SpinUp problem in a sphere. More...

Inheritance diagram for SphericalSpinUpProblem< ELEMENT >:

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

	~SphericalSpinUpProblem ()
	Destructor to clean up memory. More...

void	fix_pressure (const unsigned &e, const unsigned &pdof, const double &pvalue)
	Fix pressure in element e at pressure dof pdof and set to pvalue. 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	actions_before_implicit_timestep ()

SimpleRectangularQuadMesh< ELEMENT > *	mesh_pt ()

void	doc_solution (DocInfo &doc_info, std::ofstream &)
	Doc the solution. More...

void	timestep (const double &dt, const unsigned &nstep, const string &output_dir)
	Perform a timestepping study. More...

	SphericalSpinUpProblem ()
	Constructor. More...

	~SphericalSpinUpProblem ()
	Destructor to clean up memory. More...

void	fix_pressure (const unsigned &e, const unsigned &pdof, const double &pvalue)
	Fix pressure in element e at pressure dof pdof and set to pvalue. More...

void	set_boundary_conditions ()
	Set the boundary conditions. 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	actions_before_implicit_timestep ()

void	actions_after_adapt ()

RefineableQuarterCircleSectorMesh< ELEMENT > *	mesh_pt ()

void	doc_solution (DocInfo &doc_info, std::ofstream &)
	Doc the solution. More...

void	timestep (const double &dt, const unsigned &nstep, const string &output_dir)
	Perform a timestepping study. More...

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

void	set_analytic_dparameter (double *const &parameter_pt)

void	unset_analytic_dparameter (double *const &parameter_pt)

bool	is_dparameter_calculated_analytically (double *const &parameter_pt)

void	set_analytic_hessian_products ()

void	unset_analytic_hessian_products ()

bool	are_hessian_products_calculated_analytically ()

void	set_pinned_values_to_zero ()

bool	distributed () const

virtual void	actions_before_adapt ()

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

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

	Problem ()

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

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

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

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

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

Mesh *&	mesh_pt (const unsigned &imesh)

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

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

unsigned	add_sub_mesh (Mesh *const &mesh_pt)

void	flush_sub_meshes ()

void	build_global_mesh ()

void	rebuild_global_mesh ()

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

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

LinearSolver *&	mass_matrix_solver_for_explicit_timestepper_pt ()

LinearSolver *	mass_matrix_solver_for_explicit_timestepper_pt () const

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

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

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

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

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

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

TimeStepper *&	time_stepper_pt ()

const TimeStepper *	time_stepper_pt () const

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

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

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

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

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

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

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

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

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

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

double &	max_residuals ()

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

double &	newton_solver_tolerance ()

void	add_time_stepper_pt (TimeStepper *const &time_stepper_pt)

void	set_explicit_time_stepper_pt (ExplicitTimeStepper *const &explicit_time_stepper_pt)

void	initialise_dt (const double &dt)

void	initialise_dt (const Vector< double > &dt)

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

void	add_global_data (Data *const &global_data_pt)

void	flush_global_data ()

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

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

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

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

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

void	enable_store_local_dof_pt_in_elements ()

void	disable_store_local_dof_pt_in_elements ()

unsigned long	assign_eqn_numbers (const bool &assign_local_eqn_numbers=true)

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

void	enable_discontinuous_formulation ()

void	disable_discontinuous_formulation ()

void	get_dofs (DoubleVector &dofs) const

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

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

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

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

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

double *	global_dof_pt (const unsigned &i)

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

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

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

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

virtual void	get_inverse_mass_matrix_times_residuals (DoubleVector &Mres)

virtual void	get_dvaluesdt (DoubleVector &f)

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

void	enable_jacobian_reuse ()

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

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

bool &	use_predictor_values_as_initial_guess ()

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

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

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

void	newton_solve (unsigned const &max_adapt)

void	steady_newton_solve (unsigned const &max_adapt=0)

void	copy (Problem *orig_problem_pt)

virtual Problem *	make_copy ()

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

virtual void	read (std::ifstream &restart_file)

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

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

void	delete_all_external_storage ()

virtual void	symmetrise_eigenfunction_for_adaptive_pitchfork_tracking ()

double *	bifurcation_parameter_pt () const

void	get_bifurcation_eigenfunction (Vector< DoubleVector > &eigenfunction)

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

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

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

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

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

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

void	deactivate_bifurcation_tracking ()

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

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

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

void	reset_arc_length_parameters ()

int &	sign_of_jacobian ()

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

void	unsteady_newton_solve (const double &dt)

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

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

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

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

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

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

void	assign_initial_values_impulsive ()

void	assign_initial_values_impulsive (const double &dt)

void	calculate_predictions ()
	Calculate predictions. More...

void	enable_mass_matrix_reuse ()

void	disable_mass_matrix_reuse ()

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

void	refine_uniformly (const Vector< unsigned > &nrefine_for_mesh)

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

void	refine_uniformly_and_prune (const Vector< unsigned > &nrefine_for_mesh)

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

void	refine_uniformly (DocInfo &doc_info)

void	refine_uniformly_and_prune (DocInfo &doc_info)

void	refine_uniformly ()

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

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

void	p_refine_uniformly (const Vector< unsigned > &nrefine_for_mesh)

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

void	p_refine_uniformly_and_prune (const Vector< unsigned > &nrefine_for_mesh)

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

void	p_refine_uniformly (DocInfo &doc_info)

void	p_refine_uniformly_and_prune (DocInfo &doc_info)

void	p_refine_uniformly ()

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

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

void	refine_selected_elements (const Vector< unsigned > &elements_to_be_refined)

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

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

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

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

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

void	p_refine_selected_elements (const Vector< unsigned > &elements_to_be_refined)

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

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

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

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

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

unsigned	unrefine_uniformly ()

unsigned	unrefine_uniformly (const unsigned &i_mesh)

void	p_unrefine_uniformly (DocInfo &doc_info)

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

void	adapt (unsigned &n_refined, unsigned &n_unrefined)

void	adapt ()

void	p_adapt (unsigned &n_refined, unsigned &n_unrefined)

void	p_adapt ()

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

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

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

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

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

void	enable_info_in_newton_solve ()

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

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

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

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

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

virtual void	actions_before_explicit_stage ()

virtual void	actions_after_explicit_stage ()

Private Attributes
Ellipse *	Curved_boundary_pt
	Geometric object that defines the boundary of the domain. 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_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 SphericalSpinUpProblem< ELEMENT >

SpinUp problem in a sphere.

Spin-up problem in a sphere.

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

Constructor & Destructor Documentation

◆ SphericalSpinUpProblem() [1/2]

template<class ELEMENT >

SphericalSpinUpProblem< ELEMENT >::SphericalSpinUpProblem

Constructor.

Constructor for SphericalSpinUp problem.

Build the geometric object that describes the outer wall

 { 
  // Allocate the timestepper -- this constructs the Problem's 
  // time object with a sufficient amount of storage to store the
  // previous timesteps. 
  add_time_stepper_pt(new BDF<2>);
  
  
  // Setup mesh  -don't forget to include the timestepping in the mesh build
  //------------------------------------------------------------------------
  // pi definition
  double pi = MathematicalConstants::Pi;
  
  // # of elements in r-direction
  unsigned n_x=20;
  
  // # of elements in theta-direction
  unsigned n_y=20;
  
  // Domain length in r-direction
  double l_x=1.0;
  
  // Domain length in theta-direction
  double l_y=pi;
  
  // Build and assign mesh
  Problem::mesh_pt() = 
   new SimpleRectangularQuadMesh<ELEMENT>(n_x,n_y,l_x,l_y, time_stepper_pt());
  
  //-------------------------------------------------------------------------
  // Move the nodes to an elliptical shape
  
  // Loop over all the nodes in the mesh
  unsigned n_node = mesh_pt()->nnode();
  for(unsigned n=0;n<n_node;n++)
   {
    // Eccentricity variable definition
    double L = Global_Physical_Variables::lambda;
    
    // Redefine the radial coordinate for the elliptical case
    //Get the current values
    double r = mesh_pt()->node_pt(n)->x(0);
    double theta = mesh_pt()->node_pt(n)->x(1);
    //Tell me what you are doing
    //std::cout << "I'm chaging r from " << r << " ";
    r *= sqrt(cos(theta)*cos(theta) + L*L*sin(theta)*sin(theta));
    //std::cout << " to " << r << "\n";
  
    //Now set the r-position of the node to the new position
    mesh_pt()->node_pt(n)->x(0) = r;
   }
  
  // Set the boundary conditions for this problem: All nodes are
  // free by default -- just pin the ones that have Dirichlet conditions
  // here. 
  const unsigned num_bound = mesh_pt()->nboundary();
  
  // Pin all three velocities on boundaries 1 and 3
  for(unsigned ibound=1;ibound<num_bound;ibound = ibound + 2)
   {
    const unsigned num_nod= mesh_pt()->nboundary_node(ibound);
    for (unsigned inod=0;inod<num_nod;inod++)
     {
      // Loop over values (u/v/w velocities)
      for (unsigned i=0;i<3;i++)
       {
        mesh_pt()->boundary_node_pt(ibound,inod)->pin(i); 
       }
     }
   } // end loop over boundaries 1 and 3
   
   // Now pin the theta and phi velocities on boundaries 0 and 2
  for(unsigned ibound=0;ibound<num_bound;ibound = ibound + 2)
   {
    const unsigned num_nod= mesh_pt()->nboundary_node(ibound);
    for (unsigned inod=0;inod<num_nod;inod++)
     {
      // Loop over the theta- and phi-velocities
      for (unsigned i=1; i<3; i++)
       {
        mesh_pt()->boundary_node_pt(ibound,inod)->pin(i);
       }
     }
   } // end loop over boundaries 0 and 2
  // end of set boundary conditions
   
   
   
  // Complete the build of all elements so they are fully functional
  //================================================================
  
  //Find number of elements in mesh
  const unsigned n_element = mesh_pt()->nelement();
  
  // Loop over the elements to set up element-specific 
  // things that cannot be handled by constructor
  for(unsigned e=0;e<n_element;e++)
   {
    // Upcast from GeneralisedElement to the present element
    ELEMENT* el_pt = dynamic_cast<ELEMENT*>(mesh_pt()->element_pt(e));
  
    //Set the Reynolds number
    el_pt->re_pt() = &Global_Physical_Variables::Re;
    //Set the Womersley number
    el_pt->re_st_pt() = &Global_Physical_Variables::ReSt;
    
     //Disable ALE
    el_pt->disable_ALE();
  
   } // end loop over elements
  
  // Now set the first pressure value in element 0 to 0.0
  fix_pressure(0,0,0.0);
  
  // Setup equation numbering scheme
  cout <<"Number of equations: " << assign_eqn_numbers() << std::endl; 
  
 } // end_of_constructor

References cos(), e(), i, L, Global_Physical_Variables::lambda, n, constants::pi, BiharmonicTestFunctions2::Pi, UniformPSDSelfTest::r, Global_Physical_Variables::Re, Global_Physical_Variables::ReSt, sin(), sqrt(), and BiharmonicTestFunctions2::theta.

◆ ~SphericalSpinUpProblem() [1/2]

template<class ELEMENT >

SphericalSpinUpProblem< ELEMENT >::~SphericalSpinUpProblem

Destructor to clean up memory.

Destructor for SphericalSpinUp problem.

 { 
  //Delete the allocated mesh
  delete Problem::mesh_pt();
 } // end_of_destructor

◆ SphericalSpinUpProblem() [2/2]

template<class ELEMENT >

SphericalSpinUpProblem< ELEMENT >::SphericalSpinUpProblem ( )

Constructor.

◆ ~SphericalSpinUpProblem() [2/2]

template<class ELEMENT >

SphericalSpinUpProblem< ELEMENT >::~SphericalSpinUpProblem ( )

Destructor to clean up memory.

Member Function Documentation

◆ actions_after_adapt()

template<class ELEMENT >

void SphericalSpinUpProblem< ELEMENT >::actions_after_adapt ( )

inlinevirtual

After adaptation: Pin pressure again (the previously pinned value might have disappeared) and pin redudant pressure dofs.

Reimplemented from oomph::Problem.

   {
    // Unpin all pressure dofs
    RefineableAxisymmetricNavierStokesEquations::
     unpin_all_pressure_dofs(mesh_pt()->element_pt());
    
    // Pin redudant pressure dofs
    RefineableAxisymmetricNavierStokesEquations::
     pin_redundant_nodal_pressures(mesh_pt()->element_pt());
    
    //Reset the boundary conditions
    set_boundary_conditions();
    
    // Now set the pressure in first element at 'node' 0 to 0.0
    fix_pressure(0,0,0.0);
   }

◆ actions_after_newton_solve() [1/2]

template<class ELEMENT >

void SphericalSpinUpProblem< ELEMENT >::actions_after_newton_solve ( )

inlinevirtual

Update the after solve (empty)

Reimplemented from oomph::Problem.

106 {}

◆ actions_after_newton_solve() [2/2]

template<class ELEMENT >

void SphericalSpinUpProblem< ELEMENT >::actions_after_newton_solve ( )

inlinevirtual

Update the after solve (empty)

Reimplemented from oomph::Problem.

118 {}

◆ actions_before_implicit_timestep() [1/2]

template<class ELEMENT >

void SphericalSpinUpProblem< ELEMENT >::actions_before_implicit_timestep

virtual

Update the problem specs before next timestep: Set Dirichlet boundary conditions from exact solution.

Actions before timestep: update the domain, then reset the boundary conditions for the current time.

Reimplemented from oomph::Problem.

 {
  // Get current time
  double time=time_pt()->time();
  
  
  //Setting for boundary 0 - zero theta and phi velocities
  unsigned ibound=0;
  
  // Loop over the nodes on boundary
  unsigned num_nod=mesh_pt()->nboundary_node(ibound);
  for (unsigned inod=0;inod<num_nod;inod++)
   {
    Node* nod_pt=mesh_pt()->boundary_node_pt(ibound,inod);
    nod_pt->set_value(1,0);
    nod_pt->set_value(2,0);
   }
   
   
  //Set velocity for boundary 1 - driving wall, varies with theta
  ibound=1;
  
  // Loop over the nodes on boundary
  num_nod=mesh_pt()->nboundary_node(ibound);
  for (unsigned inod=0;inod<num_nod;inod++)
   {
    Node* nod_pt=mesh_pt()->boundary_node_pt(ibound,inod);
    double u;
    
    Vector<double> x(2);
    x[0]=nod_pt->x(0);
    x[1]=nod_pt->x(1);
    // Get current values of the boundary conditions from the
    // exact solution
    nod_pt->set_value(0,0);
    nod_pt->set_value(1,0);
    Boundary_Items::boundary_velocity(time,x,u);
    nod_pt->set_value(2,u);
   }
  
  //Setting for boundary 2 - zero theta and phi velocities
  ibound=2;
  
  // Loop over the nodes on boundary
  num_nod=mesh_pt()->nboundary_node(ibound);
  for (unsigned inod=0;inod<num_nod;inod++)
   {
    Node* nod_pt=mesh_pt()->boundary_node_pt(ibound,inod);
  
    nod_pt->set_value(1,0);
    nod_pt->set_value(2,0);
   }
  
  
  //Setting for boundary 3
  ibound=3;
  
  // Loop over the nodes on boundary
  num_nod=mesh_pt()->nboundary_node(ibound);
  for (unsigned inod=0;inod<num_nod;inod++)
   {
    Node* nod_pt=mesh_pt()->boundary_node_pt(ibound,inod);
    
    nod_pt->set_value(0,0);
    nod_pt->set_value(1,0);
    nod_pt->set_value(2,0);
   }
   
   
 } // end of actions_before_implicit_timestep

References Boundary_Items::boundary_velocity(), oomph::Data::set_value(), plotDoE::x, and oomph::Node::x().

◆ actions_before_implicit_timestep() [2/2]

template<class ELEMENT >

void SphericalSpinUpProblem< ELEMENT >::actions_before_implicit_timestep ( )

inlinevirtual

Update the problem specs before next timestep: Set Dirichlet boundary conditions from exact solution.

Reimplemented from oomph::Problem.

125 {set_boundary_conditions();}

◆ actions_before_newton_solve() [1/2]

template<class ELEMENT >

void SphericalSpinUpProblem< ELEMENT >::actions_before_newton_solve ( )

inlinevirtual

Update the problem specs before solve.

Reimplemented from oomph::Problem.

109 {}

◆ actions_before_newton_solve() [2/2]

template<class ELEMENT >

void SphericalSpinUpProblem< ELEMENT >::actions_before_newton_solve ( )

inlinevirtual

Update the problem specs before solve.

Reimplemented from oomph::Problem.

121 {}

◆ doc_solution() [1/2]

template<class ELEMENT >

void SphericalSpinUpProblem< ELEMENT >::doc_solution	(	DocInfo &	doc_info,
		std::ofstream &
	)

Doc the solution.

Document the solution.

 { 
  ofstream some_file;
  char filename[100];
  
  // Number of plot points
  const unsigned npts=5;
  
  cout << std::endl;
  cout << "=================================================" << std::endl;
  cout << "Docing solution for t=" << time_pt()->time() << std::endl;
  cout << "=================================================" << std::endl;
  
  
  // Output solution 
  //-----------------
  sprintf(filename,"%s/soln%i.dat",doc_info.directory().c_str(),
          doc_info.number());
  some_file.open(filename);
  mesh_pt()->output(some_file,npts);
  
  // Print out the time details for data
  some_file << "time = " << time_pt()->time() << "\"";
  
  some_file.close();
  
 } // end_of_doc_solution

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

◆ doc_solution() [2/2]

template<class ELEMENT >

void SphericalSpinUpProblem< ELEMENT >::doc_solution	(	DocInfo &	doc_info,
		std::ofstream &
	)

Doc the solution.

◆ fix_pressure() [1/2]

template<class ELEMENT >

void SphericalSpinUpProblem< ELEMENT >::fix_pressure	(	const unsigned &	e,
		const unsigned &	pdof,
		const double &	pvalue
	)

inline

Fix pressure in element e at pressure dof pdof and set to pvalue.

   {
    //Cast to full element type and fix the pressure at that element
    dynamic_cast<ELEMENT*>(mesh_pt()->element_pt(e))->
                           fix_pressure(pdof,pvalue);
   } // end of fix_pressure

References e().

◆ fix_pressure() [2/2]

template<class ELEMENT >

void SphericalSpinUpProblem< ELEMENT >::fix_pressure	(	const unsigned &	e,
		const unsigned &	pdof,
		const double &	pvalue
	)

inline

Fix pressure in element e at pressure dof pdof and set to pvalue.

   {
    //Cast to full element type and fix the pressure at that element
    dynamic_cast<ELEMENT*>(mesh_pt()->element_pt(e))->
                           fix_pressure(pdof,pvalue);
   } // end of fix_pressure

References e().

◆ mesh_pt() [1/2]

template<class ELEMENT >

SimpleRectangularQuadMesh<ELEMENT>* SphericalSpinUpProblem< ELEMENT >::mesh_pt ( )

inline

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

◆ mesh_pt() [2/2]

template<class ELEMENT >

RefineableQuarterCircleSectorMesh<ELEMENT>* SphericalSpinUpProblem< ELEMENT >::mesh_pt ( )

inline

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

◆ set_boundary_conditions()

template<class ELEMENT >

void SphericalSpinUpProblem< ELEMENT >::set_boundary_conditions

Set the boundary conditions.

Actions before timestep: update the domain, then reset the boundary conditions for the current time.

 {
  // Get current time
  const double time=time_pt()->time();
  
  //Setting for boundary 0 - zero z velocity
  unsigned ibound=0;
  
  // Loop over the nodes on boundary
  unsigned num_nod=mesh_pt()->nboundary_node(ibound);
  for (unsigned inod=0;inod<num_nod;inod++)
   {
    Node* nod_pt=mesh_pt()->boundary_node_pt(ibound,inod);
    //Set the z value to zero
    nod_pt->set_value(1,0.0);
   }
   
   
  //Set velocity for boundary 1 - driving wall, varies with theta
  ibound=1;
  
  // Loop over the nodes on boundary
  num_nod=mesh_pt()->nboundary_node(ibound);
  for (unsigned inod=0;inod<num_nod;inod++)
   {
    Node* nod_pt=mesh_pt()->boundary_node_pt(ibound,inod);
    double u;
    
    Vector<double> x(2);
    x[0]=nod_pt->x(0);
    x[1]=nod_pt->x(1);
    // Get current values of the boundary conditions from the
    // exact solution
    nod_pt->set_value(0,0.0);
    nod_pt->set_value(1,0.0);
    Boundary_Items::boundary_velocity(time,x,u);
    nod_pt->set_value(2,u);
   }
     
     
  //Setting for boundary 2 - zero r and phi velocities
  ibound=2;
  
  // Loop over the nodes on boundary
  num_nod=mesh_pt()->nboundary_node(ibound);
  for (unsigned inod=0;inod<num_nod;inod++)
   {
    Node* nod_pt=mesh_pt()->boundary_node_pt(ibound,inod);
    
    nod_pt->set_value(0,0.0);
    nod_pt->set_value(2,0.0);
   }
     
     
 } // end of actions_before_implicit_timestep

References Boundary_Items::boundary_velocity(), oomph::Data::set_value(), plotDoE::x, and oomph::Node::x().

◆ timestep() [1/2]

template<class ELEMENT >

void SphericalSpinUpProblem< ELEMENT >::timestep	(	const double &	dt,
		const unsigned &	nstep,
		const string &	output_dir
	)

Perform a timestepping study.

Timestep the problem with a given (fixed) timestep dt for nstep steps.

 {
  // Set up doc info
  // ---------------
  
  // Label for output
  DocInfo doc_info;
  
  // Set output directory
  doc_info.set_directory(output_dir);
  
  // Step number
  doc_info.number()=0;
  
  // ---------------
  // end of Set up doc info
  
  
  // Open a trace file
  std::ofstream trace_file;
  char filename[100];   
  sprintf(filename,"%s/time_trace.dat",doc_info.directory().c_str());
  trace_file.open(filename);
  trace_file << "time " << "u " << "v " << "w "
             << std::endl;
  
  
  // Initialise timestep -- also sets the weights for all timesteppers
  // in the problem.
  this->initialise_dt(dt);
  
  // Set IC
  this->assign_initial_values_impulsive();
  
  //Output initial condition
  this->doc_solution(doc_info,trace_file);
  
  //Increment counter for solutions 
  doc_info.number()++;
  
  //Store nodes for output
  Node* nod_pt = this->mesh_pt()->finite_element_pt(205)->node_pt(0);
  Node* nod2_pt = this->mesh_pt()->finite_element_pt(210)->node_pt(0);
  Node* nod3_pt = this->mesh_pt()->finite_element_pt(215)->node_pt(0);
  
  // Timestepping loop
  for(unsigned istep=0;istep<nstep;istep++)
   {
    std::cout << " Timestep " << istep << std::endl;
    
    // Take timestep
    this->unsteady_newton_solve(dt);
    
    //Output solution
    this->doc_solution(doc_info,trace_file);
    
    //Output azimuthal velocities on the equator
    trace_file << this->time() << " " 
               << nod_pt->x(0) << " " << nod_pt->x(1)
               << " " << nod_pt->value(2) << " " 
               << nod2_pt->x(0) << " " << nod2_pt->x(1)
               << " " << nod2_pt->value(2) << " " 
               << nod3_pt->x(0) << " " << nod3_pt->x(1)
               << " " << nod3_pt->value(2) << std::endl; 
    
    
    //Increment counter for solutions 
    doc_info.number()++;
   }
  
  // Close trace file
  trace_file.close();
 }

References oomph::DocInfo::directory(), MergeRestartFiles::filename, oomph::DocInfo::number(), oomph::DocInfo::set_directory(), oomph::Node::value(), and oomph::Node::x().

◆ timestep() [2/2]

template<class ELEMENT >

void SphericalSpinUpProblem< ELEMENT >::timestep	(	const double &	dt,
		const unsigned &	nstep,
		const string &	output_dir
	)

Perform a timestepping study.

Member Data Documentation

◆ Curved_boundary_pt

template<class ELEMENT >

Ellipse* SphericalSpinUpProblem< ELEMENT >::Curved_boundary_pt

private

Geometric object that defines the boundary of the domain.

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

Public Member Functions

Private Attributes

Additional Inherited Members

Detailed Description

template<class ELEMENT> class SphericalSpinUpProblem< ELEMENT >

Constructor & Destructor Documentation

◆ SphericalSpinUpProblem() [1/2]

◆ ~SphericalSpinUpProblem() [1/2]

◆ SphericalSpinUpProblem() [2/2]

◆ ~SphericalSpinUpProblem() [2/2]

Member Function Documentation

◆ actions_after_adapt()

◆ actions_after_newton_solve() [1/2]

◆ actions_after_newton_solve() [2/2]

◆ actions_before_implicit_timestep() [1/2]

◆ actions_before_implicit_timestep() [2/2]

◆ actions_before_newton_solve() [1/2]

◆ actions_before_newton_solve() [2/2]

◆ doc_solution() [1/2]

◆ doc_solution() [2/2]

◆ fix_pressure() [1/2]

◆ fix_pressure() [2/2]

◆ mesh_pt() [1/2]

◆ mesh_pt() [2/2]

◆ set_boundary_conditions()

◆ timestep() [1/2]

◆ timestep() [2/2]

Member Data Documentation

◆ Curved_boundary_pt

template<class ELEMENT>
class SphericalSpinUpProblem< ELEMENT >