Reference documentation for deal.II version Git 7edbc71 20170725 01:57:43 0600

Most people create finite element (and, potentially, mapping) objects once but then never actually call any member functions on them – they simply use them for assembly via the FEValues interface. The only other interaction most will have is by reading the FiniteElementData::dofs_per_cell variable, but that is also just set during construction time. In other words, people never observe FiniteElement or Mapping objects actually do anything – and that is completely by design.
This document is therefore for those who are interested in writing finite element or mapping classes and want to understand how FEValues works and interacts with the FiniteElement and Mapping classes. In the following, we will not make a distinction between FEValues (which acts on cells), FEFaceValues (which acts on faces), and FESubfaceValues (which acts on the children of a face of a cell) as they conceptually all work the same. Consequently, the term "FEValues" will be used generally for all three of these classes in the text below.
Before going into detail about data and control flow, let us define which class is responsible for providing what kind of information.
FEValues is an abstraction that derived from the observation that almost everything one ever does in finite element codes only requires the evaluation of finite element shape functions at quadrature points. This could be, for example, the approximation of an integral of the form
\[ A^K_{ij} = \int_K \nabla \varphi_i(\bf x) \cdot \nabla \varphi_j(\bf x) \; dx \]
by quadrature
\[ A^K_{ij} = \sum_q \nabla \varphi_i(\bf x_q) \cdot \nabla \varphi_j(\bf x_q) \; \text{det}\; J(\bf x_q) w_q, \]
but it is equally valid when wanting to generate graphical output: there we only need to know the values of a finite element field at the vertices of a mesh, and this too can be written as evaluating everything at quadrature points – these quadrature points are then simply the vertices of the cells (provided, for example, by QTrapez).
FEValues' role is to provide a user the values of shape functions, their gradients, etc, at quadrature points. The same is true with some geometric information, e.g., the normal vectors at the quadrature points. To this end, it provides a large number of member functions in the FEValuesBase base class that allow a user to query basically everything one can ask for in regard to shape functions and geometry information, but only at the quadrature points for which the FEValues object was initialized.
FEValues does not actually compute this information itself. It really only provides a place to store it, and then orchestrates the interaction between mapping and finite element classes to have them compute what is requested and store the result in the locations provided by FEValues.
As a final note, recall that FEValues can provide an incredible array of information, but that almost all of it is not necessary in any given context. For example, to compute the integral above, it is not necessary to know the second derivatives of the shape functions, or to know the normal vectors at quadrature points. To this end, FEValues uses UpdateFlags in its interactions with the Mapping and FiniteElement class to determine what actually needs to be computed. This is discussed in slightly more detail in The interplay of UpdateFlags, Mapping, and FiniteElement in FEValues.
Mappings (i.e., classes derived from the Mapping base class) are responsible for everything that has to do with the mapping from the reference (unit) cell \([0,1]^\text{dim}\) to each of the actual cells \(K\subset{\mathbb R}^\text{spacedim}\). This is facilitated by a mapping function \(\mathbf F_K:[0,1]^\text{dim} \mapsto K\). The mapping classes therefore implement interfaces that allow evaluating \(\mathbf F_K\) to map forward points \(\hat{\mathbf x}\) from the reference cell to \(K\), and to map backward from the real cell to the reference cell using \(\mathbf F_K^{1}\). Other common operations that mappings provide is to map vectors (which you can think of as vectors attached to a point \(\hat{\mathbf x}\) on the reference cell and pointing in certain directions) to their equivalent vectors on the real cell. This is, for example, what one needs to do for the gradients of shape functions: these are vectors defined on the reference cell, and we need to map these gradients to the real cell \(K\). Similar operations can also be defined for matrices (tensors of rank 2, as opposed to vectors which are tensors of rank 1) and higher order tensors.
Many of these mappings do not only need the map \(\mathbf F_K\) itself, but also the gradients of this mapping, typically referred to as the Jacobian \(J_K=\hat\nabla \mathbf F_K\), as well as higher derivatives.
Since FEValues only ever needs to evaluate these things at quadrature points, mappings do not in general need to provide the ability to evaluate at arbitrary points. Rather, as we will see below, they will be initialized to use a set of quadrature points defined on the reference cell, will then be "reinitialized" for a particular cell, and all further operations will then only require the evaluation of \(\mathbf F_K\) at these quadrature points on the real cell.
The mapping classes then have the dual role to (i) compute geometric information (e.g., the normal vectors, determinants of the Jacobians, etc) and putting them into the data structures from which FEValues can provide them to the user, and (ii) to provide the support finite elements need to map shape functions and their derivatives from the reference cell to the real cell.
Finite element classes (i.e., classes derived from FiniteElement) are responsible for defining their shape functions, derivatives, and many other aspects on the reference cell, but also for computing the mapped values and derivatives on actual cells (obviously with the help of a mapping object). For the current discussion, only the latter role is important.
As with mappings, all that is important for us here is that the finite element classes can provide this information at given quadrature points, and that they can put the computed information into structures provided by FEValues and from which FEValues member functions can then pass it on to the user through the member functions in FEValuesBase.
Let's say a user wants to compute the gradients of shape functions, for example to compute the integral above. Then she would initialize an FEValues object by giving the update_gradients flag (as is done in basically every tutorial program, starting with step3). What this indicates is that the user expects the FEValues object to be able to provide the gradients of shape functions on the real cell, but expressed no expectation of any other information.
FEValues will then first have to find out what the mapping and finite element objects actually require of each other to make this happen. This already happens at the time the FEValues constructor is run. Because the mapping does not depend on the finite element (though the latter does depend on the former), FEValues first asks the finite element via FiniteElement::requires_update_flags() which other pieces of information it also requires to make the user request happen. As an example, if the finite element were of type FE_Q, then it would determine that in order to compute the gradients of the shape functions on the real cell \(K\), it will need to compute the gradients of the shape functions on the reference cell (something it can do on its own, without any external help) but that these reference gradients will then have to be multiplied by the inverse of the Jacobian of the mapping, \(J^{1}_K\), at each of the quadrature points. This multiplication is typically referred to as a covariant transformation, and so FE_Q's implementation of FiniteElement::requires_update_flags() function (provided in the intermediate class FE_Poly) will return both the original update_gradients flag as well as update_covariant_transformation.
In a second step, the FEValues object will then call the corresponding function in the mapping, Mapping::requires_update_flags() to determine what is required to provide both update_gradients and update_covariant_transformation. The former is not within the realm of the mapping, so is ignored. The latter will typically require the computation of the Jacobian matrix \(J_K\) first, which a typical mapping class will indicate by adding update_contravariant_transformation to the list.
At this point, the FEValues object has found out the complete set of flags indicating what everyone has to compute to satisfy the user request. The next step, still during the construction of the FEValues object, stems from the realization that many things could be precomputed once and then reused every time we move to a real cell. An example would be the fact that to compute the gradients of the shape functions on the real cell, we need to know the gradients of the shape functions on the reference cell (at the quadrature points on the reference cell) and that these will always be the same: every time we visit a new cell, these values will remain the same, so it would be inefficient to recompute them every time. Similar arguments can be made for some of the information computed by some of the mapping classes.
The FEValues object therefore initializes both the mapping and the finite element object it points to, using both the quadrature object and the final set of update flags computed as described in the previous section. This initialization involves precomputing as much as these classes can already precompute given the set of update flags, and then storing this information for later use.
The question then arises: where to store this information. In practice, we do not want to store this information in the mapping or finite element object itself, because this would mean that (i) only one FEValues object could use any given mapping or finite element object at a time, and (ii) that these objects could not be used in a multithreaded context.
Rather, the approach works like this:
FEValues calls Mapping::get_data() (and FEFaceValues calls Mapping::get_face_data(), and FESubfaceValues calls Mapping::get_subface_data()) with the quadrature object and the final set of update flags. The implementation of these functions in the classes derived from Mapping will then allocate an object of a type derived from Mapping::InternalDataBase where they can store essentially whatever it is they find useful for later reuse. Mapping::InternalDataBase itself does not actually provide any member variables of significance, but it is really left to derived classes what they think they can usefully precompute and store already at this time. If a mapping has nothing to precompute (or the author of the mapping class is lazy and does not want to think about what could possibly be precomputed), then such a class would simply derive its own InternalData object from Mapping::InternalDataBase without actually adding any member variables.
The object so produced is then returned to the calling site in FEValues and stored by the FEValues object. It will be handed back every time later on the FEValues object wants any information from the mapping, thereby providing the mapping object the ability to read the data it had previously stored.
This approach allows us to use finite element and mapping objects from multiple FEValues objects at the same time, and possibly from multiple threads at the same time. The point is simply that every user of a finite element or mapping object would hold their own, unique, object returned from the get_data()
functions, and that everything that ever happens happens on these objects, rather than on the member variables of the mapping or finite element object itself.
All of the previous steps happened at the time the FEValues object was created. Up to this point, all we did was set up data structures, but nothing useful has been computed so far from the perspective of the user. This only happens when FEValues::reinit() is called on a concrete cell \(K\).
The things FEValues then does are, in this order:
Finally, FEValues::reinit() calls FiniteElement::fill_fe_values() (and, obviously, FEFaceValues calls FiniteElement::fill_fe_face_values() and FESubfaceValues calls FiniteElement::fill_fe_subface_values()). The arguments to this function include the cell (or face, or subface) which we are asked to visit, as well as the cell similarity argument from above, a reference to the object we had previously obtained from FiniteElement::get_data(), and a reference to an object of type internal::FEValues::MappingRelatedData into which the mapping is supposed to write its results.
In addition to these, the FiniteElement::fill_fe_values() function also receives references to the mapping object in use, as well as the Mapping::InternalDataBase object we had previously received from Mapping::get_data(). The reason is that typically, the finite element wants to map values or gradients of shape functions from the reference cell to the actual cell, and these mappings are facilitated by the various Mapping::transform() functions – which all require a reference to the internal object that the FEValues object had previously acquired from the mapping. This is probably best understood by looking at actual code, and a simple yet instructive example can be found in FE_Poly::fill_fe_values(), a function that works on general scalar, polynomial finite element bases.
As with the mapping, the FiniteElement::fill_fe_values() functions then use whatever information they had previously computed upon construction of the FEValues object (i.e., when it called FiniteElement::get_data()), and use this and the functions in the mapping to compute whatever was requested as specified by the update flags.
This all done, we are finally in a position to offer the owner of the FEValues access to the fields originally requested via the update flags.