HDF5 Integration

[daniellivingston]

Export HDF5 file in the following format:

  out = h5py.File(h5_out,'w')
  out.create_dataset("Domain/Cells/Centers", data=cell_centers)
  out.create_dataset("Domain/Cells/Volumes", data=cell_volumes)
  out.create_dataset("Domain/Connections/Centers", data=face_centers)
  out.create_dataset("Domain/Connections/Cell Ids", data=face_connections)
  out.create_dataset("Domain/Connections/Areas", data=face_areas)
  out.close()

Should be parity with the PFLOTRAN conversion script.