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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 creation: Tue Aug 18 2015
			* @date last modification: Wed Jan 31 2018
			*
			* @brief Default implementation of the dof manager
			*
			* @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 "dof_manager.hh"
			/* -------------------------------------------------------------------------- */
			#include <functional>
			#include <unordered_map>
			/* -------------------------------------------------------------------------- */

			#ifndef __AKANTU_DOF_MANAGER_DEFAULT_HH__
			#define __AKANTU_DOF_MANAGER_DEFAULT_HH__

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

			void assembleMatMulVectToGlobalArray(const ID & dof_id, const ID & A_id,
			const Array<Real> & x,
			Array<Real> & array,
			Real scale_factor = 1.);

			void assembleMatMulVectToArray(const ID & dof_id, const ID & A_id,
			const Array<Real> & x, Array<Real> & array,
			Real scale_factor = 1.) 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);

			template <typename T>
			void makeConsistentForPeriodicity(const ID & dof_id, Array<T> & array);

			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
			void applyBoundary(const ID & matrix_id = "J") override;

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

			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;

			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<Int> & 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<Int> & equation_numbers, UInt max_size);

			/// Add a matrices to a unsymmetric sparse matrix
			void addElementalMatrixToUnsymmetric(SparseMatrixAIJ & matrix,
			const Matrix<Real> & element_mat,
			const Vector<Int> & 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, UInt nb_nodes,
			const std::function<UInt(UInt)> & getNode);

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

			void resizeGlobalArrays();
			auto computeFirstDOFIDs(UInt nb_new_local_dofs, UInt nb_new_pure_local);

			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
			Array<Real> & getSolutionArray();

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

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

			/// 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);

			/// 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 NodeFlag getDOFFlag(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:
			friend class GlobalDOFInfoDataAccessor;

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

			/// 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<NodeFlag> dofs_flag;

			/// 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__ */

rAKA/src/model/common/dof_manager/dof_manager_default.hh05a352d13d99bugfixes/39-the-python…

dof_manager_default.hhView Options

rAKA/src/model/common/dof_manager/dof_manager_default.hh
05a352d13d99bugfixes/39-the-python…

dof_manager_default.hh
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