dof_manager_default.hh
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dof_manager_default.hh
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	/**
	* @file dof_manager_default.hh
	*
	* @author Nicolas Richart <nicolas.richart@epfl.ch>
	*
	* @date Tue Aug 11 14:06:18 2015
	*
	* @brief Default implementation of the dof manager
	*
	* @section LICENSE
	*
	* Copyright (©) 2010-2011 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 "dof_manager.hh"
	/* -------------------------------------------------------------------------- */
	#include <unordered_map>
	#include <functional>
	/* -------------------------------------------------------------------------- */

	#ifndef __AKANTU_DOF_MANAGER_DEFAULT_HH__
	#define __AKANTU_DOF_MANAGER_DEFAULT_HH__

	namespace akantu {
	class SparseMatrixAIJ;
	class NonLinearSolverDefault;
	class TimeStepSolverDefault;
	class DOFSynchronizer;
	} // namespace akantu

	namespace akantu {

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

	protected:
	struct DOFDataDefault : public DOFData {
	explicit DOFDataDefault(const ID & dof_id);

	/// associated node for _dst_nodal dofs only
	Array<UInt> associated_nodes;
	};

	/* ------------------------------------------------------------------------ */
	/* Methods */
	/* ------------------------------------------------------------------------ */
	private:
	void registerDOFsInternal(const ID & dof_id, UInt nb_dofs,
	UInt nb_pure_local_dofs);

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

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

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

	/// Assemble an array to the global lumped matrix array
	void assembleToLumpedMatrix(const ID & dof_id,
	const Array<Real> & array_to_assemble,
	const ID & lumped_mtx,
	Real scale_factor = 1.) override;
	/**
	* Assemble elementary values to the global matrix. 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
	**/
	void assembleElementalMatricesToMatrix(
	const ID & matrix_id, const ID & dof_id,
	const Array<Real> & elementary_mat, const ElementType & type,
	const GhostType & ghost_type, const MatrixType & elemental_matrix_type,
	const Array<UInt> & filter_elements) override;

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

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

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

	protected:
	/// Assemble an array to the global residual array
	template <typename T>
	void assembleToGlobalArray(const ID & dof_id,
	const Array<T> & array_to_assemble,
	Array<T> & global_array, T scale_factor);

	public:
	/// clear the residual
	void clearResidual() override;

	/// sets the matrix to 0
	void clearMatrix(const ID & mtx) override;

	/// sets the lumped matrix to 0
	void clearLumpedMatrix(const ID & mtx) override;

	/// update the global dofs vector
	virtual void updateGlobalBlockedDofs();

	/// apply boundary conditions to jacobian matrix
	virtual void applyBoundary(const ID & matrix_id = "J");

	// void getEquationsNumbers(const ID & dof_id,
	// Array<UInt> & equation_numbers) override;

	protected:
	/// Get local part of an array corresponding to a given dofdata
	template <typename T>
	void getArrayPerDOFs(const ID & dof_id, const Array<T> & global_array,
	Array<T> & local_array) const;

	/// Get the part of the solution corresponding to the dof_id
	void getSolutionPerDOFs(const ID & dof_id,
	Array<Real> & solution_array) override;

	/// fill a Vector with the equation numbers corresponding to the given
	/// connectivity
	inline void extractElementEquationNumber(
	const Array<UInt> & equation_numbers, const Vector<UInt> & connectivity,
	UInt nb_degree_of_freedom, Vector<UInt> & local_equation_number);

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

	private:
	/// Add a symmetric matrices to a symmetric sparse matrix
	void addSymmetricElementalMatrixToSymmetric(
	SparseMatrixAIJ & matrix, const Matrix<Real> & element_mat,
	const Vector<UInt> & equation_numbers, UInt max_size);

	/// Add a unsymmetric matrices to a symmetric sparse matrix (i.e. cohesive
	/// elements)
	void addUnsymmetricElementalMatrixToSymmetric(
	SparseMatrixAIJ & matrix, const Matrix<Real> & element_mat,
	const Vector<UInt> & equation_numbers, UInt max_size);

	/// Add a matrices to a unsymmetric sparse matrix
	void addElementalMatrixToUnsymmetric(SparseMatrixAIJ & matrix,
	const Matrix<Real> & element_mat,
	const Vector<UInt> & equation_numbers,
	UInt max_size);

	void addToProfile(const ID & matrix_id, const ID & dof_id,
	const ElementType & type, const GhostType & ghost_type);

	/* ------------------------------------------------------------------------ */
	/* MeshEventHandler interface */
	/* ------------------------------------------------------------------------ */
	protected:
	std::pair<UInt, UInt>
	updateNodalDOFs(const ID & dof_id, const Array<UInt> & nodes_list) override;

	private:
	void updateDOFsData(DOFDataDefault & dof_data, UInt nb_new_local_dofs,
	UInt nb_new_pure_local,
	const std::function<UInt(UInt)> & getNode);

	public:
	/// function to implement to react on akantu::NewNodesEvent
	void onNodesAdded(const Array<UInt> & nodes_list,
	const NewNodesEvent & event) override;

	/* ------------------------------------------------------------------------ */
	/* Accessors */
	/* ------------------------------------------------------------------------ */
	public:
	/// Get an instance of a new SparseMatrix
	SparseMatrix & getNewMatrix(const ID & matrix_id,
	const MatrixType & matrix_type) override;

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

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

	/* ------------------------------------------------------------------------ */
	/* Non Linear Solver */
	/* ------------------------------------------------------------------------ */
	/// Get instance of a non linear solver
	NonLinearSolver & getNewNonLinearSolver(
	const ID & nls_solver_id,
	const NonLinearSolverType & _non_linear_solver_type) override;

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

	/* ------------------------------------------------------------------------ */
	/// Get the solution array
	AKANTU_GET_MACRO_NOT_CONST(GlobalSolution, global_solution, Array<Real> &);
	/// Set the global solution array
	void setGlobalSolution(const Array<Real> & solution);

	/// Get the global residual array across processors (SMP call)
	const Array<Real> & getGlobalResidual();

	/// Get the residual array
	const Array<Real> & getResidual() const;

	/// Get the blocked dofs array
	AKANTU_GET_MACRO(GlobalBlockedDOFs, global_blocked_dofs, const Array<bool> &);
	/// Get the blocked dofs array
	AKANTU_GET_MACRO(PreviousGlobalBlockedDOFs, previous_global_blocked_dofs,
	const Array<bool> &);
	/// Get the location type of a given dof
	inline bool isLocalOrMasterDOF(UInt local_dof_num);

	/// Answer to the question is a dof a slave dof ?
	inline bool isSlaveDOF(UInt local_dof_num);

	/// get the equation numbers (in local numbering) corresponding to a dof ID
	inline const Array<UInt> & getLocalEquationNumbers(const ID & dof_id) const;

	/// tells if the dof manager knows about a global dof
	bool hasGlobalEquationNumber(UInt global) const;

	/// return the local index of the global equation number
	inline UInt globalToLocalEquationNumber(UInt global) const;

	/// converts local equation numbers to global equation numbers;
	inline UInt localToGlobalEquationNumber(UInt local) const;

	/// get the array of dof types (use only if you know what you do...)
	inline Int getDOFType(UInt local_id) const;

	/// get the array of dof types (use only if you know what you do...)
	inline const Array<UInt> & getDOFsAssociatedNodes(const ID & dof_id) const;

	/// access the internal dof_synchronizer
	AKANTU_GET_MACRO_NOT_CONST(Synchronizer, *synchronizer, DOFSynchronizer &);

	/// access the internal dof_synchronizer
	bool hasSynchronizer() const { return synchronizer != nullptr; }

	protected:
	DOFData & getNewDOFData(const ID & dof_id) override;

	/* ------------------------------------------------------------------------ */
	/* Class Members */
	/* ------------------------------------------------------------------------ */
	protected:
	// using AIJMatrixMap = std::map<ID, std::unique_ptr<SparseMatrixAIJ>>;
	// using DefaultNonLinearSolversMap =
	// std::map<ID, std::unique_ptr<NonLinearSolverDefault>>;
	// using DefaultTimeStepSolversMap =
	// std::map<ID, std::unique_ptr<TimeStepSolverDefault>>;

	using DOFToMatrixProfile =
	std::map<std::pair<ID, ID>,
	std::vector<std::pair<ElementType, GhostType>>>;

	/// contains the the dofs that where added to the profile of a given matrix.
	DOFToMatrixProfile matrix_profiled_dofs;

	/// rhs to the system of equation corresponding to the residual linked to the
	/// different dofs
	Array<Real> residual;

	/// rhs used only on root proc in case of parallel computing, this is the full
	/// gathered rhs array
	std::unique_ptr<Array<Real>> global_residual;

	/// solution of the system of equation corresponding to the different dofs
	Array<Real> global_solution;

	/// blocked degree of freedom in the system equation corresponding to the
	/// different dofs
	Array<bool> global_blocked_dofs;

	/// blocked degree of freedom in the system equation corresponding to the
	/// different dofs
	Array<bool> previous_global_blocked_dofs;

	/// define the dofs type, local, shared, ghost
	Array<Int> dofs_type;

	/// Map of the different matrices stored in the dof manager
	//AIJMatrixMap aij_matrices;

	/// Map of the different time step solvers stored with there real type
	//DefaultTimeStepSolversMap default_time_step_solver_map;

	/// Memory cache, this is an array to keep the temporary memory needed for
	/// some operations, it is meant to be resized or cleared when needed
	Array<Real> data_cache;

	/// Release at last apply boundary on jacobian
	UInt jacobian_release{0};

	/// equation number in global numbering
	Array<UInt> global_equation_number;

	using equation_numbers_map = std::unordered_map<UInt, UInt>;

	/// dual information of global_equation_number
	equation_numbers_map global_to_local_mapping;

	/// accumulator to know what would be the next global id to use
	UInt first_global_dof_id{0};

	/// synchronizer to maintain coherency in dof fields
	std::unique_ptr<DOFSynchronizer> synchronizer;
	};

	} // namespace akantu

	#include "dof_manager_default_inline_impl.cc"

	#endif /* __AKANTU_DOF_MANAGER_DEFAULT_HH__ */

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