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
	*
	*
	* 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 "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;
	class SolverVector;
	class SolverCallback;
	} // namespace akantu

	namespace akantu {

	class DOFManager : protected MeshEventHandler {
	/* ------------------------------------------------------------------------ */
	/* Constructors/Destructors */
	/* ------------------------------------------------------------------------ */
	protected:
	struct DOFData;

	public:
	DOFManager(const ID & id = "dof_manager");
	DOFManager(Mesh & mesh, const ID & id = "dof_manager");
	~DOFManager() override;

	/* ------------------------------------------------------------------------ */
	/* Methods */
	/* ------------------------------------------------------------------------ */
	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 & support_group);

	/// 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,
	Array<Real> & array_to_assemble,
	Real scale_factor = 1.);

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

	/**
	* 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,
	ElementType type, 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,
	ElementType type, 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, ElementType type,
	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, ElementType type,
	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 assembleMatMulVectToArray(const ID & dof_id, const ID & A_id,
	const Array<Real> & x,
	Array<Real> & array,
	Real scale_factor = 1) = 0;

	/// 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;

	/// 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);

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

	/// updates the global blocked_dofs array
	virtual void updateGlobalBlockedDofs();

	/// sets the residual to 0
	virtual void zeroResidual();
	/// sets the matrix to 0
	virtual void zeroMatrix(const ID & mtx);
	/// sets the lumped matrix to 0
	virtual void zeroLumpedMatrix(const ID & mtx);

	virtual void applyBoundary(const ID & matrix_id = "J");
	// virtual void applyBoundaryLumped(const ID & matrix_id = "J");

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

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

	private:
	/// dispatch the creation of the dof data and register it
	DOFData & getNewDOFDataInternal(const ID & dof_id);

	protected:
	/// common function to help registering dofs the return values are the add new
	/// numbers of local dofs, pure local dofs, and system size
	virtual std::tuple<UInt, UInt, UInt>
	registerDOFsInternal(const ID & dof_id, Array<Real> & dofs_array);

	/// 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);

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

	/// Assemble a array to a global one
	void assembleMatMulVectToGlobalArray(const ID & dof_id, const ID & A_id,
	const Array<Real> & x,
	SolverVector & array,
	Real scale_factor = 1.);

	/// common function that can be called by derived class with proper matrice
	/// types
	template <typename Mat>
	void assemblePreassembledMatrix_(Mat & A, const ID & dof_id_m,
	const ID & dof_id_n,
	const TermsToAssemble & terms);

	template <typename Mat>
	void assembleElementalMatricesToMatrix_(
	Mat & A, const ID & dof_id, const Array<Real> & elementary_mat,
	ElementType type, GhostType ghost_type,
	const MatrixType & elemental_matrix_type,
	const Array<UInt> & filter_elements);

	template <typename Vec>
	void assembleMatMulVectToArray_(const ID & dof_id, const ID & A_id,
	const Array<Real> & x, Array<Real> & array,
	Real scale_factor);

	/* ------------------------------------------------------------------------ */
	/* Accessors */
	/* ------------------------------------------------------------------------ */
	public:
	/// 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);

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

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

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

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

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

	/// defines if the boundary changed
	bool hasBlockedDOFsChanged() {
	return this->global_blocked_dofs_release !=
	this->previous_global_blocked_dofs_release;
	}

	/// 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);

	/// Pure local number of dofs
	AKANTU_GET_MACRO(PureLocalSystemSize, this->pure_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 & dof_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);

	/// Get the blocked dofs array
	AKANTU_GET_MACRO(GlobalBlockedDOFs, global_blocked_dofs, const Array<Int> &);
	/// Get the blocked dofs array
	AKANTU_GET_MACRO(PreviousGlobalBlockedDOFs, previous_global_blocked_dofs,
	const Array<Int> &);

	/* ------------------------------------------------------------------------ */
	/* 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 equation numbers corresponding to a dof_id. This might be used to
	/// access the matrix.
	inline const Array<Int> & getLocalEquationsNumbers(const ID & dof_id) const;

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

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

	/// register a lumped matrix (aka a Vector)
	SolverVector & registerLumpedMatrix(const ID & matrix_id,
	std::unique_ptr<SolverVector> & 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);

	template <class NLSType, class DMType>
	NonLinearSolver & registerNonLinearSolver(DMType & dm, const ID & id,
	const NonLinearSolverType & type) {
	ID non_linear_solver_id = this->id + ":nls:" + id;
	std::unique_ptr<NonLinearSolver> nls = std::make_unique<NLSType>(
	dm, type, non_linear_solver_id);
	return this->registerNonLinearSolver(non_linear_solver_id, nls);
	}

	template <class TSSType, class DMType>
	TimeStepSolver & registerTimeStepSolver(DMType & dm, const ID & id,
	const TimeStepSolverType & type,
	NonLinearSolver & non_linear_solver,
	SolverCallback & solver_callback) {
	ID time_step_solver_id = this->id + ":tss:" + id;
	std::unique_ptr<TimeStepSolver> tss =
	std::make_unique<TSSType>(dm, type, non_linear_solver, solver_callback,
	time_step_solver_id);
	return this->registerTimeStepSolver(time_step_solver_id, tss);
	}

	template <class MatType, class DMType>
	SparseMatrix & registerSparseMatrix(DMType & dm, const ID & id,
	const MatrixType & matrix_type) {
	ID matrix_id = this->id + ":mtx:" + id;
	std::unique_ptr<SparseMatrix> sm =
	std::make_unique<MatType>(dm, matrix_type, matrix_id);
	return this->registerSparseMatrix(matrix_id, sm);
	}

	template <class MatType>
	SparseMatrix & registerSparseMatrix(const ID & id,
	const ID & matrix_to_copy_id) {
	ID matrix_id = this->id + ":mtx:" + id;
	auto & sm_to_copy =
	aka::as_type<MatType>(this->getMatrix(matrix_to_copy_id));
	std::unique_ptr<SparseMatrix> sm =
	std::make_unique<MatType>(sm_to_copy, matrix_id);
	return this->registerSparseMatrix(matrix_id, sm);
	}

	template <class MatType, class DMType>
	SolverVector & registerLumpedMatrix(DMType & dm, const ID & id) {
	ID matrix_id = this->id + ":lumped_mtx:" + id;
	std::unique_ptr<SolverVector> sm = std::make_unique<MatType>(dm, matrix_id);
	return this->registerLumpedMatrix(matrix_id, sm);
	}

	protected:
	virtual void makeConsistentForPeriodicity(const ID & dof_id,
	SolverVector & array) = 0;

	virtual void assembleToGlobalArray(const ID & dof_id,
	const Array<Real> & array_to_assemble,
	SolverVector & global_array,
	Real scale_factor) = 0;

	public:
	/// extract degrees of freedom (identified by ID) from a global solver array
	virtual void getArrayPerDOFs(const ID & dof_id, const SolverVector & global,
	Array<Real> & local) = 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 SolverVector & getNewLumpedMatrix(const ID & matrix_id) = 0;
	/// Get the lumped version of a given matrix
	const SolverVector & getLumpedMatrix(const ID & matrix_id) const;
	/// Get the lumped version of a given matrix
	SolverVector & 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,
	SolverCallback & solver_callback) = 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 != nullptr) {
	return *mesh;
	}
	AKANTU_EXCEPTION("No mesh registered in this dof manager");
	}

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

	/* ------------------------------------------------------------------------ */
	AKANTU_GET_MACRO(Solution, *(solution.get()), const auto &);
	AKANTU_GET_MACRO_NOT_CONST(Solution, *(solution.get()), auto &);

	AKANTU_GET_MACRO(Residual, *(residual.get()), const auto &);
	AKANTU_GET_MACRO_NOT_CONST(Residual, *(residual.get()), auto &);

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

	template <typename Func>
	auto countDOFsForNodes(const DOFData & dof_data, UInt nb_nodes,
	Func && getNode);

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

	void updateDOFsData(DOFData & dof_data, UInt nb_new_local_dofs,
	UInt nb_new_pure_local);

	auto computeFirstDOFIDs(UInt nb_new_local_dofs, UInt nb_new_pure_local);

	/// resize all the global information and takes the needed measure like
	/// cleaning matrices profiles
	virtual void resizeGlobalArrays();

	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:
	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 std::unique_ptr<DOFData> getNewDOFData(const ID & dof_id) = 0;

	/* ------------------------------------------------------------------------ */
	/* 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{nullptr};

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

	/// Degree of freedoms increment
	Array<Real> * increment{nullptr};

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

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

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

	/* ---------------------------------------------------------------------- */
	/// number of dofs to consider locally for this dof id
	UInt local_nb_dofs{0};

	/// Number of purely local dofs
	UInt pure_local_nb_dofs{0};

	/// number of ghost dofs
	UInt ghosts_nb_dofs{0};

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

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

	virtual Array<Int> & getLocalEquationsNumbers() {
	return local_equation_number;
	}
	};

	/// 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<SolverVector>>;

	/// 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>>;

	ID id;

	/// 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};

	/// rhs to the system of equation corresponding to the residual linked to the
	/// different dofs
	std::unique_ptr<SolverVector> residual;

	/// solution of the system of equation corresponding to the different dofs
	std::unique_ptr<SolverVector> solution;

	/// a vector that helps internally to perform some tasks
	std::unique_ptr<SolverVector> data_cache;

	/// define the dofs type, local, shared, ghost
	Array<NodeFlag> dofs_flag;

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

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

	/// dual information of global_equation_number
	equation_numbers_map global_to_local_mapping;

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

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

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

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

	UInt global_blocked_dofs_release{0};

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

	UInt previous_global_blocked_dofs_release{0};

	private:
	/// This is for unit testing
	friend class DOFManagerTester;
	};

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

	} // namespace akantu

	#include "dof_manager_inline_impl.hh"

	#endif /* AKANTU_DOF_MANAGER_HH_ */

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