Problem class to simulate inviscid bubble propagating along 2D channel. More...

Inheritance diagram for BubbleInChannelProblem< ELEMENT >:

Public Member Functions
	BubbleInChannelProblem ()
	Constructor. More...

	~BubbleInChannelProblem ()
	Destructor. More...

void	actions_before_adapt ()
	Actions before adapt: Wipe the mesh of free surface elements. More...

void	actions_after_adapt ()
	Actions after adapt: Rebuild the mesh of free surface elements. More...

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

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

void	complete_problem_setup ()
	Set boundary conditions and complete the build of all elements. More...

void	doc_solution (const std::string &comment="")
	Doc the solution. More...

void	compute_error_estimate (double &max_err, double &min_err)
	Compute the error estimates and assign to elements for plotting. More...

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

void	set_analytic_dparameter (double *const &parameter_pt)

void	unset_analytic_dparameter (double *const &parameter_pt)

bool	is_dparameter_calculated_analytically (double *const &parameter_pt)

void	set_analytic_hessian_products ()

void	unset_analytic_hessian_products ()

bool	are_hessian_products_calculated_analytically ()

void	set_pinned_values_to_zero ()

bool	distributed () const

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

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

	Problem ()

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

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

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

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

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

Mesh *&	mesh_pt (const unsigned &imesh)

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

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

unsigned	add_sub_mesh (Mesh *const &mesh_pt)

void	flush_sub_meshes ()

void	build_global_mesh ()

void	rebuild_global_mesh ()

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

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

LinearSolver *&	mass_matrix_solver_for_explicit_timestepper_pt ()

LinearSolver *	mass_matrix_solver_for_explicit_timestepper_pt () const

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

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

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

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

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

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

TimeStepper *&	time_stepper_pt ()

const TimeStepper *	time_stepper_pt () const

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

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

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

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

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

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

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

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

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

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

double &	max_residuals ()

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

double &	newton_solver_tolerance ()

void	add_time_stepper_pt (TimeStepper *const &time_stepper_pt)

void	set_explicit_time_stepper_pt (ExplicitTimeStepper *const &explicit_time_stepper_pt)

void	initialise_dt (const double &dt)

void	initialise_dt (const Vector< double > &dt)

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

void	add_global_data (Data *const &global_data_pt)

void	flush_global_data ()

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

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

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

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

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

void	enable_store_local_dof_pt_in_elements ()

void	disable_store_local_dof_pt_in_elements ()

unsigned long	assign_eqn_numbers (const bool &assign_local_eqn_numbers=true)

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

void	enable_discontinuous_formulation ()

void	disable_discontinuous_formulation ()

void	get_dofs (DoubleVector &dofs) const

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

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

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

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

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

double *	global_dof_pt (const unsigned &i)

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

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

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

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

virtual void	get_inverse_mass_matrix_times_residuals (DoubleVector &Mres)

virtual void	get_dvaluesdt (DoubleVector &f)

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

void	enable_jacobian_reuse ()

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

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

bool &	use_predictor_values_as_initial_guess ()

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

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

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

void	newton_solve (unsigned const &max_adapt)

void	steady_newton_solve (unsigned const &max_adapt=0)

void	copy (Problem *orig_problem_pt)

virtual Problem *	make_copy ()

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

virtual void	read (std::ifstream &restart_file)

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

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

void	delete_all_external_storage ()

virtual void	symmetrise_eigenfunction_for_adaptive_pitchfork_tracking ()

double *	bifurcation_parameter_pt () const

void	get_bifurcation_eigenfunction (Vector< DoubleVector > &eigenfunction)

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

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

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

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

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

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

void	deactivate_bifurcation_tracking ()

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

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

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

void	reset_arc_length_parameters ()

int &	sign_of_jacobian ()

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

void	unsteady_newton_solve (const double &dt)

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

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

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

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

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

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

void	assign_initial_values_impulsive ()

void	assign_initial_values_impulsive (const double &dt)

void	calculate_predictions ()
	Calculate predictions. More...

void	enable_mass_matrix_reuse ()

void	disable_mass_matrix_reuse ()

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

void	refine_uniformly (const Vector< unsigned > &nrefine_for_mesh)

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

void	refine_uniformly_and_prune (const Vector< unsigned > &nrefine_for_mesh)

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

void	refine_uniformly (DocInfo &doc_info)

void	refine_uniformly_and_prune (DocInfo &doc_info)

void	refine_uniformly ()

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

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

void	p_refine_uniformly (const Vector< unsigned > &nrefine_for_mesh)

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

void	p_refine_uniformly_and_prune (const Vector< unsigned > &nrefine_for_mesh)

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

void	p_refine_uniformly (DocInfo &doc_info)

void	p_refine_uniformly_and_prune (DocInfo &doc_info)

void	p_refine_uniformly ()

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

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

void	refine_selected_elements (const Vector< unsigned > &elements_to_be_refined)

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

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

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

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

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

void	p_refine_selected_elements (const Vector< unsigned > &elements_to_be_refined)

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

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

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

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

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

unsigned	unrefine_uniformly ()

unsigned	unrefine_uniformly (const unsigned &i_mesh)

void	p_unrefine_uniformly (DocInfo &doc_info)

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

void	adapt (unsigned &n_refined, unsigned &n_unrefined)

void	adapt ()

void	p_adapt (unsigned &n_refined, unsigned &n_unrefined)

void	p_adapt ()

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

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

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

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

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

void	enable_info_in_newton_solve ()

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

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

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

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

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

virtual void	actions_before_explicit_stage ()

virtual void	actions_after_explicit_stage ()

Private Types
enum	{ Inflow_boundary_id =0 , Upper_wall_boundary_id =1 , Outflow_boundary_id =2 , Bottom_wall_boundary_id =3 , First_bubble_boundary_id =4 , Second_bubble_boundary_id =5 }
	Enumeration of mesh boundaries. More...

Private Member Functions
void	create_free_surface_elements ()
	Create free surface elements. More...

void	delete_free_surface_elements ()
	Delete free surface elements. More...

void	create_volume_constraint_elements ()
	Create elements that impose volume constraint on the bubble. More...

void	delete_volume_constraint_elements ()
	Delete volume constraint elements. More...

Private Attributes
Mesh *	Free_surface_mesh_pt
	Pointers to mesh of free surface elements. More...

Mesh *	Volume_constraint_mesh_pt
	Pointer to mesh containing elements that impose volume constraint. More...

RefineableSolidTriangleMesh< ELEMENT > *	Fluid_mesh_pt
	Pointer to Fluid_mesh. More...

Vector< TriangleMeshPolygon * >	Bubble_polygon_pt
	Vector storing pointer to the bubble polygons. More...

TriangleMeshPolygon *	Outer_boundary_polyline_pt
	Triangle mesh polygon for outer boundary. More...

Data *	Bubble_pressure_data_pt
	Pointer to a global bubble pressure datum. More...

VolumeConstraintElement *	Vol_constraint_el_pt
	Pointer to element that imposes volume constraint for bubble. More...

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

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

Public Attributes inherited from oomph::Problem
bool	Shut_up_in_newton_solve

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

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

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

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

virtual void	actions_before_newton_convergence_check ()

virtual void	actions_before_newton_step ()

virtual void	actions_after_newton_step ()

virtual void	actions_before_implicit_timestep ()

virtual void	actions_after_implicit_timestep ()

virtual void	actions_after_implicit_timestep_and_error_estimation ()

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

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

virtual void	actions_before_read_unstructured_meshes ()

virtual void	actions_after_read_unstructured_meshes ()

virtual void	actions_after_change_in_global_parameter (double *const &parameter_pt)

virtual void	actions_after_change_in_bifurcation_parameter ()

virtual void	actions_after_parameter_increase (double *const &parameter_pt)

double &	dof_derivative (const unsigned &i)

double &	dof_current (const unsigned &i)

virtual void	set_initial_condition ()

virtual double	global_temporal_error_norm ()

unsigned	newton_solve_continuation (double *const &parameter_pt)

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

void	calculate_continuation_derivatives (double *const &parameter_pt)

void	calculate_continuation_derivatives (const DoubleVector &z)

void	calculate_continuation_derivatives_fd (double *const &parameter_pt)

bool	does_pointer_correspond_to_problem_data (double *const &parameter_pt)

void	set_consistent_pinned_values_for_continuation ()

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

std::map< double *, bool >	Calculate_dparameter_analytic

bool	Calculate_hessian_products_analytic

LinearAlgebraDistribution *	Dof_distribution_pt

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

DoubleVectorWithHaloEntries	Element_count_per_dof

double	Relaxation_factor

double	Newton_solver_tolerance

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

unsigned	Nnewton_iter_taken

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

double	Max_residuals

bool	Time_adaptive_newton_crash_on_solve_fail

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

bool	Jacobian_has_been_computed

bool	Problem_is_nonlinear

bool	Pause_at_end_of_sparse_assembly

bool	Doc_time_in_distribute

unsigned	Sparse_assembly_method

unsigned	Sparse_assemble_with_arrays_initial_allocation

unsigned	Sparse_assemble_with_arrays_allocation_increment

Vector< Vector< unsigned > >	Sparse_assemble_with_arrays_previous_allocation

double	Numerical_zero_for_sparse_assembly

double	FD_step_used_in_get_hessian_vector_products

bool	Mass_matrix_reuse_is_enabled

bool	Mass_matrix_has_been_computed

bool	Discontinuous_element_formulation

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

double	Maximum_dt
	Maximum desired dt. More...

double	DTSF_max_increase

double	DTSF_min_decrease

double	Minimum_dt_but_still_proceed

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

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

double	Theta_squared

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

double	Continuation_direction

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

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

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

unsigned	Dof_derivative_offset

unsigned	Dof_current_offset

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

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

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

unsigned	Desired_newton_iterations_ds

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

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

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

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

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

bool	Use_finite_differences_for_continuation_derivatives

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

bool	Always_take_one_newton_step

double	Timestep_reduction_factor_after_nonconvergence

bool	Keep_temporal_error_below_tolerance

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

Detailed Description

template<class ELEMENT>
class BubbleInChannelProblem< ELEMENT >

Problem class to simulate inviscid bubble propagating along 2D channel.

//////////////////////////////////////////////////////// //////////////////////////////////////////////////////// ////////////////////////////////////////////////////////

Member Enumeration Documentation

◆ anonymous enum

template<class ELEMENT >

anonymous enum

private

Enumeration of mesh boundaries.

Enumerator
Inflow_boundary_id
Upper_wall_boundary_id
Outflow_boundary_id
Bottom_wall_boundary_id
First_bubble_boundary_id
Second_bubble_boundary_id

  {
   Inflow_boundary_id=0,
   Upper_wall_boundary_id=1,
   Outflow_boundary_id=2,
   Bottom_wall_boundary_id=3,
   First_bubble_boundary_id=4,
   Second_bubble_boundary_id=5
  };

Constructor & Destructor Documentation

◆ BubbleInChannelProblem()

template<class ELEMENT >

BubbleInChannelProblem< ELEMENT >::BubbleInChannelProblem

Constructor.

 { 
  // Output directory
  Problem_Parameter::Doc_info.set_directory("RESLT");
  
  // Allocate the timestepper -- this constructs the Problem's 
  // time object with a sufficient amount of storage to store the
  // previous timsteps. 
  this->add_time_stepper_pt(new BDF<2>);
  
  
  
  // Build volume constraint element: Pass pointer to double that
  // specifies target volume, data that contains the "traded" pressure
  // and the index of the traded pressure value within this Data item
  
 #ifdef GLOBAL_DATA
  
   // Create bubble pressure as global Data
  Bubble_pressure_data_pt = new Data(1);
  unsigned index_of_traded_pressure=0;
  this->add_global_data(Bubble_pressure_data_pt);
  
  
  Vol_constraint_el_pt= 
   new VolumeConstraintElement(&Problem_Parameter::Volume,
                               Bubble_pressure_data_pt,
                               index_of_traded_pressure);
  
   //Provide a reasonable initial guess for bubble pressure (hydrostatics):
  Bubble_pressure_data_pt->set_value(index_of_traded_pressure,
                                     Problem_Parameter::Ca/
                                     Problem_Parameter::Radius);
 #else
  
  // Build element and create pressure internally
  Vol_constraint_el_pt= 
   new VolumeConstraintElement(&Problem_Parameter::Volume);
  
  // Which value stores the pressure?
  unsigned index=Vol_constraint_el_pt->index_of_traded_pressure();
  
  // Pressure data
  Bubble_pressure_data_pt=Vol_constraint_el_pt->p_traded_data_pt();
  
  // Assign initial value
  Vol_constraint_el_pt->p_traded_data_pt()->
   set_value(index,Problem_Parameter::Ca/Problem_Parameter::Radius);
  
 #endif
  
  
  // Build the boundary segments for outer boundary, consisting of
  //--------------------------------------------------------------
  // four separate polylines
  //------------------------
  Vector<TriangleMeshCurveSection*> boundary_polyline_pt(4);
  
  // Each polyline only has two vertices -- provide storage for their
  // coordinates
  Vector<Vector<double> > vertex_coord(2);
  for(unsigned i=0;i<2;i++)
   {
    vertex_coord[i].resize(2);
   }
  
  // First polyline: Inflow
  vertex_coord[0][0]=0.0;
  vertex_coord[0][1]=0.0;
  vertex_coord[1][0]=0.0;
  vertex_coord[1][1]=1.0;
  
  // Build the 1st boundary polyline
  boundary_polyline_pt[0] = new TriangleMeshPolyLine(vertex_coord,
                                                    Inflow_boundary_id);
  
  // Second boundary polyline: Upper wall
  vertex_coord[0][0]=0.0;
  vertex_coord[0][1]=1.0;
  vertex_coord[1][0]=Problem_Parameter::Length;
  vertex_coord[1][1]=1.0;
  
  // Build the 2nd boundary polyline
  boundary_polyline_pt[1] = new TriangleMeshPolyLine(vertex_coord,
                                                    Upper_wall_boundary_id);
  
  // Third boundary polyline: Outflow
  vertex_coord[0][0]=Problem_Parameter::Length;
  vertex_coord[0][1]=1.0;
  vertex_coord[1][0]=Problem_Parameter::Length;
  vertex_coord[1][1]=0.0;
  
  // Build the 3rd boundary polyline
  boundary_polyline_pt[2] = new TriangleMeshPolyLine(vertex_coord,
                                                    Outflow_boundary_id);
  
  // Fourth boundary polyline: Bottom wall
  vertex_coord[0][0]=Problem_Parameter::Length;
  vertex_coord[0][1]=0.0;
  vertex_coord[1][0]=0.0;
  vertex_coord[1][1]=0.0;
  
  // Build the 4th boundary polyline
  boundary_polyline_pt[3] = new TriangleMeshPolyLine(vertex_coord,
                                                     Bottom_wall_boundary_id);
  
  // Create the triangle mesh polygon for outer boundary
  Outer_boundary_polyline_pt = new TriangleMeshPolygon(boundary_polyline_pt);
   
  
  // Now define initial shape of bubble(s) with polygon
  //---------------------------------------------------
  
  // We have one bubble
  Bubble_polygon_pt.resize(1);
  
  // Place it smack in the middle of the channel
  double x_center = 0.5*Problem_Parameter::Length;
  double y_center = 0.5;
  Ellipse * bubble_pt = new Ellipse(Problem_Parameter::Radius,
                                        Problem_Parameter::Radius);
  
  // Intrinsic coordinate along GeomObject defining the bubble
  Vector<double> zeta(1);
  
  // Position vector to GeomObject defining the bubble
  Vector<double> coord(2);
  
  // Number of points defining bubble
  unsigned npoints = 16; 
  double unit_zeta = MathematicalConstants::Pi/double(npoints-1);
  
  // This bubble is bounded by two distinct boundaries, each
  // represented by its own polyline
  Vector<TriangleMeshCurveSection*> bubble_polyline_pt(2);
  
  // Vertex coordinates
  Vector<Vector<double> > bubble_vertex(npoints);
  
  // Create points on boundary
  for(unsigned ipoint=0; ipoint<npoints;ipoint++)
   {
    // Resize the vector 
    bubble_vertex[ipoint].resize(2);
    
    // Get the coordinates
    zeta[0]=unit_zeta*double(ipoint);
    bubble_pt->position(zeta,coord);
  
    // Shift
    bubble_vertex[ipoint][0]=coord[0]+x_center;
    bubble_vertex[ipoint][1]=coord[1]+y_center;
   }
  
  // Build the 1st bubble polyline
  bubble_polyline_pt[0] = new TriangleMeshPolyLine(bubble_vertex,
                                                   First_bubble_boundary_id);
  
  // Second boundary of bubble
  for(unsigned ipoint=0; ipoint<npoints;ipoint++)
   {
    // Resize the vector 
    bubble_vertex[ipoint].resize(2);
    
    // Get the coordinates
    zeta[0]=(unit_zeta*double(ipoint))+MathematicalConstants::Pi;
    bubble_pt->position(zeta,coord);
  
    // Shift
    bubble_vertex[ipoint][0]=coord[0]+x_center;
    bubble_vertex[ipoint][1]=coord[1]+y_center;
   }
  
  // Build the 2nd bubble polyline
  bubble_polyline_pt[1] = new TriangleMeshPolyLine(bubble_vertex,
                                                   Second_bubble_boundary_id);
  
  
  // Define coordinates of a point inside the bubble
  Vector<double> bubble_center(2);
  bubble_center[0]=x_center;
  bubble_center[1]=y_center;
  
  
  // Create closed polygon from two polylines
  Bubble_polygon_pt[0] = new TriangleMeshPolygon(
          bubble_polyline_pt,
          bubble_center);
  
  // Now build the mesh, based on the boundaries specified by
  //---------------------------------------------------------
  // polygons just created
  //----------------------
  
  // Convert to "closed curve" objects
  TriangleMeshClosedCurve* outer_closed_curve_pt=Outer_boundary_polyline_pt;
  unsigned nb=Bubble_polygon_pt.size();
  Vector<TriangleMeshClosedCurve*> bubble_closed_curve_pt(nb);
  for (unsigned i=0;i<nb;i++)
   {
    bubble_closed_curve_pt[i]=Bubble_polygon_pt[i];
   }
  
  // Target area for initial mesh
  double uniform_element_area=0.2;
  
  // Use the TriangleMeshParameters object for gathering all
  // the necessary arguments for the TriangleMesh object
  TriangleMeshParameters triangle_mesh_parameters(
    outer_closed_curve_pt);
  
  // Define the holes on the boundary
  triangle_mesh_parameters.internal_closed_curve_pt() =
    bubble_closed_curve_pt;
  
  // Define the maximum element areas
  triangle_mesh_parameters.element_area() =
    uniform_element_area;
  
  // Create the mesh
  Fluid_mesh_pt =
    new RefineableSolidTriangleMesh<ELEMENT>(
      triangle_mesh_parameters, this->time_stepper_pt());
  
  // Set error estimator for bulk mesh
  Z2ErrorEstimator* error_estimator_pt=new Z2ErrorEstimator;
  Fluid_mesh_pt->spatial_error_estimator_pt()=error_estimator_pt;
  
  // Set targets for spatial adaptivity
  Fluid_mesh_pt->max_permitted_error()=0.005;
  Fluid_mesh_pt->min_permitted_error()=0.001;
  Fluid_mesh_pt->max_element_size()=0.2;
  Fluid_mesh_pt->min_element_size()=0.001; 
  
  // Use coarser mesh during validation
  if (CommandLineArgs::command_line_flag_has_been_set("--validation"))
   {
    Fluid_mesh_pt->min_element_size()=0.01; 
   }
  
  // Output boundary and mesh initial mesh for information
  this->Fluid_mesh_pt->output_boundaries("boundaries.dat");
  this->Fluid_mesh_pt->output("mesh.dat");
  
  // Set boundary condition and complete the build of all elements
  complete_problem_setup();
  
  // Construct the mesh of free surface elements
  Free_surface_mesh_pt=new Mesh;
  create_free_surface_elements();
  
  // Construct the mesh of elements that impose the volume constraint
  Volume_constraint_mesh_pt = new Mesh;
  create_volume_constraint_elements();
  
  // Combine meshes
  //---------------
  
  // Add volume constraint sub mesh
  this->add_sub_mesh(this->Volume_constraint_mesh_pt);
  
  // Add Fluid_mesh_pt sub meshes
  this->add_sub_mesh(Fluid_mesh_pt);
  
  // Add Free_surface sub meshes
  this->add_sub_mesh(this->Free_surface_mesh_pt);
  
  // Build global mesh
  this->build_global_mesh();
   
  // Setup equation numbering scheme
  cout <<"Number of equations: " << this->assign_eqn_numbers() << std::endl;
  
 } // end_of_constructor

References Problem_Parameter::Ca, oomph::CommandLineArgs::command_line_flag_has_been_set(), Problem_Parameter::Doc_info, oomph::TriangleMeshParameters::element_area(), MeshRefinement::error_estimator_pt, i, oomph::TriangleMeshParameters::internal_closed_curve_pt(), Problem_Parameter::Length, nb, BiharmonicTestFunctions2::Pi, oomph::Ellipse::position(), Problem_Parameter::Radius, oomph::DocInfo::set_directory(), Problem_Parameter::Volume, and Eigen::zeta().

◆ ~BubbleInChannelProblem()

template<class ELEMENT >

BubbleInChannelProblem< ELEMENT >::~BubbleInChannelProblem ( )

inline

Destructor.

   {
    // Fluid timestepper
    delete this->time_stepper_pt(0);
  
    // Kill data associated with outer boundary
    unsigned n=Outer_boundary_polyline_pt->npolyline();
    for (unsigned j=0;j<n;j++)
     {
      delete Outer_boundary_polyline_pt->polyline_pt(j);
     }
    delete Outer_boundary_polyline_pt;
  
    //Kill data associated with bubbles
    unsigned n_bubble = Bubble_polygon_pt.size();
    for(unsigned ibubble=0;ibubble<n_bubble;ibubble++)
     {
      unsigned n=Bubble_polygon_pt[ibubble]->npolyline();
      for (unsigned j=0;j<n;j++)
       {
        delete Bubble_polygon_pt[ibubble]->polyline_pt(j);
       }
      delete Bubble_polygon_pt[ibubble];
     }
    
    // Flush element of free surface elements
    delete_free_surface_elements();
    delete Free_surface_mesh_pt;
    delete_volume_constraint_elements();
    delete Volume_constraint_mesh_pt;
  
    // Delete error estimator
    delete Fluid_mesh_pt->spatial_error_estimator_pt();
  
    // Delete fluid mesh
    delete Fluid_mesh_pt;
  
    // Delete the global pressure bubble data
    delete Bubble_pressure_data_pt;
  
    // Kill const eqn
    delete Problem_Parameter::Constitutive_law_pt;
  
   }

References Problem_Parameter::Constitutive_law_pt, j, and n.

Member Function Documentation

◆ actions_after_adapt()

template<class ELEMENT >

void BubbleInChannelProblem< ELEMENT >::actions_after_adapt ( )

inlinevirtual

Actions after adapt: Rebuild the mesh of free surface elements.

Reimplemented from oomph::Problem.

   {
    // Create the elements that impose the displacement constraint 
    create_free_surface_elements();
    create_volume_constraint_elements();
    
    // Rebuild the Problem's global mesh from its various sub-meshes
    this->rebuild_global_mesh();
    
    // Setup the problem again -- remember that fluid mesh has been
    // completely rebuilt and its element's don't have any
    // pointers to Re etc. yet
    complete_problem_setup();
  
   }// end of actions_after_adapt

◆ actions_after_newton_solve()

template<class ELEMENT >

void BubbleInChannelProblem< ELEMENT >::actions_after_newton_solve ( )

inlinevirtual

Update the after solve (empty)

Reimplemented from oomph::Problem.

511 {}

◆ actions_before_adapt()

template<class ELEMENT >

void BubbleInChannelProblem< ELEMENT >::actions_before_adapt ( )

inlinevirtual

Actions before adapt: Wipe the mesh of free surface elements.

Reimplemented from oomph::Problem.

   {
    // Kill the  elements and wipe surface mesh
    delete_free_surface_elements();
    delete_volume_constraint_elements();
  
    // Rebuild the Problem's global mesh from its various sub-meshes
    this->rebuild_global_mesh();
   
   }// end of actions_before_adapt

◆ actions_before_newton_solve()

template<class ELEMENT >

void BubbleInChannelProblem< ELEMENT >::actions_before_newton_solve ( )

inlinevirtual

Update the problem specs before solve.

Reimplemented from oomph::Problem.

   {
    //Reset the Lagrangian coordinates of the nodes to be the current
    //Eulerian coordinates -- this makes the current configuration
    //stress free
    Fluid_mesh_pt->set_lagrangian_nodal_coordinates();
   }

◆ complete_problem_setup()

template<class ELEMENT >

void BubbleInChannelProblem< ELEMENT >::complete_problem_setup

Set boundary conditions and complete the build of all elements.

 {      
  // Map to record if a given boundary is on a bubble or not
  map<unsigned,bool> is_on_bubble_bound;
  
  // Loop over the bubbles 
  unsigned nbubble=Bubble_polygon_pt.size();
  for(unsigned ibubble=0;ibubble<nbubble;ibubble++)
   {
    // Get the vector all boundary IDs associated with the polylines that
    // make up the closed polygon
    Vector<unsigned> bubble_bound_id=this->Bubble_polygon_pt[ibubble]->
     polygon_boundary_id();
    
    // Get the number of boundary
    unsigned nbound=bubble_bound_id.size();
    
    // Fill in the map
    for(unsigned ibound=0;ibound<nbound;ibound++)
     {
      // This boundary...
      unsigned bound_id=bubble_bound_id[ibound];
      
      // ...is on the bubble
      is_on_bubble_bound[bound_id]=true;
     }
   } // points on bubble boundary located
  
  // Re-set the boundary conditions for fluid problem: All nodes are
  // free by default -- just pin the ones that have Dirichlet conditions
  // here. 
  unsigned nbound=Fluid_mesh_pt->nboundary();
  for(unsigned ibound=0;ibound<nbound;ibound++)
   {
    unsigned num_nod=Fluid_mesh_pt->nboundary_node(ibound);
    for (unsigned inod=0;inod<num_nod;inod++)
     {
      // Get node
      Node* nod_pt=Fluid_mesh_pt->boundary_node_pt(ibound,inod);
      
      //Pin both velocities on inflow (0) and side boundaries (1 and 3)
      if((ibound==0) || (ibound==1) || (ibound==3))
       {
        nod_pt->pin(0);
        nod_pt->pin(1);
       }
      
      //If it's the outflow pin only the vertical velocity
      if(ibound==2) {nod_pt->pin(1);}
      
      // Pin pseudo-solid positions apart from bubble boundary which
      // we allow to move
      SolidNode* solid_node_pt = dynamic_cast<SolidNode*>(nod_pt);
      if(is_on_bubble_bound[ibound])
       {
        solid_node_pt->unpin_position(0);
        solid_node_pt->unpin_position(1);
       }
      else
       {
        solid_node_pt->pin_position(0);
        solid_node_pt->pin_position(1);
       }
     }
   } // end loop over boundaries
  
  // Complete the build of all elements so they are fully functional
  // Remember that adaptation for triangle meshes involves a complete
  // regneration of the mesh (rather than splitting as in tree-based
  // meshes where such parameters can be passed down from the father
  // element!)
  unsigned n_element = Fluid_mesh_pt->nelement();
  for(unsigned e=0;e<n_element;e++)
   {
    // Upcast from GeneralisedElement to the present element
    ELEMENT* el_pt = dynamic_cast<ELEMENT*>(Fluid_mesh_pt->element_pt(e));
    
    // Set the Reynolds number
    el_pt->re_pt() = &Problem_Parameter::Re;
    
    // Set the Womersley number (same as Re since St=1)
    el_pt->re_st_pt() = &Problem_Parameter::Re;
    
    // Set the constitutive law for pseudo-elastic mesh deformation
    el_pt->constitutive_law_pt()=Problem_Parameter::Constitutive_law_pt;
   }
  
  // Re-apply boundary values on Dirichlet boundary conditions 
  // (Boundary conditions are ignored when the solution is transferred
  // from the old to the new mesh by projection; this leads to a slight
  // change in the boundary values (which are, of course, never changed,
  // unlike the actual unknowns for which the projected values only
  // serve as an initial guess)
  
  // Set velocity and history values of velocity on walls
  nbound=this->Fluid_mesh_pt->nboundary();
  for(unsigned ibound=0;ibound<nbound;++ibound)
   {
    if ((ibound==Upper_wall_boundary_id)||
        (ibound==Bottom_wall_boundary_id)||
        (ibound==Outflow_boundary_id)||
        (ibound==Inflow_boundary_id))
     {
      // Loop over nodes on this boundary
      unsigned num_nod=this->Fluid_mesh_pt->nboundary_node(ibound);
      for (unsigned inod=0;inod<num_nod;inod++)
       {
        // Get node
        Node* nod_pt=this->Fluid_mesh_pt->boundary_node_pt(ibound,inod);
        
        // Get number of previous (history) values
        unsigned n_prev=nod_pt->time_stepper_pt()->nprev_values();
        
        // Velocity is and was zero at all previous times
        for (unsigned t=0;t<=n_prev;t++)
         {
          if (ibound!=Inflow_boundary_id)
           {
            // Parallel outflow
            if (ibound!=Outflow_boundary_id)
             {
              nod_pt->set_value(t,0,0.0); 
             }
            nod_pt->set_value(t,1,0.0);
           }
          
          // Nodes have always been there...
          nod_pt->x(t,0)=nod_pt->x(0,0);
          nod_pt->x(t,1)=nod_pt->x(0,1);
         }
       }
     }
   }
  
  // Re-assign prescribed inflow velocity at inlet
  unsigned num_nod=this->Fluid_mesh_pt->nboundary_node(Inflow_boundary_id);
  for (unsigned inod=0;inod<num_nod;inod++)
   {
    // Get node
    Node* nod_pt=this->Fluid_mesh_pt->boundary_node_pt(Inflow_boundary_id,
                                                       inod);
    //Now set the boundary velocity
    double y = nod_pt->x(1); 
    nod_pt->set_value(0,Problem_Parameter::Inflow_veloc_magnitude*y*(1-y));
   }
  
 } // end of complete_problem_setup

References Problem_Parameter::Constitutive_law_pt, e(), Problem_Parameter::Inflow_veloc_magnitude, oomph::TimeStepper::nprev_values(), oomph::Data::pin(), oomph::SolidNode::pin_position(), Problem_Parameter::Re, oomph::Data::set_value(), plotPSD::t, oomph::Data::time_stepper_pt(), oomph::SolidNode::unpin_position(), oomph::Node::x(), and y.

◆ compute_error_estimate()

template<class ELEMENT >

void BubbleInChannelProblem< ELEMENT >::compute_error_estimate	(	double &	max_err,
		double &	min_err
	)

Compute the error estimates and assign to elements for plotting.

Compute error estimates and assign to elements for plotting.

 { 
  // Get error estimator
  ErrorEstimator* err_est_pt=Fluid_mesh_pt->spatial_error_estimator_pt();
  
  // Get/output error estimates
  unsigned nel=Fluid_mesh_pt->nelement();
  Vector<double> elemental_error(nel);
  
  // We need a dynamic cast, get_element_errors from the Fluid_mesh_pt
  // Dynamic cast is used because get_element_errors require a Mesh* ans
  // not a SolidMesh*
  Mesh* fluid_mesh_pt=dynamic_cast<Mesh*>(Fluid_mesh_pt);
  err_est_pt->get_element_errors(fluid_mesh_pt,
                                 elemental_error);
  
  // Set errors for post-processing and find extrema
  max_err=0.0;
  min_err=DBL_MAX;
  for (unsigned e=0;e<nel;e++)
   {
    dynamic_cast<MyTaylorHoodElement*>(Fluid_mesh_pt->element_pt(e))->
     set_error(elemental_error[e]);
  
    max_err=std::max(max_err,elemental_error[e]);
    min_err=std::min(min_err,elemental_error[e]);
   }
   
 }

References e(), oomph::ErrorEstimator::get_element_errors(), max, min, and set_error().

◆ create_free_surface_elements()

template<class ELEMENT >

void BubbleInChannelProblem< ELEMENT >::create_free_surface_elements

private

Create free surface elements.

Create elements that impose the kinematic and dynamic bcs for the pseudo-solid fluid mesh

 { 
  
  // Volume constraint element stores the Data item that stores
  // the bubble pressure that is adjusted/traded to allow for
  // volume conservation. Which value is the pressure stored in?
  unsigned p_traded_index=Vol_constraint_el_pt->index_of_traded_pressure();
  
  //Loop over the free surface boundaries
  unsigned nb=Fluid_mesh_pt->nboundary();
  for(unsigned b=First_bubble_boundary_id;b<nb;b++)
   {
    // How many bulk fluid elements are adjacent to boundary b?
    unsigned n_element = Fluid_mesh_pt->nboundary_element(b);
    
    // Loop over the bulk fluid elements adjacent to boundary b?
    for(unsigned e=0;e<n_element;e++)
     {
      // Get pointer to the bulk fluid element that is 
      // adjacent to boundary b
      ELEMENT* bulk_elem_pt = dynamic_cast<ELEMENT*>(
       Fluid_mesh_pt->boundary_element_pt(b,e));
      
      //Find the index of the face of element e along boundary b
      int face_index = Fluid_mesh_pt->face_index_at_boundary(b,e);
      
      // Create new element
      ElasticLineFluidInterfaceElement<ELEMENT>* el_pt =
       new ElasticLineFluidInterfaceElement<ELEMENT>(
        bulk_elem_pt,face_index);   
      
      // Add it to the mesh
      Free_surface_mesh_pt->add_element_pt(el_pt);
      
      //Add the appropriate boundary number
      el_pt->set_boundary_number_in_bulk_mesh(b);
      
      //Specify the capillary number
      el_pt->ca_pt() = &Problem_Parameter::Ca;
  
      // Specify the bubble pressure (pointer to Data object and 
      // index of value within that Data object that corresponds
      // to the traded pressure
      el_pt->set_external_pressure_data(
       Vol_constraint_el_pt->p_traded_data_pt(),p_traded_index); 
     } 
   }
 }

References b, Problem_Parameter::Ca, oomph::FluidInterfaceElement::ca_pt(), e(), nb, oomph::FaceElement::set_boundary_number_in_bulk_mesh(), and oomph::FluidInterfaceElement::set_external_pressure_data().

◆ create_volume_constraint_elements()

template<class ELEMENT >

void BubbleInChannelProblem< ELEMENT >::create_volume_constraint_elements

private

Create elements that impose volume constraint on the bubble.

 { 
  
  // Add volume constraint element to the mesh
  Volume_constraint_mesh_pt->add_element_pt(Vol_constraint_el_pt);
  
  //Loop over the free surface boundaries
  unsigned nb=Fluid_mesh_pt->nboundary();
  for(unsigned b=First_bubble_boundary_id;b<nb;b++)
   {
    // How many bulk fluid elements are adjacent to boundary b?
    unsigned n_element = Fluid_mesh_pt->nboundary_element(b);
    
    // Loop over the bulk fluid elements adjacent to boundary b?
    for(unsigned e=0;e<n_element;e++)
     {
      // Get pointer to the bulk fluid element that is 
      // adjacent to boundary b
      ELEMENT* bulk_elem_pt = dynamic_cast<ELEMENT*>(
       Fluid_mesh_pt->boundary_element_pt(b,e));
      
      //Find the index of the face of element e along boundary b
      int face_index = Fluid_mesh_pt->face_index_at_boundary(b,e);
      
      // Create new element
      ElasticLineVolumeConstraintBoundingElement<ELEMENT>* el_pt =
       new ElasticLineVolumeConstraintBoundingElement<ELEMENT>(
        bulk_elem_pt,face_index);   
      
      //Set the "master" volume constraint element
      el_pt->set_volume_constraint_element(Vol_constraint_el_pt);
  
      // Add it to the mesh
      Volume_constraint_mesh_pt->add_element_pt(el_pt);     
     } 
   }
 }

References b, e(), nb, and oomph::VolumeConstraintBoundingElement::set_volume_constraint_element().

◆ delete_free_surface_elements()

template<class ELEMENT >

void BubbleInChannelProblem< ELEMENT >::delete_free_surface_elements ( )

inlineprivate

Delete free surface elements.

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

References e().

◆ delete_volume_constraint_elements()

template<class ELEMENT >

void BubbleInChannelProblem< ELEMENT >::delete_volume_constraint_elements ( )

inlineprivate

Delete volume constraint elements.

   {
    // How many surface elements are in the surface mesh
    unsigned n_element = Volume_constraint_mesh_pt->nelement();
    
    // Loop over the surface elements (but don't kill the volume constraint
    // element (element 0))
    unsigned first_el_to_be_killed=1;
    for(unsigned e=first_el_to_be_killed;e<n_element;e++) 
     {
      delete Volume_constraint_mesh_pt->element_pt(e);
     }
    
    // Wipe the mesh
    Volume_constraint_mesh_pt->flush_element_and_node_storage();
    
   } // end of delete_volume_constraint_elements

References e().

◆ doc_solution()

template<class ELEMENT >

void BubbleInChannelProblem< ELEMENT >::doc_solution ( const std::string & comment = "" )

Doc the solution.

 { 
  oomph_info << "Docing step: " << Problem_Parameter::Doc_info.number()
             << std::endl;
  
  ofstream some_file;
  char filename[100];
  sprintf(filename,"%s/soln%i.dat",
          Problem_Parameter::Doc_info.directory().c_str(),
          Problem_Parameter::Doc_info.number());
  
  // Number of plot points
  unsigned npts;
  npts=5; 
  
  // Compute errors and assign to each element for plotting
  double max_err;
  double min_err;
  compute_error_estimate(max_err,min_err);
  
  // Assemble square of L2 norm 
  double square_of_l2_norm=0.0;
  unsigned nel=Fluid_mesh_pt->nelement();
  for (unsigned e=0;e<nel;e++)
   {
    square_of_l2_norm+=
     dynamic_cast<ELEMENT*>(this->Fluid_mesh_pt->element_pt(e))->
     square_of_l2_norm();
   }
  Problem_Parameter::Norm_file << sqrt(square_of_l2_norm) << std::endl;
  
  
  some_file.open(filename);
  some_file << dynamic_cast<ELEMENT*>(this->Fluid_mesh_pt->element_pt(0))
   ->variable_identifier();
  this->Fluid_mesh_pt->output(some_file,npts);   
  some_file << "TEXT X = 25, Y = 78, CS=FRAME T = \"Global Step " 
            << Problem_Parameter::Doc_info.number() << "  " 
            << comment << "\"\n";
  some_file.close();
  
  
  
  // Output boundaries
  sprintf(filename,"%s/boundaries%i.dat",
          Problem_Parameter::Doc_info.directory().c_str(),
          Problem_Parameter::Doc_info.number());
  some_file.open(filename);
  this->Fluid_mesh_pt->output_boundaries(some_file);
  some_file.close();
  
  // Get max/min area
  double max_area;
  double min_area;
  Fluid_mesh_pt->max_and_min_element_size(max_area, min_area);
  
  // Get total volume enclosed by face elements (ignore first one)
  double vol=0.0;
  vol=Problem_Parameter::Volume;
  
  // Write trace file
  Problem_Parameter::Trace_file 
   << this->time_pt()->time() << " " 
   << Fluid_mesh_pt->nelement() << " "
   << max_area << " "
   << min_area << " "
   << max_err << " "
   << min_err << " "
   << sqrt(square_of_l2_norm) << " "
   << vol << " "
   << std::endl;
  
  // Increment the doc_info number
  Problem_Parameter::Doc_info.number()++;
  
 } //end_of_doc_solution

References Problem_Parameter::Doc_info, e(), MergeRestartFiles::filename, Problem_Parameter::Norm_file, oomph::DocInfo::number(), oomph::oomph_info, sqrt(), square_of_l2_norm(), Problem_Parameter::Trace_file, and Problem_Parameter::Volume.

Member Data Documentation

◆ Bubble_polygon_pt

template<class ELEMENT >

Vector<TriangleMeshPolygon*> BubbleInChannelProblem< ELEMENT >::Bubble_polygon_pt

private

Vector storing pointer to the bubble polygons.

◆ Bubble_pressure_data_pt

template<class ELEMENT >

Data* BubbleInChannelProblem< ELEMENT >::Bubble_pressure_data_pt

private

Pointer to a global bubble pressure datum.

◆ Fluid_mesh_pt

template<class ELEMENT >

RefineableSolidTriangleMesh<ELEMENT>* BubbleInChannelProblem< ELEMENT >::Fluid_mesh_pt

private

Pointer to Fluid_mesh.

◆ Free_surface_mesh_pt

template<class ELEMENT >

Mesh* BubbleInChannelProblem< ELEMENT >::Free_surface_mesh_pt

private

Pointers to mesh of free surface elements.

◆ Outer_boundary_polyline_pt

template<class ELEMENT >

TriangleMeshPolygon* BubbleInChannelProblem< ELEMENT >::Outer_boundary_polyline_pt

private

Triangle mesh polygon for outer boundary.

◆ Vol_constraint_el_pt

template<class ELEMENT >

VolumeConstraintElement* BubbleInChannelProblem< ELEMENT >::Vol_constraint_el_pt

private

Pointer to element that imposes volume constraint for bubble.

◆ Volume_constraint_mesh_pt

template<class ELEMENT >

Mesh* BubbleInChannelProblem< ELEMENT >::Volume_constraint_mesh_pt

private

Pointer to mesh containing elements that impose volume constraint.

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

adaptive_bubble_in_channel.cc

Public Member Functions

Private Types

Private Member Functions

Private Attributes

Additional Inherited Members

Detailed Description

template<class ELEMENT> class BubbleInChannelProblem< ELEMENT >

Member Enumeration Documentation

◆ anonymous enum

Constructor & Destructor Documentation

◆ BubbleInChannelProblem()

◆ ~BubbleInChannelProblem()

Member Function Documentation

◆ actions_after_adapt()

◆ actions_after_newton_solve()

◆ actions_before_adapt()

◆ actions_before_newton_solve()

◆ complete_problem_setup()

◆ compute_error_estimate()

◆ create_free_surface_elements()

◆ create_volume_constraint_elements()

◆ delete_free_surface_elements()

◆ delete_volume_constraint_elements()

◆ doc_solution()

Member Data Documentation

◆ Bubble_polygon_pt

◆ Bubble_pressure_data_pt

◆ Fluid_mesh_pt

◆ Free_surface_mesh_pt

◆ Outer_boundary_polyline_pt

◆ Vol_constraint_el_pt

◆ Volume_constraint_mesh_pt

template<class ELEMENT>
class BubbleInChannelProblem< ELEMENT >