Inheritance diagram for ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >:

Public Member Functions
	ExtrudedMovingCylinderProblem (const PoissonEquations< 3 >::PoissonSourceFctPt &source_fct_pt)
	Constructor: pass a pointer to the source function. More...

	~ExtrudedMovingCylinderProblem ()
	Destructor: Empty. More...

void	actions_before_newton_solve ()
	Update the problem specs before solve. More...

void	actions_after_newton_solve ()
	Update the problem specs after solve (empty) More...

void	actions_after_adapt ()
	Update the problem specs after adaptation. More...

void	create_extruded_mesh ()
	Create the 2D mesh and extrude it to create the 3D mesh. More...

void	apply_boundary_conditions ()
	Apply boundary conditions. More...

void	complete_element_setup ()
	Complete problem setup: pass pointers to physical variables. More...

void	doc_solution ()
	Document the solution. More...

Public Member Functions inherited from oomph::Problem
virtual void	debug_hook_fct (const unsigned &i)

void	set_analytic_dparameter (double *const &parameter_pt)

void	unset_analytic_dparameter (double *const &parameter_pt)

bool	is_dparameter_calculated_analytically (double *const &parameter_pt)

void	set_analytic_hessian_products ()

void	unset_analytic_hessian_products ()

bool	are_hessian_products_calculated_analytically ()

void	set_pinned_values_to_zero ()

bool	distributed () const

virtual void	actions_before_adapt ()

OomphCommunicator *	communicator_pt ()
	access function to the oomph-lib communicator More...

const OomphCommunicator *	communicator_pt () const
	access function to the oomph-lib communicator, const version More...

	Problem ()

	Problem (const Problem &dummy)=delete
	Broken copy constructor. More...

void	operator= (const Problem &)=delete
	Broken assignment operator. More...

virtual	~Problem ()
	Virtual destructor to clean up memory. More...

Mesh *&	mesh_pt ()
	Return a pointer to the global mesh. More...

Mesh *const &	mesh_pt () const
	Return a pointer to the global mesh (const version) More...

Mesh *&	mesh_pt (const unsigned &imesh)

Mesh *const &	mesh_pt (const unsigned &imesh) const
	Return a pointer to the i-th submesh (const version) More...

unsigned	nsub_mesh () const
	Return number of submeshes. More...

unsigned	add_sub_mesh (Mesh *const &mesh_pt)

void	flush_sub_meshes ()

void	build_global_mesh ()

void	rebuild_global_mesh ()

LinearSolver *&	linear_solver_pt ()
	Return a pointer to the linear solver object. More...

LinearSolver *const &	linear_solver_pt () const
	Return a pointer to the linear solver object (const version) More...

LinearSolver *&	mass_matrix_solver_for_explicit_timestepper_pt ()

LinearSolver *	mass_matrix_solver_for_explicit_timestepper_pt () const

EigenSolver *&	eigen_solver_pt ()
	Return a pointer to the eigen solver object. More...

EigenSolver *const &	eigen_solver_pt () const
	Return a pointer to the eigen solver object (const version) More...

Time *&	time_pt ()
	Return a pointer to the global time object. More...

Time *	time_pt () const
	Return a pointer to the global time object (const version). More...

double &	time ()
	Return the current value of continuous time. More...

double	time () const
	Return the current value of continuous time (const version) More...

TimeStepper *&	time_stepper_pt ()

const TimeStepper *	time_stepper_pt () const

TimeStepper *&	time_stepper_pt (const unsigned &i)
	Return a pointer to the i-th timestepper. More...

ExplicitTimeStepper *&	explicit_time_stepper_pt ()
	Return a pointer to the explicit timestepper. More...

unsigned long	set_timestepper_for_all_data (TimeStepper *const &time_stepper_pt, const bool &preserve_existing_data=false)

virtual void	shift_time_values ()
	Shift all values along to prepare for next timestep. More...

AssemblyHandler *&	assembly_handler_pt ()
	Return a pointer to the assembly handler object. More...

AssemblyHandler *const &	assembly_handler_pt () const
	Return a pointer to the assembly handler object (const version) More...

double &	minimum_dt ()
	Access function to min timestep in adaptive timestepping. More...

double &	maximum_dt ()
	Access function to max timestep in adaptive timestepping. More...

unsigned &	max_newton_iterations ()
	Access function to max Newton iterations before giving up. More...

void	problem_is_nonlinear (const bool &prob_lin)
	Access function to Problem_is_nonlinear. More...

double &	max_residuals ()

bool &	time_adaptive_newton_crash_on_solve_fail ()
	Access function for Time_adaptive_newton_crash_on_solve_fail. More...

double &	newton_solver_tolerance ()

void	add_time_stepper_pt (TimeStepper *const &time_stepper_pt)

void	set_explicit_time_stepper_pt (ExplicitTimeStepper *const &explicit_time_stepper_pt)

void	initialise_dt (const double &dt)

void	initialise_dt (const Vector< double > &dt)

Data *&	global_data_pt (const unsigned &i)
	Return a pointer to the the i-th global data object. More...

void	add_global_data (Data *const &global_data_pt)

void	flush_global_data ()

LinearAlgebraDistribution *const &	dof_distribution_pt () const
	Return the pointer to the dof distribution (read-only) More...

unsigned long	ndof () const
	Return the number of dofs. More...

unsigned	ntime_stepper () const
	Return the number of time steppers. More...

unsigned	nglobal_data () const
	Return the number of global data values. More...

unsigned	self_test ()
	Self-test: Check meshes and global data. Return 0 for OK. More...

void	enable_store_local_dof_pt_in_elements ()

void	disable_store_local_dof_pt_in_elements ()

unsigned long	assign_eqn_numbers (const bool &assign_local_eqn_numbers=true)

void	describe_dofs (std::ostream &out= *(oomph_info.stream_pt())) const

void	enable_discontinuous_formulation ()

void	disable_discontinuous_formulation ()

void	get_dofs (DoubleVector &dofs) const

void	get_dofs (const unsigned &t, DoubleVector &dofs) const
	Return vector of the t'th history value of all dofs. More...

void	set_dofs (const DoubleVector &dofs)
	Set the values of the dofs. More...

void	set_dofs (const unsigned &t, DoubleVector &dofs)
	Set the history values of the dofs. More...

void	set_dofs (const unsigned &t, Vector< double * > &dof_pt)

void	add_to_dofs (const double &lambda, const DoubleVector &increment_dofs)
	Add lambda x incremenet_dofs[l] to the l-th dof. More...

double *	global_dof_pt (const unsigned &i)

double &	dof (const unsigned &i)
	i-th dof in the problem More...

double	dof (const unsigned &i) const
	i-th dof in the problem (const version) More...

double *&	dof_pt (const unsigned &i)
	Pointer to i-th dof in the problem. More...

double *	dof_pt (const unsigned &i) const
	Pointer to i-th dof in the problem (const version) More...

virtual void	get_inverse_mass_matrix_times_residuals (DoubleVector &Mres)

virtual void	get_dvaluesdt (DoubleVector &f)

virtual void	get_residuals (DoubleVector &residuals)
	Get the total residuals Vector for the problem. More...

virtual void	get_jacobian (DoubleVector &residuals, DenseDoubleMatrix &jacobian)

virtual void	get_jacobian (DoubleVector &residuals, CRDoubleMatrix &jacobian)

virtual void	get_jacobian (DoubleVector &residuals, CCDoubleMatrix &jacobian)

virtual void	get_jacobian (DoubleVector &residuals, SumOfMatrices &jacobian)

void	get_fd_jacobian (DoubleVector &residuals, DenseMatrix< double > &jacobian)
	Get the full Jacobian by finite differencing. More...

void	get_derivative_wrt_global_parameter (double *const &parameter_pt, DoubleVector &result)

void	get_hessian_vector_products (DoubleVectorWithHaloEntries const &Y, Vector< DoubleVectorWithHaloEntries > const &C, Vector< DoubleVectorWithHaloEntries > &product)

void	solve_eigenproblem (const unsigned &n_eval, Vector< std::complex< double >> &eigenvalue, Vector< DoubleVector > &eigenvector, const bool &steady=true)
	Solve the eigenproblem. More...

void	solve_eigenproblem (const unsigned &n_eval, Vector< std::complex< double >> &eigenvalue, const bool &steady=true)

virtual void	get_eigenproblem_matrices (CRDoubleMatrix &mass_matrix, CRDoubleMatrix &main_matrix, const double &shift=0.0)

void	assign_eigenvector_to_dofs (DoubleVector &eigenvector)
	Assign the eigenvector passed to the function to the dofs. More...

void	add_eigenvector_to_dofs (const double &epsilon, const DoubleVector &eigenvector)

void	store_current_dof_values ()
	Store the current values of the degrees of freedom. More...

void	restore_dof_values ()
	Restore the stored values of the degrees of freedom. More...

void	enable_jacobian_reuse ()

void	disable_jacobian_reuse ()
	Disable recycling of Jacobian in Newton iteration. More...

bool	jacobian_reuse_is_enabled ()
	Is recycling of Jacobian in Newton iteration enabled? More...

bool &	use_predictor_values_as_initial_guess ()

void	newton_solve ()
	Use Newton method to solve the problem. More...

void	enable_globally_convergent_newton_method ()
	enable globally convergent Newton method More...

void	disable_globally_convergent_newton_method ()
	disable globally convergent Newton method More...

void	newton_solve (unsigned const &max_adapt)

void	steady_newton_solve (unsigned const &max_adapt=0)

void	copy (Problem *orig_problem_pt)

virtual Problem *	make_copy ()

virtual void	read (std::ifstream &restart_file, bool &unsteady_restart)

virtual void	read (std::ifstream &restart_file)

virtual void	dump (std::ofstream &dump_file) const

void	dump (const std::string &dump_file_name) const

void	delete_all_external_storage ()

virtual void	symmetrise_eigenfunction_for_adaptive_pitchfork_tracking ()

double *	bifurcation_parameter_pt () const

void	get_bifurcation_eigenfunction (Vector< DoubleVector > &eigenfunction)

void	activate_fold_tracking (double *const &parameter_pt, const bool &block_solve=true)

void	activate_bifurcation_tracking (double *const &parameter_pt, const DoubleVector &eigenvector, const bool &block_solve=true)

void	activate_bifurcation_tracking (double *const &parameter_pt, const DoubleVector &eigenvector, const DoubleVector &normalisation, const bool &block_solve=true)

void	activate_pitchfork_tracking (double *const &parameter_pt, const DoubleVector &symmetry_vector, const bool &block_solve=true)

void	activate_hopf_tracking (double *const &parameter_pt, const bool &block_solve=true)

void	activate_hopf_tracking (double *const &parameter_pt, const double &omega, const DoubleVector &null_real, const DoubleVector &null_imag, const bool &block_solve=true)

void	deactivate_bifurcation_tracking ()

void	reset_assembly_handler_to_default ()
	Reset the system to the standard non-augemented state. More...

double	arc_length_step_solve (double *const &parameter_pt, const double &ds, const unsigned &max_adapt=0)

double	arc_length_step_solve (Data *const &data_pt, const unsigned &data_index, const double &ds, const unsigned &max_adapt=0)

void	reset_arc_length_parameters ()

int &	sign_of_jacobian ()

void	explicit_timestep (const double &dt, const bool &shift_values=true)
	Take an explicit timestep of size dt. More...

void	unsteady_newton_solve (const double &dt)

void	unsteady_newton_solve (const double &dt, const bool &shift_values)

void	unsteady_newton_solve (const double &dt, const unsigned &max_adapt, const bool &first, const bool &shift=true)

double	doubly_adaptive_unsteady_newton_solve (const double &dt, const double &epsilon, const unsigned &max_adapt, const bool &first, const bool &shift=true)

double	doubly_adaptive_unsteady_newton_solve (const double &dt, const double &epsilon, const unsigned &max_adapt, const unsigned &suppress_resolve_after_spatial_adapt_flag, const bool &first, const bool &shift=true)

double	adaptive_unsteady_newton_solve (const double &dt_desired, const double &epsilon)

double	adaptive_unsteady_newton_solve (const double &dt_desired, const double &epsilon, const bool &shift_values)

void	assign_initial_values_impulsive ()

void	assign_initial_values_impulsive (const double &dt)

void	calculate_predictions ()
	Calculate predictions. More...

void	enable_mass_matrix_reuse ()

void	disable_mass_matrix_reuse ()

bool	mass_matrix_reuse_is_enabled ()
	Return whether the mass matrix is being reused. More...

void	refine_uniformly (const Vector< unsigned > &nrefine_for_mesh)

void	refine_uniformly (const Vector< unsigned > &nrefine_for_mesh, DocInfo &doc_info)

void	refine_uniformly_and_prune (const Vector< unsigned > &nrefine_for_mesh)

void	refine_uniformly_and_prune (const Vector< unsigned > &nrefine_for_mesh, DocInfo &doc_info)

void	refine_uniformly (DocInfo &doc_info)

void	refine_uniformly_and_prune (DocInfo &doc_info)

void	refine_uniformly ()

void	refine_uniformly (const unsigned &i_mesh, DocInfo &doc_info)
	Do uniform refinement for submesh i_mesh with documentation. More...

void	refine_uniformly (const unsigned &i_mesh)
	Do uniform refinement for submesh i_mesh without documentation. More...

void	p_refine_uniformly (const Vector< unsigned > &nrefine_for_mesh)

void	p_refine_uniformly (const Vector< unsigned > &nrefine_for_mesh, DocInfo &doc_info)

void	p_refine_uniformly_and_prune (const Vector< unsigned > &nrefine_for_mesh)

void	p_refine_uniformly_and_prune (const Vector< unsigned > &nrefine_for_mesh, DocInfo &doc_info)

void	p_refine_uniformly (DocInfo &doc_info)

void	p_refine_uniformly_and_prune (DocInfo &doc_info)

void	p_refine_uniformly ()

void	p_refine_uniformly (const unsigned &i_mesh, DocInfo &doc_info)
	Do uniform p-refinement for submesh i_mesh with documentation. More...

void	p_refine_uniformly (const unsigned &i_mesh)
	Do uniform p-refinement for submesh i_mesh without documentation. More...

void	refine_selected_elements (const Vector< unsigned > &elements_to_be_refined)

void	refine_selected_elements (const Vector< RefineableElement * > &elements_to_be_refined_pt)

void	refine_selected_elements (const unsigned &i_mesh, const Vector< unsigned > &elements_to_be_refined)

void	refine_selected_elements (const unsigned &i_mesh, const Vector< RefineableElement * > &elements_to_be_refined_pt)

void	refine_selected_elements (const Vector< Vector< unsigned >> &elements_to_be_refined)

void	refine_selected_elements (const Vector< Vector< RefineableElement * >> &elements_to_be_refined_pt)

void	p_refine_selected_elements (const Vector< unsigned > &elements_to_be_refined)

void	p_refine_selected_elements (const Vector< PRefineableElement * > &elements_to_be_refined_pt)

void	p_refine_selected_elements (const unsigned &i_mesh, const Vector< unsigned > &elements_to_be_refined)

void	p_refine_selected_elements (const unsigned &i_mesh, const Vector< PRefineableElement * > &elements_to_be_refined_pt)

void	p_refine_selected_elements (const Vector< Vector< unsigned >> &elements_to_be_refined)

void	p_refine_selected_elements (const Vector< Vector< PRefineableElement * >> &elements_to_be_refined_pt)

unsigned	unrefine_uniformly ()

unsigned	unrefine_uniformly (const unsigned &i_mesh)

void	p_unrefine_uniformly (DocInfo &doc_info)

void	p_unrefine_uniformly (const unsigned &i_mesh, DocInfo &doc_info)
	Do uniform p-unrefinement for submesh i_mesh without documentation. More...

void	adapt (unsigned &n_refined, unsigned &n_unrefined)

void	adapt ()

void	p_adapt (unsigned &n_refined, unsigned &n_unrefined)

void	p_adapt ()

void	adapt_based_on_error_estimates (unsigned &n_refined, unsigned &n_unrefined, Vector< Vector< double >> &elemental_error)

void	adapt_based_on_error_estimates (Vector< Vector< double >> &elemental_error)

void	get_all_error_estimates (Vector< Vector< double >> &elemental_error)

void	doc_errors (DocInfo &doc_info)
	Get max and min error for all elements in submeshes. More...

void	doc_errors ()
	Get max and min error for all elements in submeshes. More...

void	enable_info_in_newton_solve ()

void	disable_info_in_newton_solve ()
	Disable the output of information when in the newton solver. More...

Public Member Functions inherited from oomph::ExplicitTimeSteppableObject
	ExplicitTimeSteppableObject ()
	Empty constructor. More...

	ExplicitTimeSteppableObject (const ExplicitTimeSteppableObject &)=delete
	Broken copy constructor. More...

void	operator= (const ExplicitTimeSteppableObject &)=delete
	Broken assignment operator. More...

virtual	~ExplicitTimeSteppableObject ()
	Empty destructor. More...

virtual void	actions_before_explicit_stage ()

virtual void	actions_after_explicit_stage ()

Private Attributes
RefineableExtrudedCubeMeshFromQuadMesh< THREE_D_ELEMENT > *	Bulk_mesh_pt
	Pointer to the extruded messh. More...

PoissonEquations< 3 >::PoissonSourceFctPt	Source_fct_pt
	Pointer to source function. More...

Additional Inherited Members
Public Types inherited from oomph::Problem
typedef void(*	SpatialErrorEstimatorFctPt) (Mesh *&mesh_pt, Vector< double > &elemental_error)
	Function pointer for spatial error estimator. More...

typedef void(*	SpatialErrorEstimatorWithDocFctPt) (Mesh *&mesh_pt, Vector< double > &elemental_error, DocInfo &doc_info)
	Function pointer for spatial error estimator with doc. More...

Public Attributes inherited from oomph::Problem
bool	Shut_up_in_newton_solve

Static Public Attributes inherited from oomph::Problem
static bool	Suppress_warning_about_actions_before_read_unstructured_meshes

Protected Types inherited from oomph::Problem
enum	Assembly_method { Perform_assembly_using_vectors_of_pairs , Perform_assembly_using_two_vectors , Perform_assembly_using_maps , Perform_assembly_using_lists , Perform_assembly_using_two_arrays }
	Enumerated flags to determine which sparse assembly method is used. More...

Protected Member Functions inherited from oomph::Problem
unsigned	setup_element_count_per_dof ()

virtual void	sparse_assemble_row_or_column_compressed (Vector< int * > &column_or_row_index, Vector< int * > &row_or_column_start, Vector< double * > &value, Vector< unsigned > &nnz, Vector< double * > &residual, bool compressed_row_flag)

virtual void	actions_before_newton_convergence_check ()

virtual void	actions_before_newton_step ()

virtual void	actions_after_newton_step ()

virtual void	actions_before_implicit_timestep ()

virtual void	actions_after_implicit_timestep ()

virtual void	actions_after_implicit_timestep_and_error_estimation ()

virtual void	actions_before_explicit_timestep ()
	Actions that should be performed before each explicit time step. More...

virtual void	actions_after_explicit_timestep ()
	Actions that should be performed after each explicit time step. More...

virtual void	actions_before_read_unstructured_meshes ()

virtual void	actions_after_read_unstructured_meshes ()

virtual void	actions_after_change_in_global_parameter (double *const &parameter_pt)

virtual void	actions_after_change_in_bifurcation_parameter ()

virtual void	actions_after_parameter_increase (double *const &parameter_pt)

double &	dof_derivative (const unsigned &i)

double &	dof_current (const unsigned &i)

virtual void	set_initial_condition ()

virtual double	global_temporal_error_norm ()

unsigned	newton_solve_continuation (double *const &parameter_pt)

unsigned	newton_solve_continuation (double *const &parameter_pt, DoubleVector &z)

void	calculate_continuation_derivatives (double *const &parameter_pt)

void	calculate_continuation_derivatives (const DoubleVector &z)

void	calculate_continuation_derivatives_fd (double *const &parameter_pt)

bool	does_pointer_correspond_to_problem_data (double *const &parameter_pt)

void	set_consistent_pinned_values_for_continuation ()

Protected Attributes inherited from oomph::Problem
Vector< Problem * >	Copy_of_problem_pt

std::map< double *, bool >	Calculate_dparameter_analytic

bool	Calculate_hessian_products_analytic

LinearAlgebraDistribution *	Dof_distribution_pt

Vector< double * >	Dof_pt
	Vector of pointers to dofs. More...

DoubleVectorWithHaloEntries	Element_count_per_dof

double	Relaxation_factor

double	Newton_solver_tolerance

unsigned	Max_newton_iterations
	Maximum number of Newton iterations. More...

unsigned	Nnewton_iter_taken

Vector< double >	Max_res
	Maximum residuals at start and after each newton iteration. More...

double	Max_residuals

bool	Time_adaptive_newton_crash_on_solve_fail

bool	Jacobian_reuse_is_enabled
	Is re-use of Jacobian in Newton iteration enabled? Default: false. More...

bool	Jacobian_has_been_computed

bool	Problem_is_nonlinear

bool	Pause_at_end_of_sparse_assembly

bool	Doc_time_in_distribute

unsigned	Sparse_assembly_method

unsigned	Sparse_assemble_with_arrays_initial_allocation

unsigned	Sparse_assemble_with_arrays_allocation_increment

Vector< Vector< unsigned > >	Sparse_assemble_with_arrays_previous_allocation

double	Numerical_zero_for_sparse_assembly

double	FD_step_used_in_get_hessian_vector_products

bool	Mass_matrix_reuse_is_enabled

bool	Mass_matrix_has_been_computed

bool	Discontinuous_element_formulation

double	Minimum_dt
	Minimum desired dt: if dt falls below this value, exit. More...

double	Maximum_dt
	Maximum desired dt. More...

double	DTSF_max_increase

double	DTSF_min_decrease

double	Minimum_dt_but_still_proceed

bool	Scale_arc_length
	Boolean to control whether arc-length should be scaled. More...

double	Desired_proportion_of_arc_length
	Proportion of the arc-length to taken by the parameter. More...

double	Theta_squared

int	Sign_of_jacobian
	Storage for the sign of the global Jacobian. More...

double	Continuation_direction

double	Parameter_derivative
	Storage for the derivative of the global parameter wrt arc-length. More...

double	Parameter_current
	Storage for the present value of the global parameter. More...

bool	Use_continuation_timestepper
	Boolean to control original or new storage of dof stuff. More...

unsigned	Dof_derivative_offset

unsigned	Dof_current_offset

Vector< double >	Dof_derivative
	Storage for the derivative of the problem variables wrt arc-length. More...

Vector< double >	Dof_current
	Storage for the present values of the variables. More...

double	Ds_current
	Storage for the current step value. More...

unsigned	Desired_newton_iterations_ds

double	Minimum_ds
	Minimum desired value of arc-length. More...

bool	Bifurcation_detection
	Boolean to control bifurcation detection via determinant of Jacobian. More...

bool	Bisect_to_find_bifurcation
	Boolean to control wheter bisection is used to located bifurcation. More...

bool	First_jacobian_sign_change
	Boolean to indicate whether a sign change has occured in the Jacobian. More...

bool	Arc_length_step_taken
	Boolean to indicate whether an arc-length step has been taken. More...

bool	Use_finite_differences_for_continuation_derivatives

OomphCommunicator *	Communicator_pt
	The communicator for this problem. More...

bool	Always_take_one_newton_step

double	Timestep_reduction_factor_after_nonconvergence

bool	Keep_temporal_error_below_tolerance

Static Protected Attributes inherited from oomph::Problem
static ContinuationStorageScheme	Continuation_time_stepper
	Storage for the single static continuation timestorage object. More...

Detailed Description

template<class TWO_D_ELEMENT, class THREE_D_ELEMENT>
class ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >

//////////////////////////////////////////////////////////////////// //////////////////////////////////////////////////////////////////// //////////////////////////////////////////////////////////////////// Poisson problem in an extruded 3D domain. Used to illustrate the mesh extrusion machinery with objects that move "over time" through their macro-element representation. We're using a steady Poisson problem to show that we don't need genuine time dependence to make use of the extrusion toolset.

Constructor & Destructor Documentation

◆ ExtrudedMovingCylinderProblem()

template<class TWO_D_ELEMENT , class THREE_D_ELEMENT >

ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >::ExtrudedMovingCylinderProblem ( const PoissonEquations< 3 >::PoissonSourceFctPt & source_fct_pt )

Constructor: pass a pointer to the source function.

Constructor.

                                                               :
   Bulk_mesh_pt(0),
   Source_fct_pt(0)
 {
   // Setup the steepness of step in the exact tanh solution
   TanhSolnForPoisson::Alpha=1.0;
  
   // Generate the 2D mesh and extrude it to create the 3D mesh we want
   create_extruded_mesh();
  
   // Apply the chosen Dirichlet boundary conditions
   apply_boundary_conditions();
  
   // Complete the build of the elements; pass pointers to physical variables
   complete_element_setup();
  
   // Attach the boundary conditions to the mesh
   oomph_info << "Number of equations: " << assign_eqn_numbers() << std::endl;
 } // End of ExtrudedMovingCylinderProblem

References TanhSolnForPoisson::Alpha, ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >::apply_boundary_conditions(), oomph::Problem::assign_eqn_numbers(), ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >::complete_element_setup(), ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >::create_extruded_mesh(), and oomph::oomph_info.

◆ ~ExtrudedMovingCylinderProblem()

template<class TWO_D_ELEMENT , class THREE_D_ELEMENT >

ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >::~ExtrudedMovingCylinderProblem ( )

inline

Destructor: Empty.

308 {}

Member Function Documentation

◆ actions_after_adapt()

template<class TWO_D_ELEMENT , class THREE_D_ELEMENT >

void ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >::actions_after_adapt ( )

inlinevirtual

Update the problem specs after adaptation.

Apply boundary conditions

Reimplemented from oomph::Problem.

   {
     apply_boundary_conditions();
  
     // Complete the build of the elements; pass pointers to physical variables
     complete_element_setup();
   } // End of actions_after_adapt

◆ actions_after_newton_solve()

template<class TWO_D_ELEMENT , class THREE_D_ELEMENT >

void ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >::actions_after_newton_solve ( )

inlinevirtual

Update the problem specs after solve (empty)

Apply boundary conditions

Reimplemented from oomph::Problem.

   {
     apply_boundary_conditions();
   }

◆ actions_before_newton_solve()

template<class TWO_D_ELEMENT , class THREE_D_ELEMENT >

void ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >::actions_before_newton_solve ( )

inlinevirtual

Update the problem specs before solve.

Reimplemented from oomph::Problem.

311 {}

◆ apply_boundary_conditions()

template<class TWO_D_ELEMENT , class THREE_D_ELEMENT >

void ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >::apply_boundary_conditions

Apply boundary conditions.

Apply the chosen Dirichlet boundary conditions.

 {
   // How many boundaries does this mesh have?
   unsigned n_boundary=mesh_pt()->nboundary();
  
   // Loop over the boundaries
   for (unsigned b=0; b<n_boundary; b++)
   {
     // How many nodes are there on this boundary?
     unsigned n_boundary_node=mesh_pt()->nboundary_node(b);
  
     // Loop over the nodes on boundary
     for (unsigned n=0; n<n_boundary_node; n++)
     {
       // Grab a pointer to the n-th node on the b-th boundary
       Node* nod_pt=mesh_pt()->boundary_node_pt(b,n);
  
       Vector<double> x(3);
       x[0]=nod_pt->x(0);
       x[1]=nod_pt->x(1);
       x[2]=nod_pt->x(2);
  
       // Storage for the solution
       double u=0.0;
  
       // What is the exact solution at this Node?
       TanhSolnForPoisson::get_exact_u(x,u);
  
       // Pin this BC node
       nod_pt->pin(0);
  
       // Assign the solution
       nod_pt->set_value(0,u);
     }
   } // for (unsigned b=0; b<n_boundary; b++)
 } // End of apply_boundary_conditions

References b, TanhSolnForPoisson::get_exact_u(), n, oomph::Data::pin(), oomph::Data::set_value(), plotDoE::x, and oomph::Node::x().

Referenced by ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >::ExtrudedMovingCylinderProblem().

◆ complete_element_setup()

template<class TWO_D_ELEMENT , class THREE_D_ELEMENT >

void ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >::complete_element_setup

Complete problem setup: pass pointers to physical variables.

 {
   // Complete the build of all elements so they are fully functional
  
   // The number of elements in the mesh
   unsigned n_element=Bulk_mesh_pt->nelement();
  
   // Loop over the elements to set up element-specific things that cannot
   // be handled by the (argument-free!) element constructor: Pass pointer
   // to source function
   for (unsigned i=0; i<n_element; i++)
   {
     // Upcast from GeneralsedElement to the present element
     THREE_D_ELEMENT *el_pt=
       dynamic_cast<THREE_D_ELEMENT*>(Bulk_mesh_pt->element_pt(i));
  
     // Set the source function pointer
     el_pt->source_fct_pt()=Source_fct_pt;
   }
 } // End of complete_element_setup

References i, and oomph::Source_fct_pt.

Referenced by ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >::ExtrudedMovingCylinderProblem().

◆ create_extruded_mesh()

template<class TWO_D_ELEMENT , class THREE_D_ELEMENT >

void ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >::create_extruded_mesh

Create the 2D mesh and extrude it to create the 3D mesh.

Build the extruded mesh.

Number of uniform refinements before any solve

 {
   // Start the clock
   double timer_s=TimingHelpers::timer();
  
   //-------------------
   // Create the 2D mesh
   //-------------------
   // Use BDF2
   add_time_stepper_pt(new Steady<0>);
  
   // Make a new cylinder
   // NOTE: This needs to be kept alive as long as updates are going to be
   // made to the mesh as it will be needed to calculate the positions of
   // nodes through their extruded macro-element local coordinates
   GlobalParameters::Cylinder_pt=
     new OscillatingCylinder(&GlobalParameters::Radius,
                             &GlobalParameters::Amplitude,
                             time_pt());
  
   // Build central mesh
   RefineableRectangleWithHoleAndAnnularRegionMesh<TWO_D_ELEMENT>* two_d_mesh_pt=
     new RefineableRectangleWithHoleAndAnnularRegionMesh<TWO_D_ELEMENT>(
     GlobalParameters::Cylinder_pt,
     GlobalParameters::Annular_region_radius,
     GlobalParameters::Length_of_box,
     time_stepper_pt(0));
  
   for (unsigned i=0; i<GlobalParameters::N_uniform_refinement_before_solve; i++)
   {
     // Refine the pre-extruded mesh
     two_d_mesh_pt->refine_uniformly();
   }
  
   //--------------------------------
   // Now generate the extruded mesh!
   //--------------------------------
   // The number of elements in the z-direction
   unsigned n_z=GlobalParameters::N_element_z;
  
   // The length of the mesh in the z-direction
   double l_z=GlobalParameters::Length_z;
  
   // Create the extruded mesh
   Bulk_mesh_pt=new RefineableExtrudedCubeMeshFromQuadMesh<THREE_D_ELEMENT>(
     two_d_mesh_pt,n_z,l_z);
  
   // Set the error estimator
   Bulk_mesh_pt->spatial_error_estimator_pt()=new Z2ErrorEstimator;
  
   // Set limits on the error
   Bulk_mesh_pt->max_permitted_error()=1.0e-02;
   Bulk_mesh_pt->min_permitted_error()=1.0e-04;
  
   // Store the mesh pointer
   Problem::mesh_pt()=Bulk_mesh_pt;
  
   // Document the setup time
   oomph_info << "\nTime taken for mesh extrusion/setup [sec]: "
              << TimingHelpers::timer()-timer_s << std::endl;
 } // End of create_extruded_mesh

References GlobalParameters::Amplitude, GlobalParameters::Annular_region_radius, GlobalParameters::Cylinder_pt, i, GlobalParameters::Length_of_box, GlobalParameters::Length_z, GlobalParameters::N_element_z, GlobalParameters::N_uniform_refinement_before_solve, oomph::oomph_info, GlobalParameters::Radius, and oomph::TreeBasedRefineableMeshBase::refine_uniformly().

Referenced by ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >::ExtrudedMovingCylinderProblem().

◆ doc_solution()

template<class TWO_D_ELEMENT , class THREE_D_ELEMENT >

void ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >::doc_solution

Document the solution.

Doc the solution: doc_info contains labels/output directory etc.

 {
   // Start the clock
   double timer_s=TimingHelpers::timer();
  
   // Make an ofstream object to output the solution
   std::ofstream some_file;
  
   // Storage for the filename
   char filename[200];
  
   // Number of plot points to use for the big space-time solution
   unsigned n_plot_point=2;
  
   //-----------------
   // Output solution:
   //-----------------
   // Create the filename
   sprintf(filename,"%s/soln%i.dat",
           GlobalParameters::Doc_info.directory().c_str(),
           GlobalParameters::Doc_info.number());
  
   // Open a file with the constructed filename
   some_file.open(filename);
  
   // Output the (numerically) approximated solution
   Bulk_mesh_pt->output(some_file,n_plot_point);
  
   // We're done; close the file
   some_file.close();
  
   //-----------------------
   // Output exact solution:
   //-----------------------
   sprintf(filename,"%s/exact_soln%i.dat",
           GlobalParameters::Doc_info.directory().c_str(),
           GlobalParameters::Doc_info.number());
  
   // Open a file with the constructed filename
   some_file.open(filename);
  
   // Output the exact solution
   mesh_pt()->output_fct(some_file,n_plot_point,TanhSolnForPoisson::get_exact_u);
  
   // We're done; close the file
   some_file.close();
  
   //----------------------------------
   // Output the error in the solution:
   //----------------------------------
   // Storage for the error and solution norm
   double error=0.0, norm=0.0;
  
   // Create the filename
   sprintf(filename,"%s/error%i.dat",
           GlobalParameters::Doc_info.directory().c_str(),
           GlobalParameters::Doc_info.number());
  
   // Open a file with the constructed filename
   some_file.open(filename);
  
   // Output the (numerically) approximated solution
   Bulk_mesh_pt->compute_error(some_file,
                               TanhSolnForPoisson::get_exact_u,
                               error,norm);
  
   // We're done; close the file
   some_file.close();
  
   //--------------------
   // Document the error:
   //--------------------
   // Document the error
   oomph_info << "Solution norm: " << sqrt(norm)
              << "\nError norm: " << sqrt(error)
              << "\nRelative error norm: " << sqrt(error)/sqrt(norm)
              << std::endl;
  
   // Finally, output the time taken
   oomph_info << "\nTotal time for documentation [sec]: "
              << TimingHelpers::timer()-timer_s << std::endl;
  
   // Increment counter for solutions
   GlobalParameters::Doc_info.number()++;
 } // End of doc_solution

References GlobalParameters::Doc_info, calibrate::error, MergeRestartFiles::filename, TanhSolnForPoisson::get_exact_u(), oomph::DocInfo::number(), oomph::oomph_info, and sqrt().

Member Data Documentation

◆ Bulk_mesh_pt

template<class TWO_D_ELEMENT , class THREE_D_ELEMENT >

RefineableExtrudedCubeMeshFromQuadMesh<THREE_D_ELEMENT>* ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >::Bulk_mesh_pt

private

Pointer to the extruded messh.

◆ Source_fct_pt

template<class TWO_D_ELEMENT , class THREE_D_ELEMENT >

PoissonEquations<3>::PoissonSourceFctPt ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >::Source_fct_pt

private

Pointer to source function.

The documentation for this class was generated from the following file:

extrude_with_macro_element_representation.cc

Public Member Functions

Private Attributes

Additional Inherited Members

Detailed Description

template<class TWO_D_ELEMENT, class THREE_D_ELEMENT> class ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >

Constructor & Destructor Documentation

◆ ExtrudedMovingCylinderProblem()

◆ ~ExtrudedMovingCylinderProblem()

Member Function Documentation

◆ actions_after_adapt()

◆ actions_after_newton_solve()

◆ actions_before_newton_solve()

◆ apply_boundary_conditions()

◆ complete_element_setup()

◆ create_extruded_mesh()

◆ doc_solution()

Member Data Documentation

◆ Bulk_mesh_pt

◆ Source_fct_pt

template<class TWO_D_ELEMENT, class THREE_D_ELEMENT>
class ExtrudedMovingCylinderProblem< TWO_D_ELEMENT, THREE_D_ELEMENT >