Polar Streamfunction problem class. More...

#include <streamfunction_include.h>

Inheritance diagram for oomph::StreamfunctionProblem:

Public Member Functions
	StreamfunctionProblem (const bool &eigen)
	Constructor: Pass pointer to source function. More...

	~StreamfunctionProblem ()
	Destructor (empty – all the cleanup is done in base class) More...

void	actions_before_solve ()

void	actions_after_solve ()
	Update the problem after solve (empty) More...

void	actions_before_adapt ()
	Before adaptation: More...

void	actions_after_adapt ()
	After adaptation: Unpin all pressures and then pin redudant pressure dofs. More...

streamfunction_mesh *	mesh_pt ()

void	pin_boundaries ()
	Pin boundaries. More...

void	pin_velocities ()
	Pin velocities. More...

void	assign_velocities ()
	Assign velocities to nodes. More...

void	get_vels (const Vector< double > &x_to_get, double &stream)
	Return the value of the streamfunction at given global coordinates. More...

void	my_output (const int radial, const int azimuthal, bool log_output, string file_name)
	Output the streamfunction on a regular grid. More...

void	doc_solution (DocInfo &doc_info)
	Doc the solution: doc_info contains labels/output directory etc. More...

void	header (ofstream &some_file)

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 Attributes
bool	eigenfunction
	Storage for whether we're solving for an eigenfunction or not. 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

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_solve ()

virtual void	actions_after_newton_solve ()

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 ()

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

Detailed Description

Polar Streamfunction problem class.

2D Streamfunction problem on rectangular domain

Constructor & Destructor Documentation

◆ StreamfunctionProblem()

oomph::StreamfunctionProblem::StreamfunctionProblem ( const bool & eigen )

Constructor: Pass pointer to source function.

Constructor for Streamfunction problem: Pass pointer to source function.

 { 
  // Are we solving for an eigenfunction?
  this->eigenfunction=eigen;
  
  // Setup mesh
  
  // # of elements in x-direction
  unsigned n_x=Global_Physical_Variables::xmesh;
  unsigned n_y=Global_Physical_Variables::ymesh;
  
  // Build and assign mesh 
  //Problem::mesh_pt() = new streamfunction_mesh<RefineablePolarStreamfunctionElement>(n_x,n_y);
  Problem::mesh_pt() = new streamfunction_mesh(n_x,n_y);
  
  // Set error estimator
  Z2ErrorEstimator* error_estimator_pt=new Z2ErrorEstimator;
  mesh_pt()->spatial_error_estimator_pt()=error_estimator_pt;
  
  // Pin the relevant boundaries 
  pin_boundaries();
  
  // Now loop over all nodes and pin the nodal dofs storing velocities
  pin_velocities();
  
  // Complete the build of all elements so they are fully functional
  
  //Find number of fluid elements in mesh
  unsigned n_fluid = mesh_pt()->fluid_elt_length();
  for(unsigned i=0;i<n_fluid;i++)
   {
    // Upcast from GeneralsedElement to the present element
    RefineablePolarStreamfunctionElement *el_pt = dynamic_cast<RefineablePolarStreamfunctionElement*>(mesh_pt()->element_pt(i));
  
    //Set the pointer to the angle Alpha
    el_pt->alpha_pt() = &Global_Physical_Variables::Alpha;
   }
  
  //Find number of traction elements in mesh
  
  // Setup equation numbering scheme
  std::cout <<"Number of equations: " << assign_eqn_numbers() << std::endl; 
  
 } // end of constructor

References Global_Physical_Variables::Alpha, oomph::PolarStreamfunctionEquations::alpha_pt(), oomph::Problem::assign_eqn_numbers(), eigenfunction, oomph::Mesh::element_pt(), MeshRefinement::error_estimator_pt, oomph::Refineable_r_mesh< ELEMENT >::fluid_elt_length(), i, mesh_pt(), oomph::Problem::mesh_pt(), pin_boundaries(), pin_velocities(), oomph::RefineableMeshBase::spatial_error_estimator_pt(), Global_Physical_Variables::xmesh, and Global_Physical_Variables::ymesh.

◆ ~StreamfunctionProblem()

oomph::StreamfunctionProblem::~StreamfunctionProblem ( )

inline

Destructor (empty – all the cleanup is done in base class)

173 {};

Member Function Documentation

◆ actions_after_adapt()

void oomph::StreamfunctionProblem::actions_after_adapt ( )

inlinevirtual

After adaptation: Unpin all pressures and then pin redudant pressure dofs.

Reimplemented from oomph::Problem.

   {
    //Reassign fluid elements to storage
    mesh_pt()->assign_fluid_element_vector();
  
    //Add traction elements back onto the mesh
    mesh_pt()->make_traction_elements(false);
    mesh_pt()->make_traction_elements(true);
  
    //Repin the velocities stored at all nodes
    pin_velocities();
  
    //Repin boundaries?
    //pin_boundaries();
   }

References oomph::streamfunction_mesh::assign_fluid_element_vector(), oomph::streamfunction_mesh::make_traction_elements(), mesh_pt(), and pin_velocities().

Referenced by PolarNSProblem< ELEMENT >::output_streamfunction().

◆ actions_after_solve()

void oomph::StreamfunctionProblem::actions_after_solve ( )

inline

Update the problem after solve (empty)

180 {}

◆ actions_before_adapt()

void oomph::StreamfunctionProblem::actions_before_adapt ( )

inlinevirtual

Before adaptation:

Reimplemented from oomph::Problem.

   {
    // Strip traction elements from mesh before refine
    mesh_pt()->remove_traction_elements();
   }

References mesh_pt(), and oomph::streamfunction_mesh::remove_traction_elements().

Referenced by PolarNSProblem< ELEMENT >::output_streamfunction().

◆ actions_before_solve()

void oomph::StreamfunctionProblem::actions_before_solve ( )

Update the problem specs before solve: Reset boundary conditions to the values from the exact solution.

Update the problem specs before solve: (Re-)set boundary conditions to the values from the exact solution.

 {
  // How many boundaries are there?
  unsigned n_bound = mesh_pt()->nboundary();
  
  //Loop over the side boundaries
  for(unsigned i=0;i<n_bound;i+=2)
   {
    // How many nodes are there on this boundary?
    unsigned n_node = mesh_pt()->nboundary_node(i);
  
    // Loop over the nodes on boundary
    for (unsigned n=0;n<n_node;n++)
     {
      // Get pointer to node
      Node* nod_pt=mesh_pt()->boundary_node_pt(i,n);
  
      // Extract nodal coordinates from node:
      Vector<double> x(2);
      x[0]=nod_pt->x(0);
      x[1]=nod_pt->x(1);
  
      double stream = 0.5*x[1];
      // Zero boundary conditions for eigenproblem
      if(this->eigenfunction) stream=0.0;
  
      // Assign values to the first nodal value
      nod_pt->set_value(0,stream);
  
     }
   } 
 }  // end of actions before solve

References oomph::Mesh::boundary_node_pt(), eigenfunction, i, mesh_pt(), n, oomph::Mesh::nboundary(), oomph::Mesh::nboundary_node(), oomph::Data::set_value(), plotDoE::x, and oomph::Node::x().

◆ assign_velocities()

void oomph::StreamfunctionProblem::assign_velocities ( )

Assign velocities to nodes.

 {
  // Loop over all nodes and asign values for velocites
  unsigned num_nod = mesh_pt()->nnode();
  for(unsigned i=0;i<num_nod;i++)
   {
     // Extract nodal coordinates from node:
     Vector<double> x(2);
     x[0]=mesh_pt()->node_pt(i)->x(0);
     x[1]=mesh_pt()->node_pt(i)->x(1);
  
     //double A = Global_Physical_Variables::Alpha;
  
     //double u=(x[0]/A)*cos(x[1])-(1./(4.*A));
     //double v=-2.*x[0]*sin(x[1])+0.25*x[1];
     //A=0.0;
     double u=0.0;double v=0.0;
  
     mesh_pt()->node_pt(i)->set_value(1,u);
     mesh_pt()->node_pt(i)->set_value(2,v);
   }
  
 } // end of assign_velocities

References i, mesh_pt(), oomph::Mesh::nnode(), oomph::Mesh::node_pt(), oomph::Data::set_value(), v, plotDoE::x, and oomph::Node::x().

◆ doc_solution()

void oomph::StreamfunctionProblem::doc_solution ( DocInfo & doc_info )

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

Doc the solution. DocInfo object stores flags/labels for where the output gets written to

 { 
  ofstream some_file;
  char filename[100];
  
  // Number of plot points: npts x npts
  unsigned npts=3;
  
  // Output solution 
  //-----------------
  sprintf(filename,"%s/streamfunction%i.dat",doc_info.directory().c_str(),
          doc_info.number());
  some_file.open(filename);
  header(some_file);
  mesh_pt()->output(some_file,npts);
  some_file.close();
  
 } // end of doc

References oomph::DocInfo::directory(), MergeRestartFiles::filename, header(), mesh_pt(), oomph::DocInfo::number(), and oomph::Mesh::output().

Referenced by PolarNSProblem< ELEMENT >::output_streamfunction().

◆ get_vels()

void oomph::StreamfunctionProblem::get_vels	(	const Vector< double > &	x_to_get,
		double &	stream
	)

Return the value of the streamfunction at given global coordinates.

 {
   // local coord
   Vector<double> s( 2, 0.0 );
   // global coords
   Vector<double> x_lower_left( 2, 0.0 );
   Vector<double> x_centre( 2, 0.0 );
   Vector<double> x_upper_right( 2, 0.0 );
   Vector<double> x( 2, 0.0 );
   double a,b,c,sub;
   //Reset interpolated velocity - check they're being set at some point
   stream=-2.;
  
   // Loop over all the (fluid) elements 
   unsigned long n_element = mesh_pt() -> nelement();
   for ( unsigned long e = 0; e < n_element; e++ )
     {
       // Cast to the particular element type, this is necessary because
       // the base elements don't have the member functions that we're about
       // to call!
       RefineablePolarStreamfunctionElement* elt_pt = dynamic_cast<RefineablePolarStreamfunctionElement*>( mesh_pt() -> element_pt(e) );
       
       s[0] = -1.0; s[1] = -1.0;
       elt_pt -> get_x( s, x_lower_left );
  
       s[0] = 1.0; s[1] = 1.0;
       elt_pt -> get_x( s, x_upper_right );
       
       // check the elts lower left corner is SW of point to return
       if ( ( x_lower_left[0] <= x_to_get[0] ) 
            && ( x_lower_left[1] <= x_to_get[1] ) )
         {
           // check the elts upper right corner is NE of point to return
           if ( ( x_upper_right[0] > x_to_get[0] ) 
                && ( x_upper_right[1] > x_to_get[1] ) )
             {
               //Quadratic interpolation:
               a=x_lower_left[0];
               s[0] = 0.0; s[1] = 0.0;
               elt_pt -> get_x( s, x_centre );
               b=x_centre[0];
               c=x_upper_right[0];
               sub=pow(c-a,2.0)-8.0*(a+c-2.0*b)*(b-x_to_get[0]);
  
               if(abs(a+c-2.*b)<1.e-8)s[0] = -1.0 + 2.*( x_to_get[0] - x_lower_left[0] ) 
                         / ( x_upper_right[0] - x_lower_left[0] );
               else s[0]=((a-c)+sqrt(sub))/(2.0*(a+c-2.0*b));
  
               // our point to get is in the current elt
               // now work out the local coordinate
               // This only works for evenly spaced global
               // coordinates across the element - Not true 
               // in radial direction. 
               s[1] = -1.0 + 2.*( x_to_get[1] - x_lower_left[1] ) 
                 / ( x_upper_right[1] - x_lower_left[1] );
  
               // check on my quadratic interpolation
               elt_pt -> get_x( s, x );
  
               if(abs(x[0]-x_to_get[0])>1.e-12)
                {
                 if(abs(a+c-2.*b)<1.e-8) std::cout << "Element almost linear: " << abs(a+c-2.*b) << std::endl;
                 std::cout << "error in interpolation: " << (x[0]-x_to_get[0]) << std::endl;
                 std::cout << "r:" << x[0] << "r to get: " << x_to_get[0] << std::endl;
                }
  
               // get the position of this
               elt_pt -> get_x( s, x );
               stream = elt_pt -> interpolated_streamfunction( s );
             
               break;
             }
         }
       //return vels;
     }
 }

References a, abs(), b, calibrate::c, e(), mesh_pt(), Eigen::bfloat16_impl::pow(), s, sqrt(), sub(), and plotDoE::x.

Referenced by my_output().

◆ header()

void oomph::StreamfunctionProblem::header ( ofstream & some_file )

  {
   some_file << "# Refineable streamfunction mesh" << "\n";
   some_file << "# Re = " << Global_Physical_Variables::Re << " Alpha = " << Global_Physical_Variables::Alpha
         << " R_l = " << Global_Physical_Variables::R_l << "\n";
   some_file << "# Initial xmesh = " << Global_Physical_Variables::xmesh 
         << " Initial ymesh = " << Global_Physical_Variables::ymesh << "\n";
   some_file << "# Uniform refinements: " << Global_Physical_Variables::uniform 
         << " Adaptive refinements: " << Global_Physical_Variables::adaptive << "\n";
   some_file << "# inlet_traction = " << Global_Physical_Variables::inlet_traction 
         << " eta_inlet = " << Global_Physical_Variables::eta_inlet << "\n";
   some_file << "# outlet_traction = " << Global_Physical_Variables::outlet_traction 
         << " eta_outlet = " << Global_Physical_Variables::eta_outlet << "\n";
   some_file << "# log_mesh = " << Global_Physical_Variables::log_mesh 
         << " new_outlet_region = " << Global_Physical_Variables::new_outlet_region << "\n";
   some_file << "# pinv = " << Global_Physical_Variables::pinv << "\n";
   some_file << "\n";
  }

Referenced by doc_solution().

◆ mesh_pt()

streamfunction_mesh* oomph::StreamfunctionProblem::mesh_pt ( )

inline

   {
    // Upcast from pointer to the Mesh base class to the specific 
    // element type that we're using here.
    return dynamic_cast<streamfunction_mesh* >(Problem::mesh_pt());
   }

References oomph::Problem::mesh_pt().

Referenced by actions_after_adapt(), actions_before_adapt(), actions_before_solve(), assign_velocities(), doc_solution(), get_vels(), PolarNSProblem< ELEMENT >::output_streamfunction(), pin_boundaries(), pin_velocities(), and StreamfunctionProblem().

◆ my_output()

void oomph::StreamfunctionProblem::my_output	(	const int	radial,
		const int	azimuthal,
		bool	log_output,
		string	file_name
	)

Output the streamfunction on a regular grid.

 {
   // Quick adjustment so that I don't ever end up exactly on a boundary
   // (get_vels fails on certain boundaries)
   // (current difference between x_to_get and x_upper_right around 7.e-15 so
   // 1.e-13 should be fine...)
   double inner=Global_Physical_Variables::R_l+1.e-13;
   double outer=Global_Physical_Variables::R_r-1.e-13;
   // And the same for azimuthal direction
   double left=-1.+1.e-13;
   double right=1.-1.e-13;
  
   // Set up common ratio for log spaced output
   double R = pow((outer/inner),(1.0/(radial - 1.0)));
  
   // New output file
   ofstream out;
   out.open(file_name.c_str());
  
   out << "# Streamfunction output at " << radial << " radial and " << azimuthal << " azimuthal points" << std::endl;
   out << "# Re = " << Global_Physical_Variables::Re << " Alpha = " << Global_Physical_Variables::Alpha 
       << " R_l = " << Global_Physical_Variables::R_l << std::endl;
   out << "# Initial xmesh: " << Global_Physical_Variables::xmesh << " Initial ymesh " << Global_Physical_Variables::ymesh << std::endl;
   out << "# Uniform refinements: " << Global_Physical_Variables::uniform << " Adaptive refinements: " << Global_Physical_Variables::adaptive << std::endl;
   out << "# log_mesh = " << Global_Physical_Variables::log_mesh << " new_outlet_region = " << Global_Physical_Variables::new_outlet_region << std::endl;
   out << "# Inlet traction: " << Global_Physical_Variables::inlet_traction << " Outlet traction: " << Global_Physical_Variables::outlet_traction << std::endl;
   out << "# eta_inlet: " << Global_Physical_Variables::eta_inlet << " eta_outlet: " << Global_Physical_Variables::eta_outlet << std::endl;
   out << "# Pin v at inlet: " << Global_Physical_Variables::pinv << std::endl;
   out << std::endl;
  
   std::cout << endl;
   std::cout << "Outputting streamfunction to file " << file_name << " at " << radial 
         << " radial plot points and " << azimuthal << " azimuthal points." << std::endl;
   std::cout << std::endl;
   
   //Position of elements
   Vector<double> position(2,0.0);
   double stream=0.0;
   
   //Loops now radial inside azimuthal to agree with my poisson solver
   if(log_output)
     {
       for(int i=0;i<radial;i++)
     {
       // Update radial position
        position[0]=inner*pow(R,i);
        
        for(int j=0;j<azimuthal;j++)
          {
            // Update azimuthal position
            position[1]=left + ((right-left)*j)/(azimuthal-1.0);
            
            // Read off the velocity at this point
            get_vels(position,stream);
            
            // Output to file
            out << position[0] << " " << position[1] << " " << stream << std::endl;
            
          } // End of loop over azimuthal
        
        out << std::endl;
        
     } // End of loop over radial
       
     } // End of log spaced output loop
    else
      {
        for(int i=0;i<radial;i++)
      {
        // Update radial position
        position[0]=inner + ((outer-inner)*i)/(radial-1.0);
        
        for(int j=0;j<azimuthal;j++)
          {
            // Update azimthual position
            position[1]=left + ((right-left)*j)/(azimuthal-1.0);
            
            // Read off the velocity at this point
            get_vels(position,stream);
            
            // Output to file
            out << position[0] << " " << position[1] << " " << stream << std::endl;
  
          } // End of loop over azimuthal
  
        out << std::endl;
  
      } // End of loop over radial
         
      } // End of regular spaced output loop
  
   out.close();
   
 }

Referenced by PolarNSProblem< ELEMENT >::output_streamfunction().

◆ pin_boundaries()

void oomph::StreamfunctionProblem::pin_boundaries ( )

Pin boundaries.

pin boundaries

 {
  unsigned n_bound = mesh_pt()->nboundary();
  //for(unsigned i=0;i<n_bound;i++)
  for(unsigned i=0;i<n_bound;i+=2)
   {
    unsigned n_node = mesh_pt()->nboundary_node(i);
    for (unsigned n=0;n<n_node;n++)
     {
      //Pin both streamfunction and vorcitity at boundaries
      mesh_pt()->boundary_node_pt(i,n)->pin(0); 
     }
   }
  
 } // end of pin_boundaries

References oomph::Mesh::boundary_node_pt(), i, mesh_pt(), n, oomph::Mesh::nboundary(), oomph::Mesh::nboundary_node(), and oomph::Data::pin().

Referenced by StreamfunctionProblem().

◆ pin_velocities()

void oomph::StreamfunctionProblem::pin_velocities ( )

Pin velocities.

pin velocities at all nodes

 {
  // Loop over all nodes and asign values for velocites
  unsigned num_nod = mesh_pt()->nnode();
  for(unsigned i=0;i<num_nod;i++)
   {
    mesh_pt()->node_pt(i)->pin(1);
    mesh_pt()->node_pt(i)->pin(2);
   }
  
 } // end of pin_velocities

References i, mesh_pt(), oomph::Mesh::nnode(), oomph::Mesh::node_pt(), and oomph::Data::pin().

Referenced by actions_after_adapt(), and StreamfunctionProblem().

Member Data Documentation

◆ eigenfunction

bool oomph::StreamfunctionProblem::eigenfunction

protected

Storage for whether we're solving for an eigenfunction or not.

Referenced by actions_before_solve(), and StreamfunctionProblem().

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

streamfunction_include.h

Public Member Functions

Protected Attributes

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

◆ StreamfunctionProblem()

◆ ~StreamfunctionProblem()

Member Function Documentation

◆ actions_after_adapt()

◆ actions_after_solve()

◆ actions_before_adapt()

◆ actions_before_solve()

◆ assign_velocities()

◆ doc_solution()

◆ get_vels()

◆ header()

◆ mesh_pt()

◆ my_output()

◆ pin_boundaries()

◆ pin_velocities()

Member Data Documentation

◆ eigenfunction