Hi Aaditya,
on first look your implementation looks good to me. Does the same error
occur when you are using a standard `Triangulation` object instead of a
`parallel::distributed::Triangulation`?
As far as I know, the direction parameter does not matter for scalar fields
(see also step-45).
Would you mind sharing your source code?
Best,
Marc
On Saturday, December 5, 2020 at 10:12:00 PM UTC-7 aadit...@gmail.com wrote:
> Hi,
> I am trying to simulate a reaction-diffusion system containing two
> species on a square domain(structured mesh) with periodic boundary
> conditions enforced on the concentration fields on opposite edges. After
> testing my implementation on a single processor I obtain the following
> error message :
>
> *---------------------------------------------------------
>
> TimerOutput objects finalize timed values printed to the
>
> screen by communicating over MPI in their
> destructors.
> Since an exception is
> currently uncaught, this
>
> synchronization (and subsequent output) will be skipped
>
> to avoid a possible deadlock.
>
>
> ---------------------------------------------------------
>
>
>
>
>
>
> ----------------------------------------------------
>
> Exception on processing:
>
>
>
>
> --------------------------------------------------------
>
> An error occurred in line <2107> of file
> </home/aadi/dealii-9.2.0/source/grid/grid_tools_dof_handlers.cc> in
> function void
> dealii::GridTools::match_periodic_face_pairs(std::set<std::pair<CellIterator,
> unsigned int> >&, std::set<std::pair<typename
> dealii::identity<RangeType>::type, unsigned int> >&, int,
> std::vector<dealii::GridTools::PeriodicFacePair<CellIterator> >&, const
> dealii::Tensor<1, typename FaceIterator::AccessorType:: space_dimension>&,
> const dealii::FullMatrix<double>&) [with CellIterator =
> dealii::TriaIterator<dealii::CellAccessor<2, 2> >; typename
> dealii::identity<RangeType>::type =
> dealii::TriaIterator<dealii::CellAccessor<2, 2> >; typename
> FaceIterator::AccessorType = dealii::CellAccessor<2, 2>]
> The violated condition was:
>
> n_matches == pairs1.size()
> && pairs2.size() == 0
> Additional
> information:
>
> Unmatched faces on periodic boundaries
>
> --------------------------------------------------------
>
>
>
> Aborting! *
>
>
> *Additional Details* : The error message is associated with the
> *create_mesh()* method of the problem class whose implementation I have
> included below. The part highlighted in red is the cause of the error
> message :
>
> template <int dim>
> void Schnakenberg<dim>::create_mesh()
> {
> TimerOutput::Scope t(computing_timer, "setup");
>
> GridGenerator::hyper_cube(triangulation, min_coord, max_coord, true);
>
> std::vector<GridTools::PeriodicFacePair<
> typename parallel::distributed::Triangulation<dim>::cell_iterator>>
> periodicity_vector;
>
> GridTools::collect_periodic_faces(triangulation,
> 0,
> 1,
> 0,
> periodicity_vector);
> GridTools::collect_periodic_faces(triangulation,
> 2,
> 3,
> 0,
> periodicity_vector);
> triangulation.add_periodicity(periodicity_vector);
>
> triangulation.refine_global(refine_factor);
>
> }
>
> Also, I am curious as to what the '*direction*' argument in the
> *GridTools::collect_periodic_faces* function should be for a scalar
> solution field. I would appreciate some insight on this. Thank you.
>
> Best,
> Aaditya
>
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