Nico Schlömer just introduced MED support into his meshio tool, based on my issue request. When I convert blockcylinder-50.exo directly to the MED format with meshio, the result can be loaded into GMSH and looks reasonable. But DMPlexCreateMedFromFile denies to open it with the following error:
_MEDmeshAdvancedRd236.c [285] : Erreur de valeur invalide du filtre _MEDmeshAdvancedRd236.c [285] : _MEDmeshAdvancedRd236.c [286] : geotype = 0 _MEDmeshAdvancedRd236.c [286] : meshname = "mesh0" _MEDmeshAdvancedRd236.c [286] : _datagroupname2 = "NOE" _MEDmeshAdvancedRd236.c [287] : (*_filter).storagemode = 2 [0]PETSC ERROR: #1 DMPlexCreateMedFromFile() line 86 in /scratch/petsc-dev/src/dm/impls/plex/plexmed.c [0]PETSC ERROR: #2 DMPlexCreateFromFile() line 2815 in /scratch/petsc-dev/src/dm/impls/plex/plexcreate.c [0]PETSC ERROR: #3 main() line 38 in /scratch/petsc-dev/src/dm/impls/plex/examples/tutorials/ex5.c Can you see whether it's a bug in DMPlexCreateMedFromFile or the MED file is broken? Thanks Vaclav > 5. 11. 2017 v 18:48, Matthew Knepley <[email protected]>: > > On Thu, Nov 2, 2017 at 12:08 PM, Vaclav Hapla <[email protected] > <mailto:[email protected]>> wrote: > It seems that DMPlexCreateMedFromFile leaves out some mesh elements. I found > it out when investigating why ParMetis redistribution crashes. > > I attach the datafile > $PETSC_DIR/share/petsc/datafiles/meshes/blockcylinder-50.exo converted to > GMSH and MED format. > The conversion EXO to GMSH was done by meshio (github.com/nschloe/meshio > <http://github.com/nschloe/meshio>), and GMSH to MED by GMSH itself. > > I did: > > cd $PETSC_DIR/src/dm/impls/plex/examples/tutorials > make ex5 > FILE=blockcylinder-50.exo && ./ex5 -filename $FILE -dm_view hdf5:$FILE.h5 && > $PETSC_DIR/bin/petsc_gen_xdmf.py $FILE.h5 > FILE=blockcylinder-50.msh && ./ex5 -filename $FILE -dm_view hdf5:$FILE.h5 && > $PETSC_DIR/bin/petsc_gen_xdmf.py $FILE.h5 > FILE=blockcylinder-50.med && ./ex5 -filename $FILE -dm_view hdf5:$FILE.h5 && > $PETSC_DIR/bin/petsc_gen_xdmf.py $FILE.h5 > > While the output from blockcylinder-50.exo and blockcylinder-50.msh looks OK, > that from blockcylinder-50.med is corrupted. > > I also attach my HDF5/XDMF outputs and screenshots from ParaView. > > It appears that MED, at least coming from GMsh, inverts hexes just like GMsh > does. I have fixed this in branch > > knepley/fix-plex-med-orientation > > If you run your test in this, everything should be fine. > > Michael, can you check whether this is a general fix, or it only applied to > MED from GMsh? > > Thanks, > > Matt > > > Vaclav > > > > > > > > > > > -- > 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 > > https://www.cse.buffalo.edu/~knepley/ <http://www.caam.rice.edu/~mk51/>
