf file? 

Thanks
Subramanya 
 		 	   		  
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.mcs.anl.gov/pipermail/petsc-users/attachments/20140924/68f225e8/attachment.html>