Reference documentation for deal.II version Git 803d21ff95 20201001 11:19:45 0600

#include <deal.II/grid/manifold_lib.h>
Public Types  
using  FaceVertexNormals = std::array< Tensor< 1, spacedim >, GeometryInfo< dim >::vertices_per_face > 
Public Member Functions  
TransfiniteInterpolationManifold ()  
virtual  ~TransfiniteInterpolationManifold () override 
virtual std::unique_ptr< Manifold< dim, spacedim > >  clone () const override 
void  initialize (const Triangulation< dim, spacedim > &triangulation) 
virtual Point< spacedim >  get_new_point (const ArrayView< const Point< spacedim >> &surrounding_points, const ArrayView< const double > &weights) const override 
virtual void  get_new_points (const ArrayView< const Point< spacedim >> &surrounding_points, const Table< 2, double > &weights, ArrayView< Point< spacedim >> new_points) const override 
template<>  
Point< 1 >  get_new_point_on_quad (const Triangulation< 1, 1 >::quad_iterator &) const 
template<>  
Point< 2 >  get_new_point_on_quad (const Triangulation< 1, 2 >::quad_iterator &) const 
template<>  
Point< 3 >  get_new_point_on_quad (const Triangulation< 1, 3 >::quad_iterator &) const 
template<>  
Point< 3 >  get_new_point_on_hex (const Triangulation< 3, 3 >::hex_iterator &hex) const 
template<>  
Point< 1 >  get_new_point_on_face (const Triangulation< 1, 1 >::face_iterator &) const 
template<>  
Point< 2 >  get_new_point_on_face (const Triangulation< 1, 2 >::face_iterator &) const 
template<>  
Point< 3 >  get_new_point_on_face (const Triangulation< 1, 3 >::face_iterator &) const 
template<>  
Tensor< 1, 2 >  normal_vector (const Triangulation< 2, 2 >::face_iterator &face, const Point< 2 > &p) const 
template<>  
Tensor< 1, 3 >  normal_vector (const Triangulation< 3, 3 >::face_iterator &face, const Point< 3 > &p) const 
template<>  
void  get_normals_at_vertices (const Triangulation< 2, 2 >::face_iterator &face, FaceVertexNormals &n) const 
template<>  
void  get_normals_at_vertices (const Triangulation< 3, 3 >::face_iterator &face, FaceVertexNormals &n) const 
template<class Archive >  
void  serialize (Archive &ar, const unsigned int version) 
Computing the location of points.  
virtual Point< spacedim >  get_intermediate_point (const Point< spacedim > &p1, const Point< spacedim > &p2, const double w) const 
virtual Point< spacedim >  project_to_manifold (const ArrayView< const Point< spacedim >> &surrounding_points, const Point< spacedim > &candidate) const 
virtual Point< spacedim >  get_new_point_on_line (const typename Triangulation< dim, spacedim >::line_iterator &line) const 
virtual Point< spacedim >  get_new_point_on_quad (const typename Triangulation< dim, spacedim >::quad_iterator &quad) const 
virtual Point< spacedim >  get_new_point_on_hex (const typename Triangulation< dim, spacedim >::hex_iterator &hex) const 
Point< spacedim >  get_new_point_on_face (const typename Triangulation< dim, spacedim >::face_iterator &face) const 
Point< spacedim >  get_new_point_on_cell (const typename Triangulation< dim, spacedim >::cell_iterator &cell) const 
Computing tangent vectors  
virtual Tensor< 1, spacedim >  get_tangent_vector (const Point< spacedim > &x1, const Point< spacedim > &x2) const 
Computing normal vectors  
virtual Tensor< 1, spacedim >  normal_vector (const typename Triangulation< dim, spacedim >::face_iterator &face, const Point< spacedim > &p) const 
virtual void  get_normals_at_vertices (const typename Triangulation< dim, spacedim >::face_iterator &face, FaceVertexNormals &face_vertex_normals) const 
Subscriptor functionality  
Classes derived from Subscriptor provide a facility to subscribe to this object. This is mostly used by the SmartPointer class.  
void  subscribe (std::atomic< bool > *const validity, const std::string &identifier="") const 
void  unsubscribe (std::atomic< bool > *const validity, const std::string &identifier="") const 
unsigned int  n_subscriptions () const 
template<typename StreamType >  
void  list_subscribers (StreamType &stream) const 
void  list_subscribers () const 
Static Public Member Functions  
static ::ExceptionBase &  ExcInUse (int arg1, std::string arg2, std::string arg3) 
static ::ExceptionBase &  ExcNoSubscriber (std::string arg1, std::string arg2) 
Private Member Functions  
std::array< unsigned int, 20 >  get_possible_cells_around_points (const ArrayView< const Point< spacedim >> &surrounding_points) const 
Triangulation< dim, spacedim >::cell_iterator  compute_chart_points (const ArrayView< const Point< spacedim >> &surrounding_points, ArrayView< Point< dim >> chart_points) const 
Point< dim >  pull_back (const typename Triangulation< dim, spacedim >::cell_iterator &cell, const Point< spacedim > &p, const Point< dim > &initial_guess) const 
Point< spacedim >  push_forward (const typename Triangulation< dim, spacedim >::cell_iterator &cell, const Point< dim > &chart_point) const 
DerivativeForm< 1, dim, spacedim >  push_forward_gradient (const typename Triangulation< dim, spacedim >::cell_iterator &cell, const Point< dim > &chart_point, const Point< spacedim > &pushed_forward_chart_point) const 
Private Attributes  
const Triangulation< dim, spacedim > *  triangulation 
int  level_coarse 
std::vector< bool >  coarse_cell_is_flat 
FlatManifold< dim >  chart_manifold 
boost::signals2::connection  clear_signal 
A mapping class that extends curved boundary descriptions into the interior of the computational domain. The outer curved boundary description is assumed to be given by another manifold (e.g. a polar manifold on a circle). The mechanism to extend the boundary information is a socalled transfinite interpolation. The use of this class is discussed extensively in step65.
The formula for extending such a description in 2D is, for example, described on Wikipedia. Given a point \((u,v)\) on the chart, the image of this point in real space is given by
\begin{align*} \mathbf S(u,v) &= (1v)\mathbf c_0(u)+v \mathbf c_1(u) + (1u)\mathbf c_2(v) + u \mathbf c_3(v) \\ &\quad  \left[(1u)(1v) \mathbf x_0 + u(1v) \mathbf x_1 + (1u)v \mathbf x_2 + uv \mathbf x_3 \right] \end{align*}
where \(\bf x_0, \bf x_1, \bf x_2, \bf x_3\) denote the four bounding vertices bounding the image space and \(\bf c_0, \bf c_1, \bf c_2, \bf c_3\) are the four curves describing the lines of the cell. If a curved manifold is attached to any of these lines, the evaluation is done according to Manifold::get_new_point() with the two end points of the line and appropriate weight. In 3D, the generalization of this formula is implemented, creating a weighted sum of the vertices (positive contribution), the lines (negative), and the faces (positive contribution).
This manifold is usually attached to a coarse mesh and then places new points as a combination of the descriptions on the boundaries, weighted appropriately according to the position of the point in the original chart coordinates \((u,v)\). This manifold should be preferred over setting only a curved manifold on the boundary of a mesh in most situations as it yields more uniform mesh distributions as the mesh is refined because it switches from a curved description to a straight description over all children of the initial coarse cell this manifold was attached to. This way, the curved nature of the manifold that is originally contained in one coarse mesh layer will be applied to more than one fine mesh layer once the mesh gets refined. Note that the mechanisms of TransfiniteInterpolationManifold are also built into the MappingQGeneric class when only a surface of a cell is subject to a curved description, ensuring that even the default case without this manifold gets optimal convergence rates when applying curved boundary descriptions.
If no curved boundaries surround a coarse cell, this class reduces to a flat manifold description.
To give an example of using this class, the following code attaches a transfinite manifold to a circle:
In this code, we first set all manifold ids to the id of the transfinite interpolation, and then reset the manifold ids on the boundary to identify the curved boundary described by the polar manifold. With this code, one gets a really nice mesh:
which is obviously much nicer than the polar manifold applied to just the boundary:
This manifold is used in a few GridGenerator functions, including GridGenerator::channel_with_cylinder.
In the implementation of this class, the manifolds surrounding a coarse cell are queried repeatedly to compute points on their interior. For optimal mesh quality, those manifolds should be compatible with a chart notion. For example, computing a point that is 0.25 along the line between two vertices using the weights 0.25 and 0.75 for the two vertices should give the same result as first computing the mid point at 0.5 and then again compute the midpoint between the first vertex and coarse mid point. This is the case for most of the manifold classes provided by deal.II, such as SphericalManifold or PolarManifold, but it might be violated by naive implementations. In case the quality of the manifold is not good enough, upon mesh refinement it may happen that the transformation to a chart inside the get_new_point() or get_new_points() methods produces points that are outside the unit cell. Then this class throws an exception of type Mapping::ExcTransformationFailed. In that case, the mesh should be refined before attaching this class, as done in the following example:
Definition at line 954 of file manifold_lib.h.

inherited 
Type keeping information about the normals at the vertices of a face of a cell. Thus, there are GeometryInfo<dim>::vertices_per_face
normal vectors, that define the tangent spaces of the boundary at the vertices. Note that the vectors stored in this object are not required to be normalized, nor to actually point outward, as one often will only want to check for orthogonality to define the tangent plane; if a function requires the normals to be normalized, then it must do so itself.
For obvious reasons, this type is not useful in 1d.
Definition at line 307 of file manifold.h.
TransfiniteInterpolationManifold< dim, spacedim >::TransfiniteInterpolationManifold  (  ) 
Constructor.
Definition at line 1640 of file manifold_lib.cc.

overridevirtual 
Destructor.
Definition at line 1651 of file manifold_lib.cc.

overridevirtual 
Make a clone of this Manifold object.
Implements Manifold< dim, spacedim >.
Definition at line 1661 of file manifold_lib.cc.
void TransfiniteInterpolationManifold< dim, spacedim >::initialize  (  const Triangulation< dim, spacedim > &  triangulation  ) 
Initializes the manifold with a coarse mesh. The prerequisite for using this class is that the input triangulation is uniformly refined and the manifold is later attached to the same triangulation.
Whenever the assignment of manifold ids changes on the level of the triangulation which this class was initialized with, initialize() must be called again to update the manifold ids connected to the coarse cells.
Definition at line 1673 of file manifold_lib.cc.

overridevirtual 
Return the point which shall become the new vertex surrounded by the given points surrounding_points
. weights
contains appropriate weights for the surrounding points according to which the manifold determines the new point's position.
The implementation in this class overrides the method in the base class and computes the new point by a transfinite interpolation. The first step in the implementation is to identify the coarse cell on which the surrounding points are located. Then, the coordinates are transformed to the unit coordinates on the coarse cell by a Newton iteration, where the new point is then computed according to the weights. Finally, it is pushed forward to the real space according to the transfinite interpolation.
Reimplemented from Manifold< dim, spacedim >.
Definition at line 2568 of file manifold_lib.cc.

overridevirtual 
Compute a new set of points that interpolate between the given points surrounding_points
. weights
is a table with as many columns as surrounding_points.size()
. The number of columns in weights
must match the length of new_points
.
The implementation in this class overrides the method in the base class and computes the new point by a transfinite interpolation. The first step in the implementation is to identify the coarse cell on which the surrounding points are located. Then, the coordinates are transformed to the unit coordinates on the coarse cell by a Newton iteration, where the new points are then computed according to the weights. Finally, the is pushed forward to the real space according to the transfinite interpolation.
The implementation does not allow for surrounding_points
and new_points
to point to the same vector, so make sure to pass different objects into the function.
Reimplemented from Manifold< dim, spacedim >.
Definition at line 2588 of file manifold_lib.cc.

private 
Internal function to identify the most suitable cells (=charts) where the given surrounding points are located. We use a cheap algorithm to identify the cells and rank the cells by probability before we actually do the search inside the relevant cells. The cells are sorted by the distance of a Q1 approximation of the inverse mapping to the unit cell of the surrounding points. We expect at most 20 cells (it should be up to 8 candidates on a 3D structured mesh and a bit more on unstructured ones, typically we only get two or three), so get an array with 20 entries of a the indices cell>index()
.
Definition at line 2222 of file manifold_lib.cc.

private 
Finalizes the identification of the correct chart and populates chart_points
with the pullbacks of the surrounding points. This method internally calls get_possible_cells_around_points()
.
Return an iterator to the cell on which the chart is defined.
Definition at line 2307 of file manifold_lib.cc.

private 
Pull back operation into the unit coordinates on the given coarse cell.
This method is currently based on a Newtonlike iteration to find the point in the origin. One may speed up the iteration by providing a good initial guess as the third argument. If no better point is known, use cell>real_to_unit_cell_affine_approximation(p)
Definition at line 2071 of file manifold_lib.cc.

private 
Push forward operation.
Definition at line 2021 of file manifold_lib.cc.

private 
Gradient of the push_forward method.
Definition at line 2042 of file manifold_lib.cc.

virtualinherited 
Return an intermediate point between two given points. Overloading this function allows the default pairwise reduction implementation of the method get_new_point() that takes a Quadrature object as input to work properly.
An implementation of this function should returns a parametric curve on the manifold, joining the points p1
and p2
, with parameter w
in the interval [0,1]. In particular get_intermediate_point(p1, p2, 0.0)
should return p1
and get_intermediate_point(p1, p2, 1.0)
should return p2
.
In its default implementation, this function calls the project_to_manifold() method with the convex combination of p1
and p2
. User classes can get away by simply implementing the project_to_manifold() method.
Reimplemented in ChartManifold< dim, spacedim, chartdim >, ChartManifold< dim, spacedim, 2 >, ChartManifold< dim, spacedim, 3 >, ChartManifold< dim_B, spacedim_B, chartdim_B >, ChartManifold< dim, spacedim, 1 >, ChartManifold< dim_A, spacedim_A, chartdim_A >, ChartManifold< dim1, intermediate_dim, chartdim >, ChartManifold< dim, spacedim, spacedim >, ChartManifold< dim2, spacedim, intermediate_dim >, ChartManifold< dim, dim, dim >, ChartManifold< dim, 3, 3 >, ChartManifold< dim, spacedim_A+spacedim_B, chartdim_A+chartdim_B >, and SphericalManifold< dim, spacedim >.
Definition at line 50 of file manifold.cc.

virtualinherited 
Given a point which lies close to the given manifold, it modifies it and projects it to manifold itself.
This class is used by the default implementation of the function get_new_point() and should be implemented by derived classes. The default implementation simply throws an exception if called.
If your manifold is simple, you could implement this function only, and the default behavior should work out of the box.
Reimplemented in FlatManifold< dim, spacedim >, FlatManifold< chartdim, chartdim >, OpenCASCADE::NormalToMeshProjectionManifold< dim, spacedim >, OpenCASCADE::DirectionalProjectionManifold< dim, spacedim >, and OpenCASCADE::NormalProjectionManifold< dim, spacedim >.
Definition at line 38 of file manifold.cc.

virtualinherited 
Backward compatibility interface. Return the point which shall become the new middle vertex of the two children of a regular line. In 2D, this line is a line at the boundary, while in 3d, it is bounding a face at the boundary (the lines therefore is also on the boundary).
The default implementation of this function passes its argument to the Manifolds::get_default_points_and_weights() function, and then calls the Manifold<dim,spacedim>::get_new_point() function. User derived classes can overload Manifold<dim,spacedim>::get_new_point() or Manifold<dim,spacedim>::project_to_manifold(), which is called by the default implementation of Manifold<dim,spacedim>::get_new_point().
Definition at line 316 of file manifold.cc.

virtualinherited 
Backward compatibility interface. Return the point which shall become the common point of the four children of a quad at the boundary in three or more spatial dimensions. This function therefore is only useful in at least three dimensions and should not be called for lower dimensions.
This function is called after the four lines bounding the given quad
are refined, so you may want to use the information provided by quad>line(i)>child(j)
, i=0...3
, j=0,1
.
The default implementation of this function passes its argument to the Manifolds::get_default_points_and_weights() function, and then calls the Manifold<dim,spacedim>::get_new_point() function. User derived classes can overload Manifold<dim,spacedim>::get_new_point() or Manifold<dim,spacedim>::project_to_manifold(), which is called by the default implementation of Manifold<dim,spacedim>::get_new_point().
Definition at line 330 of file manifold.cc.

inherited 
Definition at line 417 of file manifold.cc.

inherited 
Definition at line 428 of file manifold.cc.

inherited 
Definition at line 439 of file manifold.cc.

virtualinherited 
Backward compatibility interface. Return the point which shall become the common point of the eight children of a hex in three or spatial dimensions. This function therefore is only useful in at least three dimensions and should not be called for lower dimensions.
This function is called after the all the bounding objects of the given hex
are refined, so you may want to use the information provided by hex>quad(i)>line(j)>child(k)
, i=0...5
, j=0...3
, k=0,1
.
The default implementation of this function passes its argument to the Manifolds::get_default_points_and_weights() function, and then calls the Manifold<dim,spacedim>::get_new_point() function. User derived classes can overload Manifold<dim,spacedim>::get_new_point() or Manifold<dim,spacedim>::project_to_manifold(), which is called by the default implementation of Manifold<dim,spacedim>::get_new_point().
Definition at line 450 of file manifold.cc.

inherited 
Definition at line 461 of file manifold.cc.

inherited 
Backward compatibility interface. Depending on dim=2
or dim=3
this function calls the get_new_point_on_line or the get_new_point_on_quad function. It throws an exception for dim=1
. This wrapper allows dimension independent programming.
Definition at line 344 of file manifold.cc.

inherited 
Definition at line 384 of file manifold.cc.

inherited 
Definition at line 395 of file manifold.cc.

inherited 
Definition at line 406 of file manifold.cc.

inherited 
Backward compatibility interface. Depending on dim=1
, dim=2
or dim=3
this function calls the get_new_point_on_line, get_new_point_on_quad or the get_new_point_on_hex function. This wrapper allows dimension independent programming.
Definition at line 364 of file manifold.cc.

virtualinherited 
Return a vector that, at \(\mathbf x_1\), is tangential to the geodesic that connects two points \(\mathbf x_1,\mathbf x_2\). The geodesic is the shortest line between these two points, where "shortest" is defined via a metric specific to a particular implementation of this class in a derived class. For example, in the case of a FlatManifold, the shortest line between two points is just the straight line, and in this case the tangent vector is just the difference \(\mathbf d=\mathbf x_2\mathbf x_1\). On the other hand, for a manifold that describes a surface embedded in a higher dimensional space (e.g., the surface of a sphere), then the tangent vector is tangential to the surface, and consequently may point in a different direction than the straight line that connects the two points.
While tangent vectors are often normalized to unit length, the vectors returned by this function are normalized as described in the introduction of this class. Specifically, if \(\mathbf s(t)\) traces out the geodesic between the two points where \(\mathbf x_1 = \mathbf s(0)\) and \(\mathbf x_2 = \mathbf s(1)\), then the returned vector must equal \(\mathbf s'(0)\). In other words, the norm of the returned vector also encodes, in some sense, the length of the geodesic because a curve \(\mathbf s(t)\) must move "faster" if the two points it connects between arguments \(t=0\) and \(t=1\) are farther apart.
The default implementation of this function approximates \(\mathbf s'(0) \approx \frac{\mathbf s(\epsilon)\mathbf x_1}{\epsilon}\) for a small value of \(\epsilon\), and the evaluation of \(\mathbf s(\epsilon)\) is done by calling get_new_point(). If possible, derived classes should override this function by an implementation of the exact derivative.
x1  The first point that describes the geodesic, and the one at which the "direction" is to be evaluated. 
x2  The second point that describes the geodesic. 
Reimplemented in ChartManifold< dim, spacedim, chartdim >, ChartManifold< dim, spacedim, 2 >, ChartManifold< dim, spacedim, 3 >, ChartManifold< dim_B, spacedim_B, chartdim_B >, ChartManifold< dim, spacedim, 1 >, ChartManifold< dim_A, spacedim_A, chartdim_A >, ChartManifold< dim1, intermediate_dim, chartdim >, ChartManifold< dim, spacedim, spacedim >, ChartManifold< dim2, spacedim, intermediate_dim >, ChartManifold< dim, dim, dim >, ChartManifold< dim, 3, 3 >, ChartManifold< dim, spacedim_A+spacedim_B, chartdim_A+chartdim_B >, FlatManifold< dim, spacedim >, FlatManifold< chartdim, chartdim >, and SphericalManifold< dim, spacedim >.
Definition at line 475 of file manifold.cc.

virtualinherited 
Return the normal vector to a face embedded in this manifold, at the point p. If p is not in fact on the surface, but only closeby, try to return something reasonable, for example the normal vector at the surface point closest to p. (The point p will in fact not normally lie on the actual surface, but rather be a quadrature point mapped by some polynomial mapping; the mapped surface, however, will not usually coincide with the actual surface.)
This function only makes sense if dim==spacedim because otherwise there is no unique normal vector but in fact a (spacedimdim+1)dimensional tangent space of vectors that are all both normal to the face and normal to the dimdimensional surface that lives in spacedimdimensional space. For example, think of a twodimensional mesh that covers a twodimensional surface in threedimensional space. In that case, each face (edge) is onedimensional, and there are two linearly independent vectors that are both normal to the edge: one is normal to the edge and tangent to the surface (intuitively, that would be the one that points from the current cell to the neighboring one, if the surface was locally flat), and the other one is rooted in the edge but points perpendicular to the surface (which is also perpendicular to the edge that lives within the surface). Thus, because there are no obviously correct semantics for this function if spacedim is greater than dim, the function will simply throw an error in that situation.
The face iterator gives an indication which face this function is supposed to compute the normal vector for. This is useful if the boundary of the domain is composed of different nondifferential pieces (for example when using the FlatManifold class to approximate a geometry that is completely described by the coarse mesh, with piecewise (bi)linear components between the vertices, but where the boundary may have a kink at the vertices itself).
Reimplemented in FlatManifold< dim, spacedim >, FlatManifold< chartdim, chartdim >, SphericalManifold< dim, spacedim >, and PolarManifold< dim, spacedim >.
Definition at line 237 of file manifold.cc.

inherited 
Definition at line 143 of file manifold.cc.

inherited 
Definition at line 164 of file manifold.cc.

virtualinherited 
Compute the normal vectors to the boundary at each vertex of the given face embedded in the Manifold. It is not required that the normal vectors be normed somehow. Neither is it required that the normals actually point outward.
This function is needed to compute data for C1 mappings. The default implementation calls normal_vector() on each vertex.
Note that when computing normal vectors at a vertex where the boundary is not differentiable, you have to make sure that you compute the onesided limits, i.e. limit with respect to points inside the given face.
Definition at line 301 of file manifold.cc.

inherited 
Definition at line 249 of file manifold.cc.

inherited 
Definition at line 271 of file manifold.cc.

inherited 
Subscribes a user of the object by storing the pointer validity
. The subscriber may be identified by text supplied as identifier
.
Definition at line 136 of file subscriptor.cc.

inherited 
Unsubscribes a user from the object.
identifier
and the validity
pointer must be the same as the one supplied to subscribe(). Definition at line 156 of file subscriptor.cc.

inlineinherited 
Return the present number of subscriptions to this object. This allows to use this class for reference counted lifetime determination where the last one to unsubscribe also deletes the object.
Definition at line 300 of file subscriptor.h.

inlineinherited 
List the subscribers to the input stream
.
Definition at line 317 of file subscriptor.h.

inherited 
List the subscribers to deallog
.
Definition at line 204 of file subscriptor.cc.

inlineinherited 
Read or write the data of this object to or from a stream for the purpose of serialization.
This function does not actually serialize any of the member variables of this class. The reason is that what this class stores is only who subscribes to this object, but who does so at the time of storing the contents of this object does not necessarily have anything to do with who subscribes to the object when it is restored. Consequently, we do not want to overwrite the subscribers at the time of restoring, and then there is no reason to write the subscribers out in the first place.
Definition at line 309 of file subscriptor.h.

private 
The underlying triangulation.
Definition at line 1115 of file manifold_lib.h.

private 
The level of the mesh cells where the transfinite approximation is applied, usually level 0.
Definition at line 1121 of file manifold_lib.h.

private 
In case there all surrounding manifolds are the transfinite manifold or have default (invalid) manifold id, the manifold degenerates to a flat manifold and we can choose cheaper algorithms for the push_forward method.
Definition at line 1128 of file manifold_lib.h.

private 
A flat manifold used to compute new points in the chart space where we use a FlatManifold description.
Definition at line 1134 of file manifold_lib.h.

private 
The connection to Triangulation::signals::clear that must be reset once this class goes out of scope.
Definition at line 1140 of file manifold_lib.h.