Inheritance diagram for ABCProblem< ELEMENT, TIMESTEPPERT >:

Public Member Functions
	ABCProblem ()

Problem *	make_copy ()
	Make a copy for using in bifurcation tracking. More...

void	actions_after_newton_solve ()

void	actions_before_newton_solve ()

void	actions_before_newton_convergence_check ()

void	solve ()

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 ()

virtual void	actions_after_adapt ()
	Actions that are to be performed after a mesh adaptation. More...

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 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
unsigned	count

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_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...

Constructor & Destructor Documentation

◆ ABCProblem()

template<class ELEMENT , class TIMESTEPPER >

ABCProblem< ELEMENT, TIMESTEPPER >::ABCProblem

 {
  count=0;
  //Asssign the timestepper
  add_time_stepper_pt(new TIMESTEPPER);
  
  eigen_solver_pt() = new LAPACK_QZ();
  
  //Now create the mesh
  Problem::mesh_pt() = new Mesh;
  
  //Single element
  ELEMENT* elem_pt = new ELEMENT;
  //Create the internal data
  elem_pt->construct_internal_data(this->time_stepper_pt());
  //Add the element to the mesh
  mesh_pt()->add_element_pt(elem_pt);
  
  //Assign the physical parameters
  using namespace Global_Physical_Variables;
  
  //Set the load function
  elem_pt->p_pt() = &P;
  
  elem_pt->internal_data_pt(0)->set_value(0,0.5);
  elem_pt->internal_data_pt(0)->set_value(1,0.5);
  elem_pt->internal_data_pt(0)->set_value(2,2.0);
  
  
  cout << assign_eqn_numbers() << " Equation numbers assigned" << std::endl;
 }

References oomph::Mesh::add_element_pt(), and Global_Physical_Variables::P().

Member Function Documentation

◆ actions_after_newton_solve()

template<class ELEMENT , class TIMESTEPPERT >

void ABCProblem< ELEMENT, TIMESTEPPERT >::actions_after_newton_solve ( )

inlinevirtual

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

Reimplemented from oomph::Problem.

333 {}

◆ actions_before_newton_convergence_check()

template<class ELEMENT , class TIMESTEPPERT >

void ABCProblem< ELEMENT, TIMESTEPPERT >::actions_before_newton_convergence_check ( )

inlinevirtual

Any actions that are to be performed before the residual is checked in the Newton method, e.g. update any boundary conditions that depend upon variables of the problem; update any ‘dependent’ variables; or perform an update of the nodal positions in SpineMeshes etc. CAREFUL: This step should (and if the FD-based LinearSolver FD_LU is used, must) only update values that are pinned!

Reimplemented from oomph::Problem.

335 {}

◆ actions_before_newton_solve()

template<class ELEMENT , class TIMESTEPPERT >

void ABCProblem< ELEMENT, TIMESTEPPERT >::actions_before_newton_solve ( )

inlinevirtual

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

Reimplemented from oomph::Problem.

334 {}

◆ make_copy()

template<class ELEMENT , class TIMESTEPPERT >

Problem* ABCProblem< ELEMENT, TIMESTEPPERT >::make_copy ( )

inlinevirtual

Make a copy for using in bifurcation tracking.

Reimplemented from oomph::Problem.

   {
    //Make a copy based on the current parameters
    return(new ABCProblem());
   }

◆ solve()

template<class ELEMENT , class TIMESTEPPER >

void ABCProblem< ELEMENT, TIMESTEPPER >::solve

 {
  //Assign memory for the eigenvalues and eigenvectors
  Vector<std::complex<double> > eigenvalues;
  Vector< DoubleVector > eigenvectors;
  
  Desired_newton_iterations_ds = 2;
  Desired_proportion_of_arc_length = 0.5;
  //Open an output trace file
  ofstream trace("trace.dat");
  double ds = 0.01;
  //Let's have a look at the solution
  for(unsigned i=0;i<13;i++)
   {
    //Take some arc-length steps, but ignore the return value
    /*ds = */arc_length_step_solve(&Global_Physical_Variables::P[0],ds);
  
    //Output the pressure
    trace << Global_Physical_Variables::P[0]  << " "
          << mesh_pt()->element_pt(0)->internal_data_pt(0)->value(0) 
          << " " 
          << mesh_pt()->element_pt(0)->internal_data_pt(0)->value(1) 
          << " "
          << mesh_pt()->element_pt(0)->internal_data_pt(0)->value(2) 
          << std::endl;
    
    this->solve_eigenproblem(3,eigenvalues,eigenvectors);
    
    for(unsigned e=0;e<eigenvalues.size();e++)
     {
      std::cout << eigenvalues[e] << std::endl;
     }
   }
  
  trace.close();
  
  //Now let's track the Hopf 
  activate_hopf_tracking(&Global_Physical_Variables::P[0],
                         eigenvalues[0].imag(),
                         eigenvectors[0],eigenvectors[1]);
  
  this->steady_newton_solve();
  
  std::cout << "Hopf bifurcation found at " 
            << Global_Physical_Variables::P[0]  << " "
            << dof(ndof()-1) << " "
            << mesh_pt()->element_pt(0)->internal_data_pt(0)->value(0) 
            << " " 
            << mesh_pt()->element_pt(0)->internal_data_pt(0)->value(1) 
            << " "
            << mesh_pt()->element_pt(0)->internal_data_pt(0)->value(2) 
            << std::endl;
  
  //Store the frequency
  double omega = dof(ndof()-1);
  
  //Go back to normal problem
  this->deactivate_bifurcation_tracking();
  
  //Increment the parameter a little bit
  Global_Physical_Variables::P[0] += 0.001;
  
  //Solve for the steady state
  this->steady_newton_solve();
  
  unsigned n_time_element=50;//200;
  
  //Find out how many time points we'd want
  Vector<double> time_point;
  {
   Mesh* temp_mesh_pt = 
    new OneDMesh<QSpectralElement<1,7> >(n_time_element,1.0);
   const unsigned n_node = temp_mesh_pt->nnode();
   time_point.resize(n_node);
   for(unsigned n=0;n<n_node;n++)
    {
     time_point[n] = temp_mesh_pt->node_pt(n)->x(0);
    }
  }
  
  
  //Now assume we've been where we are for all time
  double period = (8.0*atan(1.0))/omega;
  double dt = 0.05*period;
  assign_initial_values_impulsive(dt);
  
  //Add a tiny kick
  double u = mesh_pt()->element_pt(0)->internal_data_pt(0)->value(0);
  mesh_pt()->element_pt(0)->internal_data_pt(0)->set_value(0,u*1.01);
  
  
  trace.open("time_trace.dat");
  //Output the details
  trace << time() << " "
        << mesh_pt()->element_pt(0)->internal_data_pt(0)->value(0) 
        << " " 
        << mesh_pt()->element_pt(0)->internal_data_pt(0)->value(1) 
        << " "
        << mesh_pt()->element_pt(0)->internal_data_pt(0)->value(2) 
        << std::endl;
  
  
  //Integrate over 10 putative periods and then start storing stuff
  
  //Let's have a look at the solution
  for(unsigned i=0;i<200;i++)
   {
    unsteady_newton_solve(dt);
  
    //Output the pressure
    trace << time() << " "
          << mesh_pt()->element_pt(0)->internal_data_pt(0)->value(0) 
          << " " 
          << mesh_pt()->element_pt(0)->internal_data_pt(0)->value(1) 
          << " "
          << mesh_pt()->element_pt(0)->internal_data_pt(0)->value(2) 
          << std::endl;
   }
  
  trace.close();
  
  //OK let's do this
  const unsigned n_time = time_point.size();
  const unsigned n_dof = this->ndof();
  DenseMatrix<double> initial_guess(n_time,n_dof);
  for(unsigned n=0;n<n_dof;n++)
   {
    initial_guess(0,n) = this->dof(n);
   }
  
  
  //Take a timestep
  //period = 8.4;
  for(unsigned t=1;t<n_time;t++)
   {
    dt = period*(time_point[t] - time_point[t-1]);
    unsteady_newton_solve(dt);
    for(unsigned n=0;n<n_dof;n++)
     {
      initial_guess(t,n) = this->dof(n);
     }
   }
  
  //Have now setup the initial guess time to try the timestepping again
  
  //Pepare a periodic orbit handler
  assembly_handler_pt() = new PeriodicOrbitAssemblyHandler<7>(this,
                                                              n_time_element,
                                                              initial_guess,
                                                              8.0*atan(1.0)/
                                                              period);
  
  //Now let's setup the initial values
  this->newton_solve();
  
  Max_newton_iterations = 100;
  
  std::cout << "Orbit found with period " << 1.0/
   this->dof(this->ndof()-1) << "\n";
  
  //Output
  std::ofstream junk("first_orbit.dat");
  dynamic_cast<PeriodicOrbitAssemblyHandler<7>*>(assembly_handler_pt())
   ->orbit_output(junk,5);
  junk.close();
  
  dynamic_cast<PeriodicOrbitAssemblyHandler<7>*>(
   assembly_handler_pt())->set_previous_dofs_to_current_dofs();
  
  std::ofstream orbit_trace("orbit_trace.dat");
  
  Max_newton_iterations = 10;  
  
  Desired_proportion_of_arc_length = 0.01;
  //Now we can continue the orbit!
  char filename[100];
  ds = 0.0005;
  unsigned count=0;
  for(unsigned i=0;i<2;i++)
   {
    ++count;
    std::cout << "Taking ds " << ds << "\n";
    ds = this->arc_length_step_solve(&Global_Physical_Variables::P[0],ds);
  
    dynamic_cast<PeriodicOrbitAssemblyHandler<7>*>(
     assembly_handler_pt())->set_previous_dofs_to_current_dofs();
    sprintf(filename,"orbit%g_%g.dat",Global_Physical_Variables::P[0],
            1.0/this->dof(this->ndof()-1));
    std::ofstream crap(filename);
    dynamic_cast<PeriodicOrbitAssemblyHandler<7>*>(assembly_handler_pt())
     ->orbit_output(crap,5);
    crap.close();
    orbit_trace << Global_Physical_Variables::P[0] << " "
                << this->dof(this->ndof()-1) << " " 
                << this->mesh_pt()->element_pt(0)->internal_data_pt(0)->value(10,0) << " "
                << this->mesh_pt()->element_pt(0)->internal_data_pt(0)->value(10,1) << " "
                << this->mesh_pt()->element_pt(0)->internal_data_pt(0)->value(10,2) << std::endl;
   }
  
  orbit_trace.close();
 }

References Eigen::bfloat16_impl::atan(), e(), MergeRestartFiles::filename, i, imag(), oomph::Locate_zeta_helpers::Max_newton_iterations, n, oomph::Mesh::nnode(), oomph::Mesh::node_pt(), Eigen::internal::omega(), Global_Physical_Variables::P, plotPSD::t, and oomph::Node::x().

Member Data Documentation

◆ count

template<class ELEMENT , class TIMESTEPPERT >

unsigned ABCProblem< ELEMENT, TIMESTEPPERT >::count

private

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

periodic_orbit.cc

Public Member Functions

Private Attributes

Additional Inherited Members

Constructor & Destructor Documentation

◆ ABCProblem()

Member Function Documentation

◆ actions_after_newton_solve()

◆ actions_before_newton_convergence_check()

◆ actions_before_newton_solve()

◆ make_copy()

◆ solve()

Member Data Documentation

◆ count