dof_manager.hh
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dof_manager.hh
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	/**
	* @file dof_manager.hh
	*
	* @author Nicolas Richart <nicolas.richart@epfl.ch>
	*
	* @date creation: Tue Aug 18 2015
	* @date last modification: Wed Feb 21 2018
	*
	* @brief Class handling the different types of dofs
	*
	* @section LICENSE
	*
	* Copyright (©) 2015-2018 EPFL (Ecole Polytechnique Fédérale de Lausanne)
	* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
	*
	* Akantu is free software: you can redistribute it and/or modify it under the
	* terms of the GNU Lesser General Public License as published by the Free
	* Software Foundation, either version 3 of the License, or (at your option) any
	* later version.
	*
	* Akantu is distributed in the hope that it will be useful, but WITHOUT ANY
	* WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR
	* A PARTICULAR PURPOSE. See the GNU Lesser General Public License for more
	* details.
	*
	* You should have received a copy of the GNU Lesser General Public License
	* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
	*
	*/

	/* -------------------------------------------------------------------------- */
	#include "aka_factory.hh"
	#include "aka_memory.hh"
	#include "mesh.hh"
	/* -------------------------------------------------------------------------- */
	#include <map>
	#include <set>
	/* -------------------------------------------------------------------------- */

	#ifndef __AKANTU_DOF_MANAGER_HH__
	#define __AKANTU_DOF_MANAGER_HH__

	namespace akantu {
	class TermsToAssemble;
	class NonLinearSolver;
	class TimeStepSolver;
	class SparseMatrix;
	} // namespace akantu

	namespace akantu {

	class DOFManager : protected Memory, protected MeshEventHandler {
	/* ------------------------------------------------------------------------ */
	/* Constructors/Destructors */
	/* ------------------------------------------------------------------------ */
	public:
	DOFManager(const ID & id = "dof_manager", const MemoryID & memory_id = 0);
	DOFManager(Mesh & mesh, const ID & id = "dof_manager",
	const MemoryID & memory_id = 0);
	~DOFManager() override;

	/* ------------------------------------------------------------------------ */
	/* Methods */
	/* ------------------------------------------------------------------------ */
	private:
	/// common function to help registering dofs
	void registerDOFsInternal(const ID & dof_id, Array<Real> & dofs_array);

	public:
	/// register an array of degree of freedom
	virtual void registerDOFs(const ID & dof_id, Array<Real> & dofs_array,
	const DOFSupportType & support_type);

	/// the dof as an implied type of _dst_nodal and is defined only on a subset
	/// of nodes
	virtual void registerDOFs(const ID & dof_id, Array<Real> & dofs_array,
	const ID & group_support);

	/// register an array of previous values of the degree of freedom
	virtual void registerDOFsPrevious(const ID & dof_id,
	Array<Real> & dofs_array);

	/// register an array of increment of degree of freedom
	virtual void registerDOFsIncrement(const ID & dof_id,
	Array<Real> & dofs_array);

	/// register an array of derivatives for a particular dof array
	virtual void registerDOFsDerivative(const ID & dof_id, UInt order,
	Array<Real> & dofs_derivative);

	/// register array representing the blocked degree of freedoms
	virtual void registerBlockedDOFs(const ID & dof_id,
	Array<bool> & blocked_dofs);

	/// Assemble an array to the global residual array
	virtual void assembleToResidual(const ID & dof_id,
	const Array<Real> & array_to_assemble,
	Real scale_factor = 1.) = 0;

	/// Assemble an array to the global lumped matrix array
	virtual void assembleToLumpedMatrix(const ID & dof_id,
	const Array<Real> & array_to_assemble,
	const ID & lumped_mtx,
	Real scale_factor = 1.) = 0;

	/**
	* Assemble elementary values to a local array of the size nb_nodes *
	* nb_dof_per_node. The dof number is implicitly considered as
	* conn(el, n) * nb_nodes_per_element + d.
	* With 0 < n < nb_nodes_per_element and 0 < d < nb_dof_per_node
	**/
	virtual void assembleElementalArrayLocalArray(
	const Array<Real> & elementary_vect, Array<Real> & array_assembeled,
	const ElementType & type, const GhostType & ghost_type,
	Real scale_factor = 1.,
	const Array<UInt> & filter_elements = empty_filter);

	/**
	* Assemble elementary values to the global residual array. The dof number is
	* implicitly considered as conn(el, n) * nb_nodes_per_element + d.
	* With 0 < n < nb_nodes_per_element and 0 < d < nb_dof_per_node
	**/
	virtual void assembleElementalArrayToResidual(
	const ID & dof_id, const Array<Real> & elementary_vect,
	const ElementType & type, const GhostType & ghost_type,
	Real scale_factor = 1.,
	const Array<UInt> & filter_elements = empty_filter);

	/**
	* Assemble elementary values to a global array corresponding to a lumped
	* matrix
	*/
	virtual void assembleElementalArrayToLumpedMatrix(
	const ID & dof_id, const Array<Real> & elementary_vect,
	const ID & lumped_mtx, const ElementType & type,
	const GhostType & ghost_type, Real scale_factor = 1.,
	const Array<UInt> & filter_elements = empty_filter);

	/**
	* Assemble elementary values to the global residual array. The dof number is
	* implicitly considered as conn(el, n) * nb_nodes_per_element + d. With 0 <
	* n < nb_nodes_per_element and 0 < d < nb_dof_per_node
	**/
	virtual void assembleElementalMatricesToMatrix(
	const ID & matrix_id, const ID & dof_id,
	const Array<Real> & elementary_mat, const ElementType & type,
	const GhostType & ghost_type = _not_ghost,
	const MatrixType & elemental_matrix_type = _symmetric,
	const Array<UInt> & filter_elements = empty_filter) = 0;

	/// multiply a vector by a matrix and assemble the result to the residual
	virtual void assembleMatMulVectToResidual(const ID & dof_id, const ID & A_id,
	const Array<Real> & x,
	Real scale_factor = 1) = 0;

	/// multiply the dofs by a matrix and assemble the result to the residual
	virtual void assembleMatMulDOFsToResidual(const ID & A_id,
	Real scale_factor = 1);

	/// multiply a vector by a lumped matrix and assemble the result to the
	/// residual
	virtual void assembleLumpedMatMulVectToResidual(const ID & dof_id,
	const ID & A_id,
	const Array<Real> & x,
	Real scale_factor = 1) = 0;

	/// assemble coupling terms between to dofs
	virtual void assemblePreassembledMatrix(const ID & dof_id_m,
	const ID & dof_id_n,
	const ID & matrix_id,
	const TermsToAssemble & terms) = 0;

	/// sets the residual to 0
	virtual void clearResidual() = 0;
	/// sets the matrix to 0
	virtual void clearMatrix(const ID & mtx) = 0;
	/// sets the lumped matrix to 0
	virtual void clearLumpedMatrix(const ID & mtx) = 0;

	/// splits the solution storage from a global view to the per dof storages
	void splitSolutionPerDOFs();

	/// extract a lumped matrix part corresponding to a given dof
	virtual void getLumpedMatrixPerDOFs(const ID & dof_id, const ID & lumped_mtx,
	Array<Real> & lumped) = 0;

	protected:
	/// minimum functionality to implement per derived version of the DOFManager
	/// to allow the splitSolutionPerDOFs function to work
	virtual void getSolutionPerDOFs(const ID & dof_id,
	Array<Real> & solution_array) = 0;

	protected:
	/* ------------------------------------------------------------------------ */
	/// register a matrix
	SparseMatrix & registerSparseMatrix(const ID & matrix_id,
	std::unique_ptr<SparseMatrix> & matrix);

	/// register a non linear solver instantiated by a derived class
	NonLinearSolver &
	registerNonLinearSolver(const ID & non_linear_solver_id,
	std::unique_ptr<NonLinearSolver> & non_linear_solver);

	/// register a time step solver instantiated by a derived class
	TimeStepSolver &
	registerTimeStepSolver(const ID & time_step_solver_id,
	std::unique_ptr<TimeStepSolver> & time_step_solver);

	/* ------------------------------------------------------------------------ */
	/* Accessors */
	/* ------------------------------------------------------------------------ */
	public:
	/// Get the equation numbers corresponding to a dof_id. This might be used to
	/// access the matrix.
	inline const Array<UInt> & getEquationsNumbers(const ID & dof_id) const;

	/// Global number of dofs
	AKANTU_GET_MACRO(SystemSize, this->system_size, UInt);

	/// Local number of dofs
	AKANTU_GET_MACRO(LocalSystemSize, this->local_system_size, UInt);

	/// Retrieve all the registered DOFs
	std::vector<ID> getDOFIDs() const;

	/* ------------------------------------------------------------------------ */
	/* DOFs and derivatives accessors */
	/* ------------------------------------------------------------------------ */
	/// Get a reference to the registered dof array for a given id
	inline Array<Real> & getDOFs(const ID & dofs_id);

	/// Get the support type of a given dof
	inline DOFSupportType getSupportType(const ID & dofs_id) const;

	/// are the dofs registered
	inline bool hasDOFs(const ID & dofs_id) const;

	/// Get a reference to the registered dof derivatives array for a given id
	inline Array<Real> & getDOFsDerivatives(const ID & dofs_id, UInt order);

	/// Does the dof has derivatives
	inline bool hasDOFsDerivatives(const ID & dofs_id, UInt order) const;

	/// Get a reference to the blocked dofs array registered for the given id
	inline const Array<bool> & getBlockedDOFs(const ID & dofs_id) const;

	/// Does the dof has a blocked array
	inline bool hasBlockedDOFs(const ID & dofs_id) const;

	/// Get a reference to the registered dof increment array for a given id
	inline Array<Real> & getDOFsIncrement(const ID & dofs_id);

	/// Does the dof has a increment array
	inline bool hasDOFsIncrement(const ID & dofs_id) const;

	/// Does the dof has a previous array
	inline Array<Real> & getPreviousDOFs(const ID & dofs_id);

	/// Get a reference to the registered dof array for previous step values a
	/// given id
	inline bool hasPreviousDOFs(const ID & dofs_id) const;

	/// saves the values from dofs to previous dofs
	virtual void savePreviousDOFs(const ID & dofs_id);

	/// Get a reference to the solution array registered for the given id
	inline const Array<Real> & getSolution(const ID & dofs_id) const;

	/// Get a reference to the solution array registered for the given id
	inline Array<Real> & getSolution(const ID & dofs_id);

	/* ------------------------------------------------------------------------ */
	/* Matrices accessors */
	/* ------------------------------------------------------------------------ */
	/// Get an instance of a new SparseMatrix
	virtual SparseMatrix & getNewMatrix(const ID & matrix_id,
	const MatrixType & matrix_type) = 0;

	/// Get an instance of a new SparseMatrix as a copy of the SparseMatrix
	/// matrix_to_copy_id
	virtual SparseMatrix & getNewMatrix(const ID & matrix_id,
	const ID & matrix_to_copy_id) = 0;

	/// Get the reference of an existing matrix
	SparseMatrix & getMatrix(const ID & matrix_id);

	/// check if the given matrix exists
	bool hasMatrix(const ID & matrix_id) const;

	/// Get an instance of a new lumped matrix
	virtual Array<Real> & getNewLumpedMatrix(const ID & matrix_id);
	/// Get the lumped version of a given matrix
	const Array<Real> & getLumpedMatrix(const ID & matrix_id) const;
	/// Get the lumped version of a given matrix
	Array<Real> & getLumpedMatrix(const ID & matrix_id);

	/// check if the given matrix exists
	bool hasLumpedMatrix(const ID & matrix_id) const;

	/* ------------------------------------------------------------------------ */
	/* Non linear system solver */
	/* ------------------------------------------------------------------------ */
	/// Get instance of a non linear solver
	virtual NonLinearSolver & getNewNonLinearSolver(
	const ID & nls_solver_id,
	const NonLinearSolverType & _non_linear_solver_type) = 0;

	/// get instance of a non linear solver
	virtual NonLinearSolver & getNonLinearSolver(const ID & nls_solver_id);

	/// check if the given solver exists
	bool hasNonLinearSolver(const ID & solver_id) const;

	/* ------------------------------------------------------------------------ */
	/* Time-Step Solver */
	/* ------------------------------------------------------------------------ */
	/// Get instance of a time step solver
	virtual TimeStepSolver &
	getNewTimeStepSolver(const ID & time_step_solver_id,
	const TimeStepSolverType & type,
	NonLinearSolver & non_linear_solver) = 0;

	/// get instance of a time step solver
	virtual TimeStepSolver & getTimeStepSolver(const ID & time_step_solver_id);

	/// check if the given solver exists
	bool hasTimeStepSolver(const ID & solver_id) const;

	/* ------------------------------------------------------------------------ */
	const Mesh & getMesh() {
	if (mesh) {
	return *mesh;
	} else {
	AKANTU_EXCEPTION("No mesh registered in this dof manager");
	}
	}

	/* ------------------------------------------------------------------------ */
	AKANTU_GET_MACRO(Communicator, communicator, const auto &);
	AKANTU_GET_MACRO_NOT_CONST(Communicator, communicator, auto &);

	/* ------------------------------------------------------------------------ */
	/* MeshEventHandler interface */
	/* ------------------------------------------------------------------------ */
	protected:
	/// helper function for the DOFManager::onNodesAdded method
	virtual std::pair<UInt, UInt> updateNodalDOFs(const ID & dof_id,
	const Array<UInt> & nodes_list);

	public:
	/// function to implement to react on akantu::NewNodesEvent
	void onNodesAdded(const Array<UInt> & nodes_list,
	const NewNodesEvent & event) override;
	/// function to implement to react on akantu::RemovedNodesEvent
	void onNodesRemoved(const Array<UInt> & nodes_list,
	const Array<UInt> & new_numbering,
	const RemovedNodesEvent & event) override;
	/// function to implement to react on akantu::NewElementsEvent
	void onElementsAdded(const Array<Element> & elements_list,
	const NewElementsEvent & event) override;
	/// function to implement to react on akantu::RemovedElementsEvent
	void onElementsRemoved(const Array<Element> & elements_list,
	const ElementTypeMapArray<UInt> & new_numbering,
	const RemovedElementsEvent & event) override;
	/// function to implement to react on akantu::ChangedElementsEvent
	void onElementsChanged(const Array<Element> & old_elements_list,
	const Array<Element> & new_elements_list,
	const ElementTypeMapArray<UInt> & new_numbering,
	const ChangedElementsEvent & event) override;

	protected:
	struct DOFData;
	inline DOFData & getDOFData(const ID & dof_id);
	inline const DOFData & getDOFData(const ID & dof_id) const;
	template <class _DOFData>
	inline _DOFData & getDOFDataTyped(const ID & dof_id);
	template <class _DOFData>
	inline const _DOFData & getDOFDataTyped(const ID & dof_id) const;

	virtual DOFData & getNewDOFData(const ID & dof_id);

	/* ------------------------------------------------------------------------ */
	/* Class Members */
	/* ------------------------------------------------------------------------ */
	protected:
	/// dof representations in the dof manager
	struct DOFData {
	DOFData() = delete;
	explicit DOFData(const ID & dof_id);
	virtual ~DOFData();

	/// DOF support type (nodal, general) this is needed to determine how the
	/// dof are shared among processors
	DOFSupportType support_type;

	ID group_support;

	/// Degree of freedom array
	Array<Real> * dof;

	/// Blocked degree of freedoms array
	Array<bool> * blocked_dofs;

	/// Degree of freedoms increment
	Array<Real> * increment;

	/// Degree of freedoms at previous step
	Array<Real> * previous;

	/// Solution associated to the dof
	Array<Real> solution;

	/// local numbering equation numbers
	Array<UInt> local_equation_number;

	/* ---------------------------------------------------------------------- */
	/* data for dynamic simulations */
	/* ---------------------------------------------------------------------- */
	/// Degree of freedom derivatives arrays
	std::vector<Array<Real> *> dof_derivatives;
	};

	/// type to store dofs information
	using DOFStorage = std::map<ID, std::unique_ptr<DOFData>>;

	/// type to store all the matrices
	using SparseMatricesMap = std::map<ID, std::unique_ptr<SparseMatrix>>;

	/// type to store all the lumped matrices
	using LumpedMatricesMap = std::map<ID, std::unique_ptr<Array<Real>>>;

	/// type to store all the non linear solver
	using NonLinearSolversMap = std::map<ID, std::unique_ptr<NonLinearSolver>>;

	/// type to store all the time step solver
	using TimeStepSolversMap = std::map<ID, std::unique_ptr<TimeStepSolver>>;

	/// store a reference to the dof arrays
	DOFStorage dofs;

	/// list of sparse matrices that where created
	SparseMatricesMap matrices;

	/// list of lumped matrices
	LumpedMatricesMap lumped_matrices;

	/// non linear solvers storage
	NonLinearSolversMap non_linear_solvers;

	/// time step solvers storage
	TimeStepSolversMap time_step_solvers;

	/// reference to the underlying mesh
	Mesh * mesh{nullptr};

	/// Total number of degrees of freedom (size with the ghosts)
	UInt local_system_size{0};

	/// Number of purely local dofs (size without the ghosts)
	UInt pure_local_system_size{0};

	/// Total number of degrees of freedom
	UInt system_size{0};

	/// Communicator used for this manager, should be the same as in the mesh if a
	/// mesh is registered
	Communicator & communicator;
	};

	using DefaultDOFManagerFactory =
	Factory<DOFManager, ID, const ID &, const MemoryID &>;
	using DOFManagerFactory =
	Factory<DOFManager, ID, Mesh &, const ID &, const MemoryID &>;

	} // namespace akantu

	#include "dof_manager_inline_impl.cc"

	#endif /* __AKANTU_DOF_MANAGER_HH__ */

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