[petsc-users] petsc_gen_xdmf.py errors

[Justin Chang]

Fande,

Your sol.h5 is old and outdated. If you generate a more recent sol.h5 with
the following SNES example inside your PETSC_DIR:

./src/snes/examples/tutorial/ex12 -run_type test -refinement_limit 0.0
-bc_type dirichlet -interpolate 1 -petscspace_order 1 -dm_view hdf5:sol.h5
-vec_view hdf5:sol.h5::append
./bin/petsc_gen_xdmf.py sol.h5

the resulting sol.xmf is compatible with Paraview

Thanks,
Justin


On Tue, Aug 11, 2015 at 8:53 PM, Fande Kong <fdkong.jd at gmail.com> wrote:

> Hi all,
>
> I tried to use petsc_gen_xdmf.py to generate a xml file for visulaztion
> using paraview. I got the following errors:
>
> ./petsc_gen_xdmf.py sol.h5
> Traceback (most recent call last):
>   File "./petsc_gen_xdmf.py", line 236, in <module>
>     generateXdmf(sys.argv[1])
>   File "./petsc_gen_xdmf.py", line 231, in generateXdmf
>     Xdmf(xdmfFilename).write(hdfFilename, topoPath, numCells, numCorners,
> cellDim, geomPath, numVertices, spaceDim, time, vfields, cfields)
>   File "./petsc_gen_xdmf.py", line 190, in write
>     for vf in vfields: self.writeField(fp, len(time), t, cellDim,
> spaceDim, '/vertex_fields/'+vf[0], vf, 'Node')
>   File "./petsc_gen_xdmf.py", line 164, in writeField
>     self.writeFieldComponents(fp, numSteps, timestep, spaceDim, name, f,
> domain)
>   File "./petsc_gen_xdmf.py", line 120, in writeFieldComponents
>     dims   = '1 %d 1' % (numSteps, dof, bs)
> TypeError: not all arguments converted during string formatting
>
>
> The hdf5 file is attached. Originally from Matthew. Configuration and make
> log files are also attached.
>
> Fande Kong,
>
> Thanks,
>
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