CollapsibleChannelProblem< ELEMENT > Class Template Reference

Problem class. More...

Inheritance diagram for CollapsibleChannelProblem< ELEMENT >:

Public Member Functions
	CollapsibleChannelProblem (const unsigned &nup, const unsigned &ncollapsible, const unsigned &ndown, const unsigned &ny, const double &lup, const double &lcollapsible, const double &ldown, const double &ly, const double &amplitude, const double &period)
	Constructor for the collapsible channel problem. More...
	~CollapsibleChannelProblem ()
	Empty destructor. More...
RefineableCollapsibleChannelMesh< ELEMENT > *	bulk_mesh_pt ()
	Access function for the specific mesh. More...
void	actions_before_newton_solve ()
	Update the problem specs before solve (empty) More...
void	actions_after_newton_solve ()
	Update the problem after solve (empty) More...
void	actions_before_implicit_timestep ()
	Update the velocity boundary condition on the moving wall. More...
void	actions_before_adapt ()
	Actions before adapt: Wipe the mesh of prescribed traction elements. More...
void	actions_after_adapt ()
	Actions after adapt: Rebuild the mesh of prescribed traction elements. More...
void	set_initial_condition ()
	Apply initial conditions. More...
void	doc_solution (DocInfo &doc_info, ofstream &trace_file)
	Doc the solution. More...
	CollapsibleChannelProblem (const unsigned &nup, const unsigned &ncollapsible, const unsigned &ndown, const unsigned &ny, const double &lup, const double &lcollapsible, const double &ldown, const double &ly, const double &amplitude, const double &period)
	~CollapsibleChannelProblem ()
	Empty destructor. More...
MyAlgebraicCollapsibleChannelMesh< ELEMENT > *	bulk_mesh_pt ()
	Access function for the specific mesh. More...
void	actions_before_newton_solve ()
	Update the problem specs before solve (empty) More...
void	actions_after_newton_solve ()
	Update the problem after solve (empty) More...
void	actions_before_implicit_timestep ()
	Update the velocity boundary condition on the moving wall. More...
void	actions_before_adapt ()
	Actions before adapt: Wipe the mesh of prescribed traction elements. More...
void	actions_after_adapt ()
	Actions after adapt: Rebuild the mesh of prescribed traction elements. More...
void	set_initial_condition ()
	Apply initial conditions. More...
void	doc_solution (DocInfo &doc_info, ofstream &trace_file)
	Doc the solution. More...
	CollapsibleChannelProblem (const unsigned &nup, const unsigned &ncollapsible, const unsigned &ndown, const unsigned &ny, const double &lup, const double &lcollapsible, const double &ldown, const double &ly, const double &limpedance, const double &amplitude, const double &period, const unsigned &outflow)
	Constructor for the collapsible channel problem. More...
	~CollapsibleChannelProblem ()
	Empty destructor. More...
RefineableCollapsibleChannelMesh< ELEMENT > *	bulk_mesh_pt ()
	Access function for the fluid bulk mesh. More...
Mesh *&	outflow_impedance_master_mesh_pt ()
void	doc_solution (DocInfo &doc_info, ofstream &trace_file)
	Doc the solution. More...
void	unsteady_run (string directory_for_data, double nstep, const bool &validation_run=false)
	Run unsteady problem. More...
void	refine_elements_based_on_x_coord (const double &x_min, const double &x_max)
void	switch_off_wall_oscillations ()
	Function to switch off wall oscillations. More...
Mesh *	create_mesh_for_navier_stokes_preconditioner ()
	Create a mesh for the NavierStokes Preconditioner. More...
	CollapsibleChannelProblem (const unsigned &nup, const unsigned &ncollapsible, const unsigned &ndown, const unsigned &ny, const double &lup, const double &lcollapsible, const double &ldown, const double &ly, const double &amplitude, const double &period)
	~CollapsibleChannelProblem ()
	Empty destructor. More...
RefineableCollapsibleChannelMesh< ELEMENT > *	bulk_mesh_pt ()
	Access function for the specific mesh. More...
void	actions_before_newton_solve ()
	Update the problem specs before solve (empty) More...
void	actions_after_newton_solve ()
	Update the problem after solve (empty) More...
void	actions_before_newton_convergence_check ()
	Update no slip before Newton convergence check. More...
void	actions_before_implicit_timestep ()
	Update the velocity boundary condition on the moving wall. More...
void	actions_before_adapt ()
	Actions before adapt: Wipe the mesh of prescribed traction elements. More...
void	actions_after_adapt ()
	Actions after adapt: Rebuild the mesh of prescribed traction elements. More...
void	set_initial_condition ()
	Apply initial conditions. More...
void	doc_solution (DocInfo &doc_info, ofstream &trace_file)
	Doc the solution. More...
	CollapsibleChannelProblem (const unsigned &nup, const unsigned &ncollapsible, const unsigned &ndown, const unsigned &ny, const double &lup, const double &lcollapsible, const double &ldown, const double &ly, const double &limpedance, const double &amplitude, const double &period, const unsigned &outflow)
	~CollapsibleChannelProblem ()
	Empty destructor. More...
RefineableCollapsibleChannelMesh< ELEMENT > *	bulk_mesh_pt ()
	Access function for the fluid bulk mesh. More...
Mesh *&	outflow_impedance_master_mesh_pt ()
void	doc_solution (DocInfo &doc_info, ofstream &trace_file)
	Doc the solution. More...
void	unsteady_run (string directory_for_data, double nstep, const bool &validation_run=false)
	Run unsteady problem. More...
void	refine_elements_based_on_x_coord (const double &x_min, const double &x_max)
void	switch_off_wall_oscillations ()
	Function to switch off wall oscillations. More...
Mesh *	create_mesh_for_navier_stokes_preconditioner ()
	Create a mesh for the NavierStokesSchurComplementPreconditioner. 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 ()

Protected Member Functions
void	set_poiseuille_outflow ()
	Apply Poiseuille flow on outlet. More...
void	set_parallel_outflow ()
	Apply parallel flow on outlet. More...
void	actions_before_newton_solve ()
	Update the problem specs before solve. More...
void	actions_after_newton_solve ()
	Update the problem after solve (empty) More...
void	actions_before_implicit_timestep ()
	Update the velocity boundary condition on the moving wall. More...
void	actions_before_adapt ()
	Actions before adapt: Wipe the mesh of prescribed traction elements. More...
void	actions_after_adapt ()
	Actions after adapt: Rebuild the mesh of prescribed traction elements. More...
void	set_initial_condition ()
	Apply initial conditions. More...
void	set_poiseuille_outflow ()
	Apply Poiseuille flow on outlet. More...
void	set_parallel_outflow ()
	Apply parallel flow on outlet. More...
void	actions_before_newton_solve ()
	Update the problem specs before solve. More...
void	actions_after_newton_solve ()
	Update the problem after solve (empty) More...
void	actions_before_implicit_timestep ()
	Update the velocity boundary condition on the moving wall. More...
void	actions_before_adapt ()
	Actions before adapt: Wipe the mesh of prescribed traction elements. More...
void	actions_after_adapt ()
	Actions after adapt: Rebuild the mesh of prescribed traction elements. More...
void	set_initial_condition ()
	Apply initial conditions. 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_step ()
virtual void	actions_after_newton_step ()
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 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 ()

Private Member Functions
void	create_traction_elements (const unsigned &b, Mesh *const &bulk_mesh_pt, Mesh *const &surface_mesh_pt)
	Create the traction elements. More...
void	delete_traction_elements (Mesh *const &surface_mesh_pt)
	Delete prescribed traction elements from the surface mesh. More...
void	create_traction_elements (const unsigned &b, Mesh *const &bulk_mesh_pt, Mesh *const &surface_mesh_pt)
void	delete_traction_elements (Mesh *const &surface_mesh_pt)
	Delete prescribed traction elements from the surface mesh. More...
void	delete_outflow_flux_control_elements ()
	Delete flux control elements from outflow boundary. More...
void	setup_outflow_flux_control_elements ()
	Attach flux control elements to outflow boundary. More...
void	setup_inflow_traction_elements ()
	Create the prescribed traction elements on the inflow. More...
void	delete_inflow_traction_elements ()
	Delete prescribed traction elements from the surface mesh. More...
void	delete_outflow_impedance_elements ()
	Delete impedance elements from outflow boundary. More...
void	setup_outflow_impedance_elements ()
	Attach impedance elements to outflow boundary. More...
void	create_traction_elements (const unsigned &b, Mesh *const &bulk_mesh_pt, Mesh *const &surface_mesh_pt)
void	delete_traction_elements (Mesh *const &surface_mesh_pt)
	Delete prescribed traction elements from the surface mesh. More...
void	create_lagrange_multiplier_elements ()
	Create elements that impose the prescribed boundary displacement. More...
void	delete_lagrange_multiplier_elements ()
void	delete_outflow_flux_control_elements ()
	Delete flux control elements from outflow boundary. More...
void	setup_outflow_flux_control_elements ()
	Attach flux control elements to outflow boundary. More...
void	setup_inflow_traction_elements ()
	Create the prescribed traction elements on the inflow. More...
void	delete_inflow_traction_elements ()
	Delete prescribed traction elements from the surface mesh. More...
void	delete_outflow_impedance_elements ()
void	setup_outflow_impedance_elements ()

Private Attributes
unsigned	Nup
	Number of elements in the x direction in the upstream part of the channel. More...
unsigned	Ncollapsible
unsigned	Ndown
	Number of elements in the x direction in the downstream part of the channel. More...
unsigned	Ny
	Number of elements across the channel. More...
double	Lup
	x-length in the upstream part of the channel More...
double	Lcollapsible
	x-length in the "collapsible" part of the channel More...
double	Ldown
	x-length in the downstream part of the channel More...
double	Ly
	Transverse length. More...
OscillatingWall *	Wall_pt
	Pointer to the geometric object that parametrises the "collapsible" wall. More...
RefineableCollapsibleChannelMesh< ELEMENT > *	Bulk_mesh_pt
	Pointer to the "bulk" mesh. More...
Mesh *	Surface_mesh_pt
Node *	Left_node_pt
	Pointer to the left control node. More...
Node *	Right_node_pt
	Pointer to right control node. More...
MyAlgebraicCollapsibleChannelMesh< ELEMENT > *	Bulk_mesh_pt
	Pointer to the "bulk" mesh. More...
Mesh *	Inflow_traction_mesh_pt
Mesh *	Outflow_flux_control_master_mesh_pt
	Pointer to mesh containing the net flux control element (only!) More...
Mesh *	Outflow_flux_control_sub_mesh_pt
	Pointer to mesh of flux control elements at outflow. More...
WomersleyOutflowImpedanceTube< QWomersleyElement< 1, 3 >, 1 > *	Womersley_impedance_tube_pt
	Pointer to impendance tube. More...
Mesh *	Outflow_impedance_mesh_pt
	Pointer to the impedance mesh. More...
Mesh *	Outflow_impedance_master_mesh_pt
	Pointer to the master impedance mesh when using flux control elements. More...
double	L_impedance
	Length of optional impedance tube. More...
double	Prescribed_volume_flux
	Prescribed volume flux: set to -1 for value consistent with Re. More...
double	Period
	Period of oscillation. More...
double	Amplitude
	Amplitude of osciallation. More...
unsigned	Outflow_type
unsigned	Bulk_mesh_id
	Id of the fluid bulk mesh. More...
ElasticRefineableCollapsibleChannelMesh< ELEMENT > *	Bulk_mesh_pt
	Pointer to the "bulk" mesh. More...
SolidMesh *	Lagrange_multiplier_mesh_pt
	Pointers to meshes of Lagrange multiplier elements. More...
ConstitutiveLaw *	Constitutive_law_pt
	Constitutive law used to determine the mesh deformation. 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 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 CollapsibleChannelProblem< ELEMENT >

Problem class.

Constructor & Destructor Documentation

CollapsibleChannelProblem() [1/5]

template<class ELEMENT >

CollapsibleChannelProblem< ELEMENT >::CollapsibleChannelProblem	(	const unsigned &	nup,
		const unsigned &	ncollapsible,
		const unsigned &	ndown,
		const unsigned &	ny,
		const double &	lup,
		const double &	lcollapsible,
		const double &	ldown,
		const double &	ly,
		const double &	amplitude,
		const double &	period
	)

Constructor for the collapsible channel problem.

Constructor : the arguments are the number of elements, the length of the domain and the amplitude and period of the oscillations

{
 // Number of elements
 Nup=nup;
 Ncollapsible=ncollapsible;
 Ndown=ndown;
 Ny=ny;
 
 // Lengths of domain
 Lup=lup;
 Lcollapsible=lcollapsible;
 Ldown=ldown;
 Ly=ly;
 
 // Overwrite maximum allowed residual to accomodate possibly
 // poor initial guess for solution
 Problem::Max_residuals=10000;
 
 // Allocate the timestepper -- this constructs the Problem's 
 // time object with a sufficient amount of storage to store the
 // previous timsteps. 
 add_time_stepper_pt(new BDF<2>);
 
 // Parameters for wall object
 double height=ly;
 double length=lcollapsible;
 double x_left=lup;
 
 //Create the geometric object that represents the wall
 Wall_pt=new OscillatingWall(height, x_left, length, amplitude, period,
                             time_pt());
 
 //Build mesh
 Bulk_mesh_pt = new RefineableCollapsibleChannelMesh<ELEMENT>(
  nup, ncollapsible, ndown, ny,
  lup, lcollapsible, ldown, ly,
  Wall_pt,
  time_stepper_pt());
 
 
 // Enable boundary layer squash function?
#ifdef USE_BL_SQUASH_FCT
 
 // Set a non-trivial boundary-layer-squash function...
 Bulk_mesh_pt->bl_squash_fct_pt() = &BL_Squash::squash_fct; 
 
 // ... and update the nodal positions accordingly
 Bulk_mesh_pt->node_update();
 
#endif
 // end of boundary layer squash function
 
 
 // Create "surface mesh" that will contain only the prescribed-traction 
 // elements at the inflow. The default constructor just creates the mesh 
 // without giving it any elements, nodes, etc.
 Surface_mesh_pt = new Mesh;
 
 // Create prescribed-traction elements from all elements that are 
 // adjacent to boundary 5 (inflow boundary), and add them to the surface mesh.
 create_traction_elements(5,Bulk_mesh_pt,Surface_mesh_pt);
 
 // Add the two sub meshes to the problem
 add_sub_mesh(Bulk_mesh_pt);
 add_sub_mesh(Surface_mesh_pt);
 
 // Combine all submeshes added so far into a single Mesh
 build_global_mesh();
   
 //Set errror estimator  for bulk mesh
 Z2ErrorEstimator* error_estimator_pt=new Z2ErrorEstimator;
 dynamic_cast<RefineableCollapsibleChannelMesh<ELEMENT>*>
  (Bulk_mesh_pt)->spatial_error_estimator_pt()=error_estimator_pt;
 
 
 // Loop over the elements to set up element-specific 
 // things that cannot be handled by constructor
 unsigned n_element=Bulk_mesh_pt->nelement();
 for(unsigned e=0;e<n_element;e++)
  {
   // Upcast from GeneralisedElement to the present element
   ELEMENT* el_pt = dynamic_cast<ELEMENT*>(Bulk_mesh_pt->element_pt(e));
   
   //Set the Reynolds number
   el_pt->re_pt() = &Global_Physical_Variables::Re;
 
   // Set the Womersley number
   el_pt->re_st_pt() = &Global_Physical_Variables::ReSt;
   
  } // end loop over bulk elements
 
 
 
  // Loop over the traction elements to pass pointer to prescribed 
  // traction function 
  unsigned n_el=Surface_mesh_pt->nelement();
  for(unsigned e=0;e<n_el;e++)
   {
    // Upcast from GeneralisedElement to NavierStokes traction element
    NavierStokesTractionElement<ELEMENT> *el_pt = 
     dynamic_cast< NavierStokesTractionElement<ELEMENT>*>(
      Surface_mesh_pt->element_pt(e));
    
    // Set the pointer to the prescribed traction function
    el_pt->traction_fct_pt() = &Global_Physical_Variables::prescribed_traction;
 
   }  // end loop over applied traction elements
 
  
  
 
 //Pin the velocity on the boundaries
 //x and y-velocities pinned along boundary 0 (bottom boundary) :
 unsigned ibound=0; 
 unsigned num_nod= bulk_mesh_pt()->nboundary_node(ibound);
 for (unsigned inod=0;inod<num_nod;inod++)
  {
   for(unsigned i=0;i<2;i++)
    {
     bulk_mesh_pt()->boundary_node_pt(ibound, inod)->pin(i);
    }
  }
 
 
  //x and y-velocities pinned along boundary 2, 3, 4 (top boundaries) :
 for(unsigned ib=2;ib<5;ib++)
  { 
   num_nod= bulk_mesh_pt()->nboundary_node(ib);
   for (unsigned inod=0;inod<num_nod;inod++)
    {
     for(unsigned i=0;i<2;i++)
      {
       bulk_mesh_pt()->boundary_node_pt(ib, inod)->pin(i);
      }
    }
  }
 
   //y-velocity pinned along boundary 1 (right boundary):
  ibound=1; 
  num_nod= bulk_mesh_pt()->nboundary_node(ibound);
  for (unsigned inod=0;inod<num_nod;inod++)
   {
    bulk_mesh_pt()->boundary_node_pt(ibound, inod)->pin(1);
   }
 
 
  //y-velocity pinned along boundary 5 (left boundary):
  ibound=5; 
  num_nod= bulk_mesh_pt()->nboundary_node(ibound);
  for (unsigned inod=0;inod<num_nod;inod++)
   {
    bulk_mesh_pt()->boundary_node_pt(ibound, inod)->pin(1);
   }// end of pin_velocity
 
 
 
  //Select control nodes "half way" up the inflow/outflow cross-sections
  //--------------------------------------------------------------------
  
  // Left boundary
  ibound=5; 
  num_nod= bulk_mesh_pt()->nboundary_node(ibound);
  unsigned control_nod=num_nod/2;
  Left_node_pt= bulk_mesh_pt()->boundary_node_pt(ibound, control_nod);
  
  // Right boundary
  ibound=1; 
  num_nod= bulk_mesh_pt()->nboundary_node(ibound);
  control_nod=num_nod/2;
  Right_node_pt= bulk_mesh_pt()->boundary_node_pt(ibound, control_nod);
  
  // Setup equation numbering scheme
  cout <<"Number of equations: " << assign_eqn_numbers() << std::endl; 
  
} //end of constructor

References e(), MeshRefinement::error_estimator_pt, Global_Physical_Variables::height(), i, Global_Parameters::Ldown, Global_Parameters::Lup, Mesh_Parameters::ly, Global_Parameters::Ly, Mesh_Parameters::ny, GlobalParameters::Ny, Global_Physical_Variables::prescribed_traction(), Global_Physical_Variables::Re, Global_Physical_Variables::ReSt, BL_Squash::squash_fct(), and oomph::NavierStokesTractionElement< ELEMENT >::traction_fct_pt.

~CollapsibleChannelProblem() [1/5]

template<class ELEMENT >

CollapsibleChannelProblem< ELEMENT >::~CollapsibleChannelProblem ( )

inline

Empty destructor.

{} 

CollapsibleChannelProblem() [2/5]

template<class ELEMENT >

CollapsibleChannelProblem< ELEMENT >::CollapsibleChannelProblem	(	const unsigned &	nup,
		const unsigned &	ncollapsible,
		const unsigned &	ndown,
		const unsigned &	ny,
		const double &	lup,
		const double &	lcollapsible,
		const double &	ldown,
		const double &	ly,
		const double &	amplitude,
		const double &	period
	)

Constructor : the arguments are the number of elements, the length of the domain and the amplitude and period of the oscillations

~CollapsibleChannelProblem() [2/5]

template<class ELEMENT >

CollapsibleChannelProblem< ELEMENT >::~CollapsibleChannelProblem ( )

inline

Empty destructor.

{} 

CollapsibleChannelProblem() [3/5]

template<class ELEMENT >

CollapsibleChannelProblem< ELEMENT >::CollapsibleChannelProblem	(	const unsigned &	nup,
		const unsigned &	ncollapsible,
		const unsigned &	ndown,
		const unsigned &	ny,
		const double &	lup,
		const double &	lcollapsible,
		const double &	ldown,
		const double &	ly,
		const double &	limpedance,
		const double &	amplitude,
		const double &	period,
		const unsigned &	outflow
	)

Constructor for the collapsible channel problem.

Constructor : the arguments are the number of elements, the length of the domain and the amplitude and period of the oscillations

Default length of optional impedance tube

{
 // Number of elements
 Nup=nup;
 Ncollapsible=ncollapsible;
 Ndown=ndown;
 Ny=ny;
 
 // Lengths of domain
 Lup=lup;
 Lcollapsible=lcollapsible;
 Ldown=ldown;
 Ly=ly;
 
 // Other input data
 Period=period;
 Amplitude=amplitude;
 
 // Outflow boundary type
 // 0: prescribed flux boundary conditions
 // 1: impedance boundary conditions
 // 2: impedance boundary conditions using flux control elements 
 // 3: prescribed outflow
 // Otherwise we have pressure driven flow with zero pressure at outlet
 Outflow_type = outflow;
 
 L_impedance=limpedance;
 
 // Overwrite maximum allowed residual to accomodate possibly
 // poor initial guess for solution
 Problem::Max_residuals=100000000;
 
 // Point optional mesh pointers and other stuff to null 
 Inflow_traction_mesh_pt=0;
 Outflow_flux_control_master_mesh_pt=0;
 Outflow_flux_control_sub_mesh_pt=0;
 Outflow_impedance_mesh_pt=0;
 Outflow_impedance_master_mesh_pt=0;
 Womersley_impedance_tube_pt=0;
 
 // Allocate the timestepper -- this constructs the Problem's 
 // time object with a sufficient amount of storage to store the
 // previous timsteps. 
 add_time_stepper_pt(new BDF<2>);
 
 // Parameters for wall object
 double height=ly;
 double length=lcollapsible;
 double x_left=lup;
 
 //Create the geometric object that represents the wall
 Wall_pt=new OscillatingWall(height, x_left, length, amplitude, period,
                             time_pt());
 
 //Build mesh
 Bulk_mesh_pt = new RefineableCollapsibleChannelMesh<ELEMENT>(
  nup, ncollapsible, ndown, ny,
  lup, lcollapsible, ldown, ly,
  Wall_pt,
  time_stepper_pt());
 
 
 // Enable boundary layer squash function?
#ifdef USE_BL_SQUASH_FCT
 
 // Set a non-trivial boundary-layer-squash function...
 Bulk_mesh_pt->bl_squash_fct_pt() = &BL_Squash::squash_fct; 
 
 // ... and update the nodal positions accordingly
 Bulk_mesh_pt->node_update();
 
#endif
 // end of boundary layer squash function
 
 // Add the bulk sub mesh to the problem
 Bulk_mesh_id=add_sub_mesh(Bulk_mesh_pt);
 
 // Create "surface mesh" that will contain only the prescribed-traction 
 // elements at the inflow. The default constructor just creates the mesh 
 // without giving it any elements, nodes, etc.
 Inflow_traction_mesh_pt = new Mesh;
 
 // Create prescribed-traction elements 
 setup_inflow_traction_elements();
 
 // Add the new sub mesh to the problem
 add_sub_mesh(Inflow_traction_mesh_pt);
 
 if (Outflow_type==0)
  {
   oomph_info << "Flux control flow\n";
   
   // Create the flux control meshes
   
   // Construct Outflow_flux_control_master_mesh_pt
   Outflow_flux_control_master_mesh_pt = new Mesh;
   
   // Construct Outflow_flux_control_sub_mesh_pt
   Outflow_flux_control_sub_mesh_pt = new Mesh;
   
   // Set up elements for sub meshes
   setup_outflow_flux_control_elements();
   
   // Add new sub meshes
   add_sub_mesh(Outflow_flux_control_master_mesh_pt);
   add_sub_mesh(Outflow_flux_control_sub_mesh_pt);
  }
 else if (Outflow_type==1)
  {
   oomph_info << "Pressure driven flow with impedance tube of length "
              << L_impedance << "\n";
   
   if (L_impedance>0.0)
    {
     // Construct the mesh
     Outflow_impedance_mesh_pt = new Mesh;
     
     // Set up elements and impedance tube
     setup_outflow_impedance_elements();
     
     // Add new sub meshes
     add_sub_mesh(Outflow_impedance_mesh_pt);
    }
  }
 else if (Outflow_type==2)
  {
   oomph_info << "Pressure driven flow with impedance tube of length "
              << L_impedance << " using flux control elements\n";
   
   if (L_impedance>0.0)
    {
     // Construct Outflow_flux_control_sub_mesh_pt
     Outflow_flux_control_sub_mesh_pt = new Mesh;
     
     // Construct Mesh
     Outflow_impedance_master_mesh_pt = new Mesh;
     
     // Set up elements and impedance tube
     setup_outflow_impedance_elements();
     
     // Add new sub meshes
     add_sub_mesh(Outflow_flux_control_sub_mesh_pt);
     add_sub_mesh(Outflow_impedance_master_mesh_pt);
    }
  }
 else if (Outflow_type==3)
  {
   oomph_info << "Prescribed outflow\n";
  }
 else
  {
   oomph_info << "Pressure driven flow\n";
  }
 
 // Combine all submeshes added so far into a single Mesh
 build_global_mesh();
   
 //Set errror estimator for bulk mesh
 Z2ErrorEstimator* error_estimator_pt=new Z2ErrorEstimator;
 dynamic_cast<RefineableCollapsibleChannelMesh<ELEMENT>*>
  (Bulk_mesh_pt)->spatial_error_estimator_pt()=error_estimator_pt;
 
 
 // Loop over the elements to set up element-specific 
 // things that cannot be handled by constructor
 unsigned n_element=Bulk_mesh_pt->nelement();
 for(unsigned e=0;e<n_element;e++)
  {
   // Upcast from GeneralisedElement to the present element
   ELEMENT* el_pt = dynamic_cast<ELEMENT*>(Bulk_mesh_pt->element_pt(e));
      
   //Set the Reynolds number
   el_pt->re_pt() = &Global_Physical_Variables::Re;
 
   // Set the Womersley number
   el_pt->re_st_pt() = &Global_Physical_Variables::ReSt;
   
  } // end loop over bulk elements
 
 // Pin redudant pressure dofs
 RefineableNavierStokesEquations<2>::
  pin_redundant_nodal_pressures(Bulk_mesh_pt->element_pt());
 
 // Loop over the traction elements to pass pointer to prescribed 
 // traction function 
 if (Inflow_traction_mesh_pt!=0)
  {
   unsigned n_el=Inflow_traction_mesh_pt->nelement();
   for(unsigned e=0;e<n_el;e++)
    {
     // Upcast from GeneralisedElement to NavierStokes traction element
     NavierStokesTractionElement<ELEMENT> *el_pt = 
      dynamic_cast< NavierStokesTractionElement<ELEMENT>*>(
       Inflow_traction_mesh_pt->element_pt(e));
     
     // Set the pointer to the prescribed traction function
     el_pt->traction_fct_pt() = 
      &Global_Physical_Variables::prescribed_traction;
     
    }  // end loop over applied traction elements
  }
  
  
 
 //Pin the velocity on the boundaries
 //x and y-velocities pinned along boundary 0 (bottom boundary) :
 unsigned ibound=0; 
 unsigned num_nod= bulk_mesh_pt()->nboundary_node(ibound);
 for (unsigned inod=0;inod<num_nod;inod++)
  {
   for(unsigned i=0;i<2;i++)
    {
     bulk_mesh_pt()->boundary_node_pt(ibound, inod)->pin(i);
    }
  }
 
 
 //x and y-velocities pinned along boundary 2, 3, 4 (top boundaries) :
 for(unsigned ib=2;ib<5;ib++)
  { 
   num_nod= bulk_mesh_pt()->nboundary_node(ib);
   for (unsigned inod=0;inod<num_nod;inod++)
    {
     for(unsigned i=0;i<2;i++)
      {
       bulk_mesh_pt()->boundary_node_pt(ib, inod)->pin(i);
      }
    }
  }
 
 //y-velocity pinned along boundary 1 (right boundary) and also x-velocity for 
 //prescribed outflow
 ibound=1; 
 num_nod= bulk_mesh_pt()->nboundary_node(ibound);
 for (unsigned inod=0;inod<num_nod;inod++)
  {
   bulk_mesh_pt()->boundary_node_pt(ibound, inod)->pin(1);
   if (Outflow_type==3)
    {
     bulk_mesh_pt()->boundary_node_pt(ibound, inod)->pin(0);
    }
  }
 
  //y-velocity pinned along boundary 5 (left boundary):
  ibound=5; 
  num_nod= bulk_mesh_pt()->nboundary_node(ibound);
  for (unsigned inod=0;inod<num_nod;inod++)
   {
    bulk_mesh_pt()->boundary_node_pt(ibound, inod)->pin(1);
   }// end of pin_velocity
 
 
  //Select control nodes "half way" up the inflow/outflow cross-sections
  //--------------------------------------------------------------------
  
  // Left boundary
  ibound=5; 
  num_nod= bulk_mesh_pt()->nboundary_node(ibound);
  unsigned control_nod=num_nod/2;
  Left_node_pt= bulk_mesh_pt()->boundary_node_pt(ibound, control_nod);
  
  // Right boundary
  ibound=1; 
  num_nod= bulk_mesh_pt()->nboundary_node(ibound);
  control_nod=num_nod/2;
  Right_node_pt= bulk_mesh_pt()->boundary_node_pt(ibound, control_nod);
  
  // Setup equation numbering scheme
  oomph_info <<"Number of equations: " << assign_eqn_numbers() << std::endl; 
 
} //end of constructor

References GlobalParameters::Amplitude, e(), MeshRefinement::error_estimator_pt, Global_Physical_Variables::height(), i, GlobalPhysicalParameters::L_impedance, Global_Parameters::Ldown, Global_Parameters::Lup, Mesh_Parameters::ly, Global_Parameters::Ly, Mesh_Parameters::ny, GlobalParameters::Ny, oomph::oomph_info, Global_Physical_Variables::Period, Global_Physical_Variables::prescribed_traction(), Global_Physical_Variables::Re, Global_Physical_Variables::ReSt, BL_Squash::squash_fct(), and oomph::NavierStokesTractionElement< ELEMENT >::traction_fct_pt.

~CollapsibleChannelProblem() [3/5]

template<class ELEMENT >

CollapsibleChannelProblem< ELEMENT >::~CollapsibleChannelProblem ( )

inline

Empty destructor.

{} 

CollapsibleChannelProblem() [4/5]

template<class ELEMENT >

CollapsibleChannelProblem< ELEMENT >::CollapsibleChannelProblem	(	const unsigned &	nup,
		const unsigned &	ncollapsible,
		const unsigned &	ndown,
		const unsigned &	ny,
		const double &	lup,
		const double &	lcollapsible,
		const double &	ldown,
		const double &	ly,
		const double &	amplitude,
		const double &	period
	)

Constructor : the arguments are the number of elements, the length of the domain and the amplitude and period of the oscillations

~CollapsibleChannelProblem() [4/5]

template<class ELEMENT >

CollapsibleChannelProblem< ELEMENT >::~CollapsibleChannelProblem ( )

inline

Empty destructor.

{} 

CollapsibleChannelProblem() [5/5]

template<class ELEMENT >

CollapsibleChannelProblem< ELEMENT >::CollapsibleChannelProblem	(	const unsigned &	nup,
		const unsigned &	ncollapsible,
		const unsigned &	ndown,
		const unsigned &	ny,
		const double &	lup,
		const double &	lcollapsible,
		const double &	ldown,
		const double &	ly,
		const double &	limpedance,
		const double &	amplitude,
		const double &	period,
		const unsigned &	outflow
	)

Constructor : the arguments are the number of elements, the length of the domain and the amplitude and period of the oscillations

~CollapsibleChannelProblem() [5/5]

template<class ELEMENT >

CollapsibleChannelProblem< ELEMENT >::~CollapsibleChannelProblem ( )

inline

Empty destructor.

{} 

Member Function Documentation

actions_after_adapt() [1/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_after_adapt

virtual

Actions after adapt: Rebuild the mesh of prescribed traction elements.

Reimplemented from oomph::Problem.

{
 // Create prescribed-flux elements from all elements that are 
 // adjacent to boundary 5 and add them to surface mesh
 create_traction_elements(5,Bulk_mesh_pt,Surface_mesh_pt);
 
 // Rebuild the global mesh
 rebuild_global_mesh();
 
 // Loop over the traction elements to pass pointer to prescribed traction function
 unsigned n_element=Surface_mesh_pt->nelement();
 for(unsigned e=0;e<n_element;e++)
  {
   // Upcast from GeneralisedElement to NavierStokesTractionElement element
   NavierStokesTractionElement<ELEMENT> *el_pt = 
    dynamic_cast<NavierStokesTractionElement<ELEMENT>*>(
     Surface_mesh_pt->element_pt(e));
   
   // Set the pointer to the prescribed traction function
   el_pt->traction_fct_pt() = &Global_Physical_Variables::prescribed_traction;
  }
} // end of actions_after_adapt

References e(), Global_Physical_Variables::prescribed_traction(), and oomph::NavierStokesTractionElement< ELEMENT >::traction_fct_pt.

actions_after_adapt() [2/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_after_adapt ( )

virtual

Actions after adapt: Rebuild the mesh of prescribed traction elements.

Reimplemented from oomph::Problem.

actions_after_adapt() [3/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_after_adapt ( )

protectedvirtual

Actions after adapt: Rebuild the mesh of prescribed traction elements.

Reimplemented from oomph::Problem.

actions_after_adapt() [4/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_after_adapt ( )

virtual

Actions after adapt: Rebuild the mesh of prescribed traction elements.

Reimplemented from oomph::Problem.

actions_after_adapt() [5/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_after_adapt ( )

protectedvirtual

Actions after adapt: Rebuild the mesh of prescribed traction elements.

Reimplemented from oomph::Problem.

actions_after_newton_solve() [1/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_after_newton_solve ( )

inlinevirtual

Update the problem after solve (empty)

Reimplemented from oomph::Problem.

{}

actions_after_newton_solve() [2/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_after_newton_solve ( )

inlinevirtual

Update the problem after solve (empty)

Reimplemented from oomph::Problem.

{}

actions_after_newton_solve() [3/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_after_newton_solve ( )

inlineprotectedvirtual

Update the problem after solve (empty)

Reimplemented from oomph::Problem.

{}

actions_after_newton_solve() [4/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_after_newton_solve ( )

inlinevirtual

Update the problem after solve (empty)

Reimplemented from oomph::Problem.

{}

actions_after_newton_solve() [5/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_after_newton_solve ( )

inlineprotectedvirtual

Update the problem after solve (empty)

Reimplemented from oomph::Problem.

{}

actions_before_adapt() [1/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_before_adapt

virtual

Actions before adapt: Wipe the mesh of prescribed traction elements.

Reimplemented from oomph::Problem.

{
 // Kill the traction elements and wipe surface mesh
 delete_traction_elements(Surface_mesh_pt);
 
 // Rebuild the global mesh. 
 rebuild_global_mesh();
 
} // end of actions_before_adapt

actions_before_adapt() [2/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_before_adapt ( )

virtual

Actions before adapt: Wipe the mesh of prescribed traction elements.

Reimplemented from oomph::Problem.

actions_before_adapt() [3/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_before_adapt ( )

protectedvirtual

Actions before adapt: Wipe the mesh of prescribed traction elements.

Reimplemented from oomph::Problem.

actions_before_adapt() [4/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_before_adapt ( )

virtual

Actions before adapt: Wipe the mesh of prescribed traction elements.

Reimplemented from oomph::Problem.

actions_before_adapt() [5/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_before_adapt ( )

protectedvirtual

Actions before adapt: Wipe the mesh of prescribed traction elements.

Reimplemented from oomph::Problem.

actions_before_implicit_timestep() [1/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_before_implicit_timestep

virtual

Update the velocity boundary condition on the moving wall.

Execute the actions before timestep: Update the velocity boundary condition on the moving wall

Reimplemented from oomph::Problem.

{
 // Update the domain shape
 bulk_mesh_pt()->node_update();
 
 // Moving wall: No slip; this implies that the velocity needs
 // to be updated in response to wall motion
 unsigned ibound=3;
 unsigned num_nod=bulk_mesh_pt()->nboundary_node(ibound);
  for (unsigned inod=0;inod<num_nod;inod++)
  {
   // Which node are we dealing with?
   Node* node_pt=bulk_mesh_pt()->boundary_node_pt(ibound,inod);
   
   // Apply no slip
   FSI_functions::apply_no_slip_on_moving_wall(node_pt);
  }
} //end of actions_before_implicit_timestep

References oomph::FSI_functions::apply_no_slip_on_moving_wall().

actions_before_implicit_timestep() [2/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_before_implicit_timestep ( )

virtual

Update the velocity boundary condition on the moving wall.

Reimplemented from oomph::Problem.

actions_before_implicit_timestep() [3/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_before_implicit_timestep ( )

protectedvirtual

Update the velocity boundary condition on the moving wall.

Reimplemented from oomph::Problem.

actions_before_implicit_timestep() [4/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_before_implicit_timestep ( )

virtual

Update the velocity boundary condition on the moving wall.

Reimplemented from oomph::Problem.

actions_before_implicit_timestep() [5/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_before_implicit_timestep ( )

protectedvirtual

Update the velocity boundary condition on the moving wall.

Reimplemented from oomph::Problem.

actions_before_newton_convergence_check()

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_before_newton_convergence_check ( )

inlinevirtual

Update no slip before Newton convergence check.

Reimplemented from oomph::Problem.

  {
   // Moving wall: No slip; this implies that the velocity needs
   // to be updated in response to wall motion
   unsigned ibound=3;
   unsigned num_nod=bulk_mesh_pt()->nboundary_node(ibound);
   for (unsigned inod=0;inod<num_nod;inod++)
    {
     // Which node are we dealing with?
     Node* node_pt=bulk_mesh_pt()->boundary_node_pt(ibound,inod);
     
     // Apply no slip
     FSI_functions::apply_no_slip_on_moving_wall(node_pt);
    }
  }

References oomph::FSI_functions::apply_no_slip_on_moving_wall().

actions_before_newton_solve() [1/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_before_newton_solve

inlinevirtual

Update the problem specs before solve (empty)

Update the inflow and outflow boundary conditioner before solve.

Reimplemented from oomph::Problem.

{}

actions_before_newton_solve() [2/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_before_newton_solve ( )

inlinevirtual

Update the problem specs before solve (empty)

Reimplemented from oomph::Problem.

{}

actions_before_newton_solve() [3/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_before_newton_solve ( )

protectedvirtual

Update the problem specs before solve.

Reimplemented from oomph::Problem.

actions_before_newton_solve() [4/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_before_newton_solve ( )

inlinevirtual

Update the problem specs before solve (empty)

Reimplemented from oomph::Problem.

{}

actions_before_newton_solve() [5/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::actions_before_newton_solve ( )

protectedvirtual

Update the problem specs before solve.

Reimplemented from oomph::Problem.

bulk_mesh_pt() [1/5]

template<class ELEMENT >

RefineableCollapsibleChannelMesh<ELEMENT>* CollapsibleChannelProblem< ELEMENT >::bulk_mesh_pt ( )

inline

Access function for the specific mesh.

  {
 
   // Upcast from pointer to the Mesh base class to the specific 
   // element type that we're using here.
   return dynamic_cast<RefineableCollapsibleChannelMesh<ELEMENT>*>
    (Bulk_mesh_pt);
 
  } // end of access to bulk mesh

bulk_mesh_pt() [2/5]

template<class ELEMENT >

MyAlgebraicCollapsibleChannelMesh<ELEMENT>* CollapsibleChannelProblem< ELEMENT >::bulk_mesh_pt ( )

inline

Access function for the specific mesh.

  {
 
   // Upcast from pointer to the Mesh base class to the specific 
   // element type that we're using here.
   return dynamic_cast<MyAlgebraicCollapsibleChannelMesh<ELEMENT>*>
    (Bulk_mesh_pt);
 
  } // end of access to bulk mesh

bulk_mesh_pt() [3/5]

template<class ELEMENT >

RefineableCollapsibleChannelMesh<ELEMENT>* CollapsibleChannelProblem< ELEMENT >::bulk_mesh_pt ( )

inline

Access function for the fluid bulk mesh.

  {
   // Upcast from pointer to the Mesh base class to the specific 
   // element type that we're using here.
   return dynamic_cast<RefineableCollapsibleChannelMesh<ELEMENT>*>
    (Bulk_mesh_pt);
 
  } // end of access to bulk mesh

bulk_mesh_pt() [4/5]

template<class ELEMENT >

RefineableCollapsibleChannelMesh<ELEMENT>* CollapsibleChannelProblem< ELEMENT >::bulk_mesh_pt ( )

inline

Access function for the specific mesh.

  {
 
   // Upcast from pointer to the Mesh base class to the specific 
   // element type that we're using here.
   return dynamic_cast<RefineableCollapsibleChannelMesh<ELEMENT>*>
    (Bulk_mesh_pt);
 
  } // end of access to bulk mesh

bulk_mesh_pt() [5/5]

template<class ELEMENT >

RefineableCollapsibleChannelMesh<ELEMENT>* CollapsibleChannelProblem< ELEMENT >::bulk_mesh_pt ( )

inline

Access function for the fluid bulk mesh.

  {
   // Upcast from pointer to the Mesh base class to the specific 
   // element type that we're using here.
   return dynamic_cast<RefineableCollapsibleChannelMesh<ELEMENT>*>
    (Bulk_mesh_pt);
 
  } // end of access to bulk mesh

create_lagrange_multiplier_elements()

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::create_lagrange_multiplier_elements

private

Create elements that impose the prescribed boundary displacement.

Create elements that enforce prescribed boundary motion by Lagrange multiplilers

{
 // Lagrange multiplier elements are located on boundary 3:
 unsigned b=3;
 
 // How many bulk elements are adjacent to boundary b?
 unsigned n_element = bulk_mesh_pt()->nboundary_element(b);
 
 // Loop over the bulk elements adjacent to boundary b?
 for(unsigned e=0;e<n_element;e++)
  {
   // Get pointer to the bulk element that is adjacent to boundary b
   ELEMENT* bulk_elem_pt = dynamic_cast<ELEMENT*>(
    bulk_mesh_pt()->boundary_element_pt(b,e));
   
   //Find the index of the face of element e along boundary b
   int face_index = bulk_mesh_pt()->face_index_at_boundary(b,e);
      
   // Create new element and add to mesh
   Lagrange_multiplier_mesh_pt->add_element_pt(
    new ImposeDisplacementByLagrangeMultiplierElement<ELEMENT>(
     bulk_elem_pt,face_index));   
  }  
 
 
 // Loop over the elements in the Lagrange multiplier element mesh
 // for elements on the top boundary (boundary 3)
 n_element=Lagrange_multiplier_mesh_pt->nelement();
 for(unsigned i=0;i<n_element;i++)
  {
   //Cast to a Lagrange multiplier element
   ImposeDisplacementByLagrangeMultiplierElement<ELEMENT> *el_pt = 
    dynamic_cast<ImposeDisplacementByLagrangeMultiplierElement<ELEMENT>*>
    (Lagrange_multiplier_mesh_pt->element_pt(i));
 
   // Set the GeomObject that defines the boundary shape and
   // specify which bulk boundary it's attached to
   el_pt->set_boundary_shape_geom_object_pt(Wall_pt,b);
 
   // Loop over the nodes 
   unsigned nnod=el_pt->nnode();
   for (unsigned j=0;j<nnod;j++)
    {
     Node* nod_pt = el_pt->node_pt(j);
     
     // Is the node also on boundary 2 or 4?
     if ((nod_pt->is_on_boundary(2))||(nod_pt->is_on_boundary(4)))
      {
       // How many nodal values were used by the "bulk" element
       // that originally created this node?
       unsigned n_bulk_value=el_pt->nbulk_value(j);
       
       // The remaining ones are Lagrange multipliers and we pin them.
       unsigned nval=nod_pt->nvalue();
       for (unsigned j=n_bulk_value;j<nval;j++)
        {
         nod_pt->pin(j);
        }
      }
    }
  }
  
} // end of create_lagrange_multiplier_elements

References b, oomph::Mesh::boundary_element_pt(), e(), oomph::Mesh::face_index_at_boundary(), i, oomph::Node::is_on_boundary(), j, oomph::Mesh::nboundary_element(), oomph::FaceElement::nbulk_value(), oomph::FiniteElement::nnode(), oomph::FiniteElement::node_pt(), oomph::Data::nvalue(), oomph::Data::pin(), and oomph::ImposeDisplacementByLagrangeMultiplierElement< ELEMENT >::set_boundary_shape_geom_object_pt().

create_mesh_for_navier_stokes_preconditioner() [1/2]

template<class ELEMENT >

Mesh * CollapsibleChannelProblem< ELEMENT >::create_mesh_for_navier_stokes_preconditioner

Create a mesh for the NavierStokes Preconditioner.

Create a mesh for the NavierStokesSchurComplementPreconditioner.

{
 //Vector to hold the meshes
 Vector<Mesh*> meshes;
 
 //Add the bulk mesh
 meshes.push_back(Bulk_mesh_pt);
 
 // Add the flux control master mesh if it exists
 if (Outflow_flux_control_master_mesh_pt!=0)
  {
   meshes.push_back(Outflow_flux_control_master_mesh_pt);
  }
 
 // Build "combined" mesh from vector of submeshes
 Mesh* mesh_pt = new Mesh(meshes);
 
 return mesh_pt;
}

create_mesh_for_navier_stokes_preconditioner() [2/2]

template<class ELEMENT >

Mesh* CollapsibleChannelProblem< ELEMENT >::create_mesh_for_navier_stokes_preconditioner

(

)

Create a mesh for the NavierStokesSchurComplementPreconditioner.

create_traction_elements() [1/3]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::create_traction_elements ( const unsigned &  b, Mesh *const &  bulk_mesh_pt, Mesh *const &  surface_mesh_pt  )

private

Create the traction elements.

Create the prescribed traction elements on boundary b of the bulk mesh and stick them into the surface mesh.

{
 // How many bulk elements are adjacent to boundary b?
 unsigned n_element = bulk_mesh_pt->nboundary_element(b);
 
 // Loop over the bulk elements adjacent to boundary b
 for(unsigned e=0;e<n_element;e++)
  {
   // Get pointer to the bulk element that is adjacent to boundary b
   ELEMENT* bulk_elem_pt = dynamic_cast<ELEMENT*>
    (bulk_mesh_pt->boundary_element_pt(b,e));
   
   //What is the index of the face of element e that lies along boundary b
   int face_index = bulk_mesh_pt->face_index_at_boundary(b,e);
 
   // Build the corresponding prescribed-traction element
   NavierStokesTractionElement<ELEMENT>* traction_element_pt = 
    new  NavierStokesTractionElement<ELEMENT>(bulk_elem_pt,face_index);
   
   //Add the prescribed-flux element to the surface mesh
   surface_mesh_pt->add_element_pt(traction_element_pt);
 
  } //end of loop over bulk elements adjacent to boundary b
 
} // end of create_traction_elements

References oomph::Mesh::add_element_pt(), b, oomph::Mesh::boundary_element_pt(), e(), oomph::Mesh::face_index_at_boundary(), and oomph::Mesh::nboundary_element().

create_traction_elements() [2/3]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::create_traction_elements ( const unsigned &  b, Mesh *const &  bulk_mesh_pt, Mesh *const &  surface_mesh_pt  )

private

Create the prescribed traction elements on boundary b of the bulk mesh and stick them into the surface mesh.

create_traction_elements() [3/3]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::create_traction_elements ( const unsigned &  b, Mesh *const &  bulk_mesh_pt, Mesh *const &  surface_mesh_pt  )

private

Create the prescribed traction elements on boundary b of the bulk mesh and stick them into the surface mesh.

delete_inflow_traction_elements() [1/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::delete_inflow_traction_elements

private

Delete prescribed traction elements from the surface mesh.

Delete traction elements and wipe the surface mesh.

{
 // How many surface elements are in the surface mesh
 unsigned n_element = Inflow_traction_mesh_pt->nelement();
 
 // Loop over the surface elements
 for(unsigned e=0;e<n_element;e++)
  {
   // Kill element
   delete Inflow_traction_mesh_pt->element_pt(e);
  }
 
 // Wipe the mesh
 Inflow_traction_mesh_pt->flush_element_and_node_storage();
 
} // end of delete_traction_elements

References e().

delete_inflow_traction_elements() [2/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::delete_inflow_traction_elements ( )

private

Delete prescribed traction elements from the surface mesh.

delete_lagrange_multiplier_elements()

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::delete_lagrange_multiplier_elements

private

Delete elements that enforce prescribed boundary motion by Lagrange multiplilers

Delete elements that impose the prescribed boundary displacement and wipe the associated mesh

{
 // How many surface elements are in the surface mesh
 unsigned n_element = Lagrange_multiplier_mesh_pt->nelement();
 
 // Loop over the surface elements
 for(unsigned e=0;e<n_element;e++)
  {
   // Kill surface element
   delete Lagrange_multiplier_mesh_pt->element_pt(e);
  }
 
 // Wipe the mesh
 Lagrange_multiplier_mesh_pt->flush_element_and_node_storage();
 
} // end of delete_lagrange_multiplier_elements

References e().

delete_outflow_flux_control_elements() [1/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::delete_outflow_flux_control_elements

private

Delete flux control elements from outflow boundary.

{
 // Delete the master flux control element
 delete Outflow_flux_control_master_mesh_pt->element_pt(0);
 
 // Wipe the mesh
 Outflow_flux_control_master_mesh_pt->flush_element_and_node_storage();
 
 // Loop over all flux control elements at outflow
 unsigned n_bound_el=Outflow_flux_control_sub_mesh_pt->nelement();
 for (unsigned e=0;e<n_bound_el;e++)
  { 
   //Delete the element
   delete Outflow_flux_control_sub_mesh_pt->element_pt(e);
  }
 
 // Wipe the mesh
 Outflow_flux_control_sub_mesh_pt->flush_element_and_node_storage();
}

References e().

delete_outflow_flux_control_elements() [2/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::delete_outflow_flux_control_elements ( )

private

Delete flux control elements from outflow boundary.

delete_outflow_impedance_elements() [1/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::delete_outflow_impedance_elements

private

Delete impedance elements from outflow boundary.

{
 if (Outflow_type==1)
  {
   // Loop over all elements at outflow
   unsigned n_bound_el=Outflow_impedance_mesh_pt->nelement();
   for (unsigned e=0;e<n_bound_el;e++)
    { 
     //Delete the element
     delete Outflow_impedance_mesh_pt->element_pt(e);
    }
   
   // Wipe the mesh
   Outflow_impedance_mesh_pt->flush_element_and_node_storage();
 
   // Delete the impedance tube
   delete Womersley_impedance_tube_pt;
   Womersley_impedance_tube_pt=0; 
  }
 else 
  {
   // Delete the elements in the master mesh
   delete Outflow_impedance_master_mesh_pt->element_pt(0);
   delete Outflow_impedance_master_mesh_pt->element_pt(1);
 
   // Wipe the mesh
   Outflow_impedance_master_mesh_pt->flush_element_and_node_storage();
 
   // Loop over all flux control elements at outflow
   unsigned n_bound_el=Outflow_flux_control_sub_mesh_pt->nelement();
   for (unsigned e=0;e<n_bound_el;e++)
    { 
     //Delete the element
     delete Outflow_flux_control_sub_mesh_pt->element_pt(e);
    }
 
   // Wipe the mesh
   Outflow_flux_control_sub_mesh_pt->flush_element_and_node_storage();
 
   // Delete the impedance tube
   delete Womersley_impedance_tube_pt;
   Womersley_impedance_tube_pt=0; 
  }
  
}

References e().

delete_outflow_impedance_elements() [2/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::delete_outflow_impedance_elements ( )

private

delete_traction_elements() [1/3]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::delete_traction_elements ( Mesh *const &  surface_mesh_pt )

private

Delete prescribed traction elements from the surface mesh.

Delete traction elements and wipe the surface mesh.

{
 // How many surface elements are in the surface mesh
 unsigned n_element = surface_mesh_pt->nelement();
 
 // Loop over the surface elements
 for(unsigned e=0;e<n_element;e++)
  {
   // Kill surface element
   delete surface_mesh_pt->element_pt(e);
  }
 
 // Wipe the mesh
 surface_mesh_pt->flush_element_and_node_storage();
 
} // end of delete_traction_elements

References e(), oomph::Mesh::element_pt(), oomph::Mesh::flush_element_and_node_storage(), and oomph::Mesh::nelement().

delete_traction_elements() [2/3]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::delete_traction_elements ( Mesh *const &  surface_mesh_pt )

private

Delete prescribed traction elements from the surface mesh.

delete_traction_elements() [3/3]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::delete_traction_elements ( Mesh *const &  surface_mesh_pt )

private

Delete prescribed traction elements from the surface mesh.

doc_solution() [1/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::doc_solution	(	DocInfo &	doc_info,
		ofstream &	trace_file
	)

Doc the solution.

{ 
 ofstream some_file;
 char filename[100];
 
 // Number of plot points
 unsigned npts;
 npts=5; 
 
 // Output solution 
 sprintf(filename,"%s/soln%i.dat",doc_info.directory().c_str(),
         doc_info.number());
 some_file.open(filename);
 bulk_mesh_pt()->output(some_file,npts);
 some_file.close();
 
 
 // Get the position of the midpoint on the geometric object
 Vector<double> zeta(1);
 zeta[0]=0.5*Lcollapsible;
 Vector<double> wall_point(2);
 Wall_pt->position(zeta,wall_point);
 
 // Write trace file
 trace_file << time_pt()->time() << " " 
            << wall_point[1]  << " "
            << Left_node_pt->value(0) << " "
            << Right_node_pt->value(0) << " "
            << std::endl;
 
 // Output wall shape
 sprintf(filename,"%s/wall%i.dat",doc_info.directory().c_str(),
         doc_info.number());
 some_file.open(filename);
 unsigned nplot=100; 
 for (unsigned i=0;i<nplot;i++)
  {
   zeta[0]=double(i)/double(nplot-1)*Lcollapsible;
   Wall_pt->position(zeta,wall_point);
   some_file << wall_point[0]  << " "
             << wall_point[1]  << std::endl;
  }
 some_file.close();
 
} // end_of_doc_solution

References oomph::DocInfo::directory(), MergeRestartFiles::filename, i, oomph::DocInfo::number(), and Eigen::zeta().

doc_solution() [2/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::doc_solution	(	DocInfo &	doc_info,
		ofstream &	trace_file
	)

Doc the solution.

doc_solution() [3/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::doc_solution	(	DocInfo &	doc_info,
		ofstream &	trace_file
	)

Doc the solution.

doc_solution() [4/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::doc_solution	(	DocInfo &	doc_info,
		ofstream &	trace_file
	)

Doc the solution.

doc_solution() [5/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::doc_solution	(	DocInfo &	doc_info,
		ofstream &	trace_file
	)

Doc the solution.

outflow_impedance_master_mesh_pt() [1/2]

template<class ELEMENT >

Mesh* & CollapsibleChannelProblem< ELEMENT >::outflow_impedance_master_mesh_pt ( )

inline

Access function to the pointer to the master impedance mesh which is used when using impedance boundary conditions with flux control elements

  {
   return Outflow_impedance_master_mesh_pt;
  }

outflow_impedance_master_mesh_pt() [2/2]

template<class ELEMENT >

Mesh* & CollapsibleChannelProblem< ELEMENT >::outflow_impedance_master_mesh_pt ( )

inline

Access function to the pointer to the master impedance mesh which is used when using impedance boundary conditions with flux control elements

  {
   return Outflow_impedance_master_mesh_pt;
  }

refine_elements_based_on_x_coord() [1/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::refine_elements_based_on_x_coord	(	const double &	x_min,
		const double &	x_max
	)

Refine any element whoes centre node lies between x coorodinates x_min and x_max

  {
   // Vector to store pointers to elements to be refined
   Vector<RefineableElement*> element_pt;
   
   // Get elements we want to refine
   unsigned n_el = Bulk_mesh_pt->nelement();
   
   for (unsigned e=0; e<n_el; e++)
    {
     // Get element
     RefineableElement* el_pt = 
      dynamic_cast<RefineableElement*>(Bulk_mesh_pt->element_pt(e));
     
     // Get x-coord of node at centre
     double x_centre=el_pt->node_pt(4)->x(0);
 
     // Add to Vector if to be refined
     if ((x_centre>=x_min) && (x_centre<=x_max))
      {
       element_pt.push_back(el_pt);
      }     
    }
    
   // Refine the elements
   oomph_info << "Number of elements to refine between x=" << x_min
              << " & " << x_max << " is " 
              << element_pt.size() << "\n";
   refine_selected_elements(Bulk_mesh_id, element_pt);
  }

References e(), oomph::FiniteElement::node_pt(), oomph::oomph_info, and oomph::Node::x().

refine_elements_based_on_x_coord() [2/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::refine_elements_based_on_x_coord	(	const double &	x_min,
		const double &	x_max
	)

Refine any element whoes centre node lies between x coorodinates x_min and x_max

set_initial_condition() [1/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::set_initial_condition

virtual

Apply initial conditions.

Apply initial conditions: Impulsive start from steady Poiseuille.

Apply initial conditions: Impulsive start from steady Poiseuille flow.

Reimplemented from oomph::Problem.

{ 
 
 // Check that timestepper is from the BDF family
 if (time_stepper_pt()->type()!="BDF")
  {
   std::ostringstream error_stream;
   error_stream 
    << "Timestepper has to be from the BDF family!\n"
    << "You have specified a timestepper from the "
    << time_stepper_pt()->type() << " family" << std::endl;
 
   throw OomphLibError(error_stream.str(),
                       OOMPH_CURRENT_FUNCTION,
                       OOMPH_EXCEPTION_LOCATION);
  }
 
 // Update the mesh
 bulk_mesh_pt()->node_update();
 
 // Loop over the nodes to set initial guess everywhere
 unsigned num_nod = bulk_mesh_pt()->nnode();
 for (unsigned n=0;n<num_nod;n++)
  {
   // Get nodal coordinates
   Vector<double> x(2);
   x[0]=bulk_mesh_pt()->node_pt(n)->x(0);
   x[1]=bulk_mesh_pt()->node_pt(n)->x(1);
   
   // Assign initial condition: Steady Poiseuille flow
   bulk_mesh_pt()->node_pt(n)->set_value(0,6.0*(x[1]/Ly)*(1.0-(x[1]/Ly)));
   bulk_mesh_pt()->node_pt(n)->set_value(1,0.0);
  } 
 
 // Assign initial values for an impulsive start
 bulk_mesh_pt()->assign_initial_values_impulsive();
 
 
} // end of set_initial_condition

References Global_Parameters::Ly, n, OOMPH_CURRENT_FUNCTION, OOMPH_EXCEPTION_LOCATION, compute_granudrum_aor::type, and plotDoE::x.

set_initial_condition() [2/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::set_initial_condition ( )

virtual

Apply initial conditions.

Reimplemented from oomph::Problem.

set_initial_condition() [3/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::set_initial_condition ( )

protectedvirtual

Apply initial conditions.

Reimplemented from oomph::Problem.

set_initial_condition() [4/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::set_initial_condition ( )

virtual

Apply initial conditions.

Reimplemented from oomph::Problem.

set_initial_condition() [5/5]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::set_initial_condition ( )

protectedvirtual

Apply initial conditions.

Reimplemented from oomph::Problem.

set_parallel_outflow() [1/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::set_parallel_outflow

protected

Apply parallel flow on outlet.

{ 
 // Outflow is boundary 1
 unsigned b = 1;
 
 // Loop over all elements on this boundary
 unsigned n_bound_el=Bulk_mesh_pt->nboundary_element(b);
 for (unsigned e=0;e<n_bound_el;e++)
  { 
   // Assign parallel flow
   bulk_mesh_pt()->node_pt(e)->set_value(1,0.0);
  } 
}

References b, and e().

set_parallel_outflow() [2/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::set_parallel_outflow ( )

protected

Apply parallel flow on outlet.

set_poiseuille_outflow() [1/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::set_poiseuille_outflow

protected

Apply Poiseuille flow on outlet.

{ 
 // Outflow is boundary 1
 unsigned b = 1;
 
 // Loop over all elements on this boundary
 unsigned n_bound_el=Bulk_mesh_pt->nboundary_element(b);
 for (unsigned e=0;e<n_bound_el;e++)
  { 
   // Get nodal coordinates
   Vector<double> x(2);
   x[0]=bulk_mesh_pt()->node_pt(e)->x(0);
   x[1]=bulk_mesh_pt()->node_pt(e)->x(1);
   
   // Assign Poiseuille flow
   bulk_mesh_pt()->node_pt(e)->set_value(0,6.0*(x[1]/Ly)*(1.0-(x[1]/Ly)));
   bulk_mesh_pt()->node_pt(e)->set_value(1,0.0);
  } 
 
}

References b, e(), Global_Parameters::Ly, and plotDoE::x.

set_poiseuille_outflow() [2/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::set_poiseuille_outflow ( )

protected

Apply Poiseuille flow on outlet.

setup_inflow_traction_elements() [1/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::setup_inflow_traction_elements

private

Create the prescribed traction elements on the inflow.

Create the traction elements.

{
 // inflow is boundary 5
 unsigned b=5;
 
 // How many bulk elements are adjacent to boundary b?
 unsigned n_element = Bulk_mesh_pt->nboundary_element(b);
 
 // Loop over the bulk elements adjacent to boundary b
 for(unsigned e=0;e<n_element;e++)
  {
   // Get pointer to the bulk element that is adjacent to boundary b
   ELEMENT* bulk_elem_pt = dynamic_cast<ELEMENT*>
    (Bulk_mesh_pt->boundary_element_pt(b,e));
   
   //What is the index of the face of element e that lies along boundary b
   int face_index = Bulk_mesh_pt->face_index_at_boundary(b,e);
 
   // Build the corresponding prescribed-traction element
   NavierStokesTractionElement<ELEMENT>* traction_element_pt = 
    new  NavierStokesTractionElement<ELEMENT>(bulk_elem_pt,face_index);
   
   //Add the prescribed-flux element to the surface mesh
   Inflow_traction_mesh_pt->add_element_pt(traction_element_pt);
 
  } //end of loop over bulk elements adjacent to boundary b
 
} 

References b, and e().

setup_inflow_traction_elements() [2/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::setup_inflow_traction_elements ( )

private

Create the prescribed traction elements on the inflow.

setup_outflow_flux_control_elements() [1/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::setup_outflow_flux_control_elements

private

Attach flux control elements to outflow boundary.

{
 // Attach elements to apply traction on boundary 1
 unsigned b = 1;
 
 // Loop over all elements on this boundary
 unsigned n_bound_el=Bulk_mesh_pt->nboundary_element(b);
 for (unsigned e=0;e<n_bound_el;e++)
  { 
   // Get pointer to bulk element
   ELEMENT* bulk_elem_pt = dynamic_cast<ELEMENT*>(
    Bulk_mesh_pt->boundary_element_pt(b,e));
      
   // Get the index of the face of element e along boundary b
   int face_index = Bulk_mesh_pt->face_index_at_boundary(b,e);
      
   // Build the corresponding flux control element
   NavierStokesFluxControlElement<ELEMENT>* flux_element_pt = new 
    NavierStokesFluxControlElement<ELEMENT>(bulk_elem_pt, face_index);
 
   //Add the new element to its mesh
   Outflow_flux_control_sub_mesh_pt->add_element_pt(flux_element_pt);     
  }
 
    
 // Build master element
 NetFluxControlElement* flux_control_el_pt = new NetFluxControlElement(
  Outflow_flux_control_sub_mesh_pt,
  &Prescribed_volume_flux);
 
 
 // Set the block id for the pressure unknown in this element for the 
 // preconditioning, in 2D the Navier-Stokes pressure is in block 2
 flux_control_el_pt->dof_number_for_unknown() = 2;
 
 // Add NetFluxControlElement to its mesh
 Outflow_flux_control_master_mesh_pt->
  add_element_pt(flux_control_el_pt);
 
 // Get pointer to the outflow pressure data
 Global_Physical_Variables::Pout_data_pt = 
  flux_control_el_pt->pressure_data_pt();
 
 // Loop over the elements in the sub mesh and pass 
 // Global_Physical_Variables::Pout_data_pt to the element
 unsigned n_el = Outflow_flux_control_sub_mesh_pt->nelement();
 for (unsigned e=0; e< n_el; e++)
  {
   // Get pointer to the element
   GeneralisedElement* el_pt = 
    Outflow_flux_control_sub_mesh_pt->element_pt(e);
   
   // Dynamic cast
   dynamic_cast<NavierStokesFluxControlElement<ELEMENT>* >(el_pt)->   
    add_pressure_data(Global_Physical_Variables::Pout_data_pt);
  }
 
}

References b, oomph::NetFluxControlElement< ELEMENT >::dof_number_for_unknown(), e(), Global_Physical_Variables::Pout_data_pt, GlobalPhysicalParameters::Prescribed_volume_flux, and oomph::NetFluxControlElement< ELEMENT >::pressure_data_pt().

setup_outflow_flux_control_elements() [2/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::setup_outflow_flux_control_elements ( )

private

Attach flux control elements to outflow boundary.

setup_outflow_impedance_elements() [1/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::setup_outflow_impedance_elements

private

Attach impedance elements to outflow boundary.

{
 // Check we are at time t=0, otherwise this function will not work 
 // since an ImpedanceTube is contstructed so it's been at steady state
 // for all previous time.
 if (time_stepper_pt()->time()>0.0)
  {
   std::ostringstream error_stream;
   error_stream 
    << "Impedance is set up assuming problem has been at rest for all previous "
    << "times, \ndid you mean to set up the impedance elements at time="
    << time_stepper_pt()->time() << " ?\n";
   
   throw OomphLibError(error_stream.str(),
                       OOMPH_CURRENT_FUNCTION,
                       OOMPH_EXCEPTION_LOCATION);
  }
 
 // Elements apply traction on boundary 1
 unsigned b = 1;
 
 // Loop over all elements on this boundary
 unsigned n_bound_el=Bulk_mesh_pt->nboundary_element(b);
 
 if (Outflow_type==1)
  {
   for (unsigned e=0;e<n_bound_el;e++)
    { 
     // Get pointer to bulk element
     ELEMENT* bulk_elem_pt = dynamic_cast<ELEMENT*>(
      Bulk_mesh_pt->boundary_element_pt(b,e));
     
     // Get the index of the face of element e along boundary b
     int face_index = Bulk_mesh_pt->face_index_at_boundary(b,e);
   
     // Build the corresponding prescribed traction element
     NavierStokesImpedanceTractionElement
      <ELEMENT,QWomersleyElement<1,3>,1>* traction_element_pt =
      new NavierStokesImpedanceTractionElement
      <ELEMENT,QWomersleyElement<1,3>,1>(bulk_elem_pt,face_index);
        
     //Add the prescribed traction element to the mesh
     Outflow_impedance_mesh_pt->add_element_pt(traction_element_pt);
    }
 
   // fixed coord in bulk mesh which is constant at the outflow
   unsigned fixed_coordinate=0;
 
   // nodal index of velocity component which defines the outflow
   unsigned v_index=0;
 
   // Build Womersley impedance tube and let it provide the
   // outflow traction to the elements in the Outflow_traction_mesh_pt.
   Womersley_impedance_tube_pt=
    new WomersleyOutflowImpedanceTube<QWomersleyElement<1,3>,1>
    (L_impedance,
     Outflow_impedance_mesh_pt,
     fixed_coordinate,
     v_index);    
  }
 else
  {
   // Loop over all elements on this boundary
   unsigned n_bound_el=Bulk_mesh_pt->nboundary_element(b);
   for (unsigned e=0;e<n_bound_el;e++)
    { 
     // Get pointer to bulk element
     ELEMENT* bulk_elem_pt = dynamic_cast<ELEMENT*>(
      Bulk_mesh_pt->boundary_element_pt(b,e));
     
     // Get the index of the face of element e along boundary b
     int face_index = Bulk_mesh_pt->face_index_at_boundary(b,e);
     
     // Build the corresponding flux control element
     NavierStokesFluxControlElement<ELEMENT>* flux_element_pt = new 
      NavierStokesFluxControlElement<ELEMENT>(bulk_elem_pt, face_index);
 
     //Add the new element to its mesh
     Outflow_flux_control_sub_mesh_pt->add_element_pt(flux_element_pt);     
    }
   
   // fixed coord in bulk mesh which is constant at the outflow
   unsigned fixed_coordinate=0;
 
   // nodal index of velocity component which defines the outflow
   unsigned v_index=0;
   
   // Build Womersley impedance tube and let it provide the
   // outflow traction to the elements in the Outflow_traction_mesh_pt.
   Womersley_impedance_tube_pt=
    new WomersleyOutflowImpedanceTube<QWomersleyElement<1,3>,1>(
     L_impedance,
     Outflow_flux_control_sub_mesh_pt,
     fixed_coordinate,
     v_index);    
   
   // Build the pressure control element and add to the master mesh
   NavierStokesWomersleyPressureControlElement* pressure_control_element
   = new NavierStokesWomersleyPressureControlElement(
    Womersley_impedance_tube_pt);
   
   Outflow_impedance_master_mesh_pt->add_element_pt(pressure_control_element);
   
   // Build the flux control master element and add to the master mesh
   NetFluxControlElementForWomersleyPressureControl* flux_control_element
   = new NetFluxControlElementForWomersleyPressureControl
      (Outflow_flux_control_sub_mesh_pt, pressure_control_element);
 
   Outflow_impedance_master_mesh_pt->add_element_pt(flux_control_element);
  }
}

References b, e(), GlobalPhysicalParameters::L_impedance, OOMPH_CURRENT_FUNCTION, and OOMPH_EXCEPTION_LOCATION.

setup_outflow_impedance_elements() [2/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::setup_outflow_impedance_elements ( )

private

switch_off_wall_oscillations() [1/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::switch_off_wall_oscillations ( )

inline

Function to switch off wall oscillations.

  {
   Wall_pt->enable_remain_steady_at_maximum_amplitude();
  }

switch_off_wall_oscillations() [2/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::switch_off_wall_oscillations ( )

inline

Function to switch off wall oscillations.

  {
   Wall_pt->enable_remain_steady_at_maximum_amplitude();
  }

unsteady_run() [1/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::unsteady_run	(	string	directory_for_data,
		double	nstep,
		const bool &	validation_run = false
	)

Run unsteady problem.

{ 
 // Set volume flux consistent with Re
 Prescribed_volume_flux = 1.0;
 
 // Pressure/applied traction on the left boundary: This is consistent with 
 // steady Poiseuille flow
 Global_Physical_Variables::P_up=
  12.0*(Lup+Lcollapsible+Ldown+L_impedance);
 
 DocInfo doc_info;
 doc_info.set_directory(directory_for_data);
 
 // Open a trace file 
 ofstream trace_file;
 char filename[100];   
 sprintf(filename,"%s/trace.dat",doc_info.directory().c_str());
 trace_file.open(filename);
 
 // Number of timesteps per period
 unsigned nsteps_per_period=40;
 
 //Timestep: 
 double dt=Period/double(nsteps_per_period);
 
 if (validation_run)
  {
   nstep=10;
   dt=0.25;
  }
 
 oomph_info << "Timestep=" << dt << "\n";
 
 // Start time
 double t_min=0.0;
 
 // Initialise timestep and set initial conditions
 time_pt()->time()=t_min;
 initialise_dt(dt);
 set_initial_condition();
 
 // Output the initial solution
 doc_solution(doc_info, trace_file);
 
 // Step number
 doc_info.number()++;
  
 // Set targets for spatial adaptivity
 bulk_mesh_pt()->max_permitted_error()=1.0e-3;
 bulk_mesh_pt()->min_permitted_error()=1.0e-5;
 
 // Setup impedance tube so its initial conditions 
 // correspond to an impulsive start from the current flow rate
 if (Womersley_impedance_tube_pt!=0)
  {
   double q_initial=Womersley_impedance_tube_pt->
    total_volume_flux_into_impedance_tube();
   oomph_info << "q_initial=" << q_initial << "\n";
   Womersley_impedance_tube_pt->setup(&Global_Physical_Variables::ReSt,
                                      dt,
                                      q_initial,
                                      new BDF<2>); 
  }
 
 // Timestepping loop
 for (unsigned istep=0;istep<nstep;istep++)
  {
   oomph_info << "\n\nNewton solve: " << istep << "\n";
   oomph_info << "-----------------\n";
  
   // Solve the problem
   unsteady_newton_solve(dt);
   
   // Outpt the solution
   doc_solution(doc_info, trace_file);
   
   // Step number
   doc_info.number()++;
  }
 
 trace_file.close();
 
}

References oomph::DocInfo::directory(), MergeRestartFiles::filename, GlobalPhysicalParameters::L_impedance, Global_Parameters::Ldown, Global_Parameters::Lup, oomph::DocInfo::number(), oomph::oomph_info, Global_Physical_Variables::P_up, Global_Physical_Variables::Period, GlobalPhysicalParameters::Prescribed_volume_flux, Global_Physical_Variables::ReSt, and oomph::DocInfo::set_directory().

unsteady_run() [2/2]

template<class ELEMENT >

void CollapsibleChannelProblem< ELEMENT >::unsteady_run	(	string	directory_for_data,
		double	nstep,
		const bool &	validation_run = false
	)

Run unsteady problem.

Member Data Documentation

Amplitude

template<class ELEMENT >

double CollapsibleChannelProblem< ELEMENT >::Amplitude

private

Amplitude of osciallation.

Bulk_mesh_id

template<class ELEMENT >

unsigned CollapsibleChannelProblem< ELEMENT >::Bulk_mesh_id

private

Id of the fluid bulk mesh.

Bulk_mesh_pt [1/3]

template<class ELEMENT >

RefineableCollapsibleChannelMesh< ELEMENT > * CollapsibleChannelProblem< ELEMENT >::Bulk_mesh_pt

private

Pointer to the "bulk" mesh.

Bulk_mesh_pt [2/3]

template<class ELEMENT >

MyAlgebraicCollapsibleChannelMesh<ELEMENT>* CollapsibleChannelProblem< ELEMENT >::Bulk_mesh_pt

private

Pointer to the "bulk" mesh.

Bulk_mesh_pt [3/3]

template<class ELEMENT >

ElasticRefineableCollapsibleChannelMesh<ELEMENT>* CollapsibleChannelProblem< ELEMENT >::Bulk_mesh_pt

private

Pointer to the "bulk" mesh.

Constitutive_law_pt

template<class ELEMENT >

ConstitutiveLaw* CollapsibleChannelProblem< ELEMENT >::Constitutive_law_pt

private

Constitutive law used to determine the mesh deformation.

Inflow_traction_mesh_pt

template<class ELEMENT >

Mesh * CollapsibleChannelProblem< ELEMENT >::Inflow_traction_mesh_pt

private

Pointer to the "surface" mesh that contains the applied traction elements at the inflow

L_impedance

template<class ELEMENT >

double CollapsibleChannelProblem< ELEMENT >::L_impedance

private

Length of optional impedance tube.

Lagrange_multiplier_mesh_pt

template<class ELEMENT >

SolidMesh* CollapsibleChannelProblem< ELEMENT >::Lagrange_multiplier_mesh_pt

private

Pointers to meshes of Lagrange multiplier elements.

Lcollapsible

template<class ELEMENT >

double CollapsibleChannelProblem< ELEMENT >::Lcollapsible

private

x-length in the "collapsible" part of the channel

Ldown

template<class ELEMENT >

double CollapsibleChannelProblem< ELEMENT >::Ldown

private

x-length in the downstream part of the channel

Left_node_pt

template<class ELEMENT >

Node * CollapsibleChannelProblem< ELEMENT >::Left_node_pt

private

Pointer to the left control node.

Lup

template<class ELEMENT >

double CollapsibleChannelProblem< ELEMENT >::Lup

private

x-length in the upstream part of the channel

Ly

template<class ELEMENT >

double CollapsibleChannelProblem< ELEMENT >::Ly

private

Transverse length.

Ncollapsible

template<class ELEMENT >

unsigned CollapsibleChannelProblem< ELEMENT >::Ncollapsible

private

Number of elements in the x direction in the "collapsible" part of the channel

Ndown

template<class ELEMENT >

unsigned CollapsibleChannelProblem< ELEMENT >::Ndown

private

Number of elements in the x direction in the downstream part of the channel.

Nup

template<class ELEMENT >

unsigned CollapsibleChannelProblem< ELEMENT >::Nup

private

Number of elements in the x direction in the upstream part of the channel.

Ny

template<class ELEMENT >

unsigned CollapsibleChannelProblem< ELEMENT >::Ny

private

Number of elements across the channel.

Outflow_flux_control_master_mesh_pt

template<class ELEMENT >

Mesh * CollapsibleChannelProblem< ELEMENT >::Outflow_flux_control_master_mesh_pt

private

Pointer to mesh containing the net flux control element (only!)

Outflow_flux_control_sub_mesh_pt

template<class ELEMENT >

Mesh * CollapsibleChannelProblem< ELEMENT >::Outflow_flux_control_sub_mesh_pt

private

Pointer to mesh of flux control elements at outflow.

Outflow_impedance_master_mesh_pt

template<class ELEMENT >

Mesh * CollapsibleChannelProblem< ELEMENT >::Outflow_impedance_master_mesh_pt

private

Pointer to the master impedance mesh when using flux control elements.

Outflow_impedance_mesh_pt

template<class ELEMENT >

Mesh * CollapsibleChannelProblem< ELEMENT >::Outflow_impedance_mesh_pt

private

Pointer to the impedance mesh.

Outflow_type

template<class ELEMENT >

unsigned CollapsibleChannelProblem< ELEMENT >::Outflow_type

private

Outflow boundary type: 0: prescribed flux boundary conditions 1: impedance boundary conditions 2: prescribed outflow Otherwise we have pressure driven flow with zero pressure at outlet

Period

template<class ELEMENT >

double CollapsibleChannelProblem< ELEMENT >::Period

private

Period of oscillation.

Prescribed_volume_flux

template<class ELEMENT >

double CollapsibleChannelProblem< ELEMENT >::Prescribed_volume_flux

private

Prescribed volume flux: set to -1 for value consistent with Re.

Right_node_pt

template<class ELEMENT >

Node * CollapsibleChannelProblem< ELEMENT >::Right_node_pt

private

Pointer to right control node.

Surface_mesh_pt

template<class ELEMENT >

Mesh * CollapsibleChannelProblem< ELEMENT >::Surface_mesh_pt

private

Pointer to the "surface" mesh that contains the applied traction elements

Wall_pt

template<class ELEMENT >

OscillatingWall * CollapsibleChannelProblem< ELEMENT >::Wall_pt

private

Pointer to the geometric object that parametrises the "collapsible" wall.

Womersley_impedance_tube_pt

template<class ELEMENT >

WomersleyOutflowImpedanceTube< QWomersleyElement< 1, 3 >, 1 > * CollapsibleChannelProblem< ELEMENT >::Womersley_impedance_tube_pt

private

Pointer to impendance tube.

---

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

• collapsible_channel.cc
• collapsible_channel_algebraic.cc
• flux_control.cc
• pseudo_solid_collapsible_channel.cc
• one_d_womersley.cc