Problem class for Anne's MSc problem. More...

Inheritance diagram for VorticityRecoveryProblem< ELEMENT >:

Public Member Functions
	VorticityRecoveryProblem ()
	Constructor: More...

void	actions_before_newton_solve ()

void	actions_after_newton_solve ()
	Update after solve is empty. More...

void	actions_before_adapt ()
	Actions before adapt: empty. More...

void	actions_after_adapt ()
	After adaptation. More...

void	apply_boundary_conditions ()
	Apply Dirichlet conditions on all of the boundaries. More...

void	complete_problem_setup ()
	Complete problem setup. More...

void	assign_synthetic_veloc_field ()
	Assign the synthetic flow field. More...

void	check_smoothed_vorticity (DocInfo &doc_info)
	Check the vorticity smoothing. More...

void	doc_solution (DocInfo &doc_info, const bool &vorticity_recovered=false)
	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

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
VorticitySmoother< ELEMENT > *	Vorticity_recoverer_pt
	Vorticity recoverer. 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 ELEMENT>
class VorticityRecoveryProblem< ELEMENT >

Problem class for Anne's MSc problem.

Constructor & Destructor Documentation

◆ VorticityRecoveryProblem()

template<class ELEMENT >

VorticityRecoveryProblem< ELEMENT >::VorticityRecoveryProblem

Constructor:

Problem constructor.

 {
  // Set the order of vorticity recovery
  unsigned nrecovery_order=2;
  
  // Make an instance of the vorticity recoverer
  Vorticity_recoverer_pt=new VorticitySmoother<ELEMENT>(nrecovery_order);
  
  // Allocate the timestepper
  add_time_stepper_pt(new BDF<2>); 
  
  // Number of elements in x direction.
  // purely nominal initial value
  unsigned n_x=4;
  
  // Number of elements in y direction
  // purely nominal initial value
  unsigned n_y=4; 
  
  // Left end of computational domain
  double x_min=0.0;
  
  // Right end of computational domain
  double x_max=GlobalParameters::Length;
  
  // Botton of computational domain
  double y_min=0.0;
  
  // Height of computational domain
  double y_max=GlobalParameters::Height;
  
  // Set the maximum order of vorticity derivatives to calculate to
  // zero -- only calculate the vorticity itself!
  VorticityRecoveryHelpers::Recovery_helper.
   set_maximum_order_of_vorticity_derivative(3);
  
  // Set the maximum order of velocity derivatives to calculate to
  // zero -- don't enable the recovery of the velocity derivatives!
  VorticityRecoveryHelpers::Recovery_helper.
   set_maximum_order_of_velocity_derivative(1);
   
  // Now create the mesh 
  mesh_pt()=new RefineableRectangularQuadMesh<ELEMENT>(n_x,n_y,
                               x_min,x_max,
                               y_min,y_max,
                               time_stepper_pt());
  
  // Apply the appropriate boundary conditions
  apply_boundary_conditions();
  
  // Complete the problem setup to make the elements fully functional
  complete_problem_setup();
  
  // Assign equation numbers
  assign_eqn_numbers();
  
  // Assign the initial condition
  assign_synthetic_veloc_field();
 } // End of VorticityRecoveryProblem

References GlobalParameters::Height, GlobalParameters::Length, and oomph::VorticityRecoveryHelpers::Recovery_helper.

Member Function Documentation

◆ actions_after_adapt()

template<class ELEMENT >

void VorticityRecoveryProblem< ELEMENT >::actions_after_adapt ( )

inlinevirtual

After adaptation.

Reimplemented from oomph::Problem.

  {
   // Apply the appropriate boundary conditions
   apply_boundary_conditions();
   
   // Do everything that needs to be done to complete the problem setup
   complete_problem_setup();
  } // End of actions_after_adapt

◆ actions_after_newton_solve()

template<class ELEMENT >

void VorticityRecoveryProblem< ELEMENT >::actions_after_newton_solve ( )

inlinevirtual

Update after solve is empty.

Reimplemented from oomph::Problem.

217 {}

◆ actions_before_adapt()

template<class ELEMENT >

void VorticityRecoveryProblem< ELEMENT >::actions_before_adapt ( )

inlinevirtual

Actions before adapt: empty.

Reimplemented from oomph::Problem.

220 {}

◆ actions_before_newton_solve()

template<class ELEMENT >

void VorticityRecoveryProblem< ELEMENT >::actions_before_newton_solve ( )

inlinevirtual

Any actions that are to be performed before a complete Newton solve (e.g. adjust boundary conditions). CAREFUL: This step should (and if the FD-based LinearSolver FD_LU is used, must) only update values that are pinned!

Reimplemented from oomph::Problem.

214 {}

◆ apply_boundary_conditions()

template<class ELEMENT >

void VorticityRecoveryProblem< ELEMENT >::apply_boundary_conditions

Apply Dirichlet conditions on all of the boundaries.

Apply the appropriate boundary conditions.

 { 
  // The number of dimensions in the mesh
  unsigned n_dim=2;
    
  // Storage for the (Eulerian) coordinates of the node
  Vector<double> x(n_dim,0.0);
    
  // Storage for the velocity components
  Vector<double> u(n_dim,0.0);
    
  // Get the number of boundaries in the mesh
  unsigned num_bound=mesh_pt()->nboundary();
  
  // Loop over the boundaries
  for (unsigned ibound=0;ibound<num_bound;ibound++)
  {
   // Get the number of nodes on the ibound-th boundary
   unsigned num_nod=mesh_pt()->nboundary_node(ibound);
  
   // Loop over the nodes on the ibound-th boundary
   for (unsigned inod=0;inod<num_nod;inod++)
   {
    // Get a pointer to the inod-th node on the ibound-th boundary
    Node* node_pt=mesh_pt()->boundary_node_pt(ibound,inod);
    
    // Get the global coordinates of this node
    node_pt->position(x);
    
    // Get the exact velocity field values at this node
    GlobalParameters::synthetic_velocity_field(x,u);
  
    // Loop over the velocity components
    for (unsigned i=0;i<n_dim;i++)
    {    
     // Pin the i-th velocity component
     node_pt->pin(i);
  
     // Set the i-th velocity component value
     node_pt->set_value(i,u[i]);
    } 
   } // for (unsigned inod=0;inod<num_nod;inod++)
  } // for (unsigned ibound=0;ibound<num_bound;ibound++)
 } // End of apply_boundary_conditions

References i, oomph::Data::pin(), oomph::Node::position(), oomph::Data::set_value(), GlobalParameters::synthetic_velocity_field(), and plotDoE::x.

◆ assign_synthetic_veloc_field()

template<class ELEMENT >

void VorticityRecoveryProblem< ELEMENT >::assign_synthetic_veloc_field

Assign the synthetic flow field.

 { 
  // The number of dimensions in the mesh
  unsigned n_dim=2;
    
  // Storage for the (Eulerian) coordinates of the node
  Vector<double> x(n_dim,0.0);
    
  // Storage for the velocity components
  Vector<double> u(n_dim,0.0);
  
  // Get the number of nodes in the mesh
  unsigned num_nod=mesh_pt()->nnode();
  
  // Loop over nodes
  for (unsigned n=0;n<num_nod;n++)
  {
   // Get a pointer to the n-th node in the mesh
   Node* node_pt=mesh_pt()->node_pt(n);
   
   // Get the nodal coordinates of the n-th node in the mesh
   node_pt->position(x);
    
   // Get initial velocity field
   GlobalParameters::synthetic_velocity_field(x,u);
    
   // Loop over the velocity components
   for (unsigned i=0;i<n_dim;i++)
   {    
    // Set the i-th velocity component value
    node_pt->set_value(i,u[i]);
   }
  } // for (unsigned n=0;n<num_nod;n++)
 } // End of assign_synthetic_veloc_field

References i, n, oomph::Node::position(), oomph::Data::set_value(), GlobalParameters::synthetic_velocity_field(), and plotDoE::x.

◆ check_smoothed_vorticity()

template<class ELEMENT >

void VorticityRecoveryProblem< ELEMENT >::check_smoothed_vorticity ( DocInfo & doc_info )

Check the vorticity smoothing.

Check the smoothed vorticity.

 { 
  // Get any element in the mesh
  ELEMENT* const el_pt=dynamic_cast<ELEMENT*>(mesh_pt()->element_pt(0));
  
  ofstream some_file;
  char filename[10000];
  sprintf(filename,"%s/vorticity_convergence.dat",
          doc_info.directory().c_str());
  some_file.open(filename);
  some_file << "VARIABLES=\"nel\",\"sqrt(1/nel)\",";
  if (el_pt->nvorticity_derivatives_to_recover()>=1)
  {
   some_file << "\"Error(vort)\",";
  }
  if (el_pt->nvorticity_derivatives_to_recover()>=3)
  {
   some_file << "\"Error(dvort/dx)\","
         << "\"Error(dvort/dy)\",";
  }
  if (el_pt->nvorticity_derivatives_to_recover()>=6)
  {
   some_file << "\"Error(d^2vort/dx^2)\","
         << "\"Error(d^2vort/dxdy)\","
         << "\"Error(d^2vort/dy^2)\",";
  }
  if (el_pt->nvorticity_derivatives_to_recover()>=10)
  {
   some_file << "\"Error(d^3vort/dx^3)\","
         << "\"Error(d^3vort/dx^2dy)\","
         << "\"Error(d^3vort/dxdy^2)\","
         << "\"Error(d^3vort/dy^3)\",";
  }
  if (el_pt->nvelocity_derivatives_to_recover()==4)
  {
   some_file << "\"Error(du/dx)\","
         << "\"Error(du/dy)\","
         << "\"Error(dv/dx)\","
         << "\"Error(dv/dy)\",";
  }
  some_file << "\"Area\"\n";
  
  // Number of derivatives to be recovered
  unsigned n_recovered_derivs=(el_pt->nvorticity_derivatives_to_recover()+
                   el_pt->nvelocity_derivatives_to_recover());
  
  // Uniform mesh refinements
  unsigned n=4;
  
  // Loop over mesh refinements
  for (unsigned ii=0;ii<n;ii++)
  {  
   // Refine the mesh if we've already recovered the vorticity with this mesh
   if (ii>0)
   {
    // Refine the mesh
    refine_uniformly();
   }
   
   // Assign the synthetic velocity field
   assign_synthetic_veloc_field();
  
   // Create some space in the output
   oomph_info << std::endl;
   
   // Recover the vorticity field from the velocity field
   Vorticity_recoverer_pt->recover_vorticity(mesh_pt());
  
   // Create some space in the output
   oomph_info << std::endl;
   
   // Storage for the area of the mesh
   double full_area=0.0;
   
   // Storage for the error in the projection
   Vector<double> full_error(n_recovered_derivs,0.0);
  
   // Get the number of elements in the mesh
   unsigned n_el=mesh_pt()->nelement();
  
   // Output the number of elements and the square root of its inverse
   some_file << n_el << " " << sqrt(1.0/double(n_el)) << " ";
  
   // Now loop over the elements in the mesh
   for (unsigned e=0;e<n_el;e++)
   {
    // Upcast the e-th element in the mesh
    ELEMENT* el_pt=dynamic_cast<ELEMENT*>(mesh_pt()->element_pt(e));
  
    // Get the size of the element
    double size=el_pt->size();
  
    // Update the mesh area variable
    full_area+=size;
  
    // Now loop over the recovered fields
    for (unsigned i=0;i<n_recovered_derivs;i++)
    {
     // Calculate the error in the i-th recovered field
     double el_error=el_pt->vorticity_error_squared(i);
  
     // Update the total error value
     full_error[i]+=el_error;
    }
   } // for (unsigned e=0;e<nel;e++)
  
   // Now loop over the recovered derivatives
   for (unsigned i=0;i<n_recovered_derivs;i++)
   {
    // Output the error in the i-th recovered quantity
    some_file << sqrt(full_error[i]) << " ";
   }
  
   // Output the total area of the mesh
   some_file << full_area << " " << std::endl;
    
   // Document the solution and indicate that we've recovered the vorticity
   doc_solution(doc_info,true);
  } // for (unsigned ii=0;ii<n;ii++)
  
  // Close the output file
  some_file.close();
 } // End of check_smoothed_vorticity

References oomph::DocInfo::directory(), e(), MergeRestartFiles::filename, i, n, oomph::oomph_info, size, and sqrt().

◆ complete_problem_setup()

template<class ELEMENT >

void VorticityRecoveryProblem< ELEMENT >::complete_problem_setup

Complete problem setup.

 {
  // Unpin all pressure dofs
  RefineableNavierStokesEquations<2>::
   unpin_all_pressure_dofs(mesh_pt()->element_pt());
  
  // Get the number of elements in the mesh
  unsigned n_el=mesh_pt()->nelement();
  
  // Loop over the elements
  for (unsigned e=0;e<n_el;e++)
  {
   // Upcast to a fluid element
   ELEMENT* el_pt=dynamic_cast<ELEMENT*>(mesh_pt()->element_pt(e));
  
   // Set the Reynolds number
   el_pt->re_pt()=&GlobalParameters::Re;
  
   // Set the Womersley number, i.e. Reynolds*Strouhal
   el_pt->re_st_pt()=&GlobalParameters::Re;
  
   // Set exact solution for vorticity and derivatives (for validation)
   el_pt->exact_vorticity_fct_pt()=&GlobalParameters::synthetic_vorticity;
  
   // Pin the smoothed vorticity
   el_pt->pin_smoothed_vorticity();
  } 
  
  // Upcast the first element to a fluid element
  ELEMENT* el_pt=dynamic_cast<ELEMENT*>(mesh_pt()->element_pt(0));
  
  // Calculate the kinematic viscosity (constant everywhere)
  double kinematic_viscosity=(el_pt->viscosity_ratio())/(el_pt->density_ratio());
  
  // Assign it!
  GlobalParameters::Kinematic_viscosity=kinematic_viscosity;
  
  // Pin the redundant pressure dofs
  RefineableNavierStokesEquations<2>::
   pin_redundant_nodal_pressures(mesh_pt()->element_pt());
 } // End of complete_problem_setup

References e(), GlobalParameters::Kinematic_viscosity, GlobalParameters::Re, and GlobalParameters::synthetic_vorticity().

◆ doc_solution()

template<class ELEMENT >

void VorticityRecoveryProblem< ELEMENT >::doc_solution	(	DocInfo &	doc_info,
		const bool &	vorticity_recovered = `false`
	)

Document the solution.

Doc the solution.

 { 
  // Check if we've recovered the vorticity
  if (!vorticity_recovered)
  {
   // Reconstruct smooth vorticity
   Vorticity_recoverer_pt->recover_vorticity(mesh_pt());
  }
  
  // Create an output stream
  ofstream some_file;
  
  // Storage for the file name
  char filename[100];
  
  // Number of plot points
  unsigned npts=2; 
  
  // Create the file name
  sprintf(filename,"%s/soln%i.dat",doc_info.directory().c_str(),
          doc_info.number());
  
  // Open a file with the chosen file name
  some_file.open(filename);
  
  // Output solution 
  mesh_pt()->output(some_file,npts);
  
  // Now close the file; we're done with it
  some_file.close();
  
  // Output analytical vorticity and derivatives -- uses fake
  // (zero) data for velocities and pressure
  sprintf(filename,"%s/analytical_vorticity_and_indicator%i.dat",
      doc_info.directory().c_str(),
      doc_info.number());
  
  // Open a file with the chosen file name
  some_file.open(filename);
  
  // Get the number of elements in the mesh
  unsigned n_el=mesh_pt()->nelement();
  
  // Loop over the elements in the mesh
  for (unsigned e=0;e<n_el;e++)
  {
   // Upcast the e-th element in the mesh
   ELEMENT* el_pt=dynamic_cast<ELEMENT*>(mesh_pt()->element_pt(e));
  
   // Output the analytical vorticity and derivatives
   el_pt->output_analytical_veloc_and_vorticity(some_file,npts);
  }
  
  // Now close the file
  some_file.close();
  
  // Increment the Doc_info object counter
  doc_info.number()++;
 } // End of doc_solution   

References oomph::DocInfo::directory(), e(), MergeRestartFiles::filename, and oomph::DocInfo::number().

Member Data Documentation

◆ Vorticity_recoverer_pt

template<class ELEMENT >

VorticitySmoother<ELEMENT>* VorticityRecoveryProblem< ELEMENT >::Vorticity_recoverer_pt

private

Vorticity recoverer.

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

vorticity_smoother_validation.cc

Public Member Functions

Private Attributes

Additional Inherited Members

Detailed Description

template<class ELEMENT> class VorticityRecoveryProblem< ELEMENT >

Constructor & Destructor Documentation

◆ VorticityRecoveryProblem()

Member Function Documentation

◆ actions_after_adapt()

◆ actions_after_newton_solve()

◆ actions_before_adapt()

◆ actions_before_newton_solve()

◆ apply_boundary_conditions()

◆ assign_synthetic_veloc_field()

◆ check_smoothed_vorticity()

◆ complete_problem_setup()

◆ doc_solution()

Member Data Documentation

◆ Vorticity_recoverer_pt

template<class ELEMENT>
class VorticityRecoveryProblem< ELEMENT >