oomph::TwoLayerPerturbedSpineMesh< ELEMENT > Class Template Reference

#include <two_layer_perturbed_spine_mesh.template.h>

Inheritance diagram for oomph::TwoLayerPerturbedSpineMesh< ELEMENT >:

Public Member Functions
	TwoLayerPerturbedSpineMesh (const unsigned &nx, const unsigned &ny1, const unsigned &ny2, const double &lx, const double &h1, const double &h2, SpineMesh *&base_mesh_pt, TimeStepper *time_stepper_pt=&Mesh::Default_TimeStepper)
	TwoLayerPerturbedSpineMesh (const unsigned &nx, const unsigned &ny1, const unsigned &ny2, const double &lx, const double &h1, const double &h2, const bool &periodic_in_x, SpineMesh *&base_mesh_pt, TimeStepper *time_stepper_pt=&Mesh::Default_TimeStepper)
	TwoLayerPerturbedSpineMesh (const unsigned &nx, const unsigned &ny1, const unsigned &ny2, const double &lx, const double &h1, const double &h2, const bool &periodic_in_x, const bool &build_mesh, SpineMesh *&base_mesh_pt, TimeStepper *time_stepper_pt=&Mesh::Default_TimeStepper)
void	element_reorder ()
FiniteElement *&	upper_layer_element_pt (const unsigned long &i)
	Access functions for pointers to elements in upper layer. More...
FiniteElement *&	lower_layer_element_pt (const unsigned long &i)
	Access functions for pointers to elements in lower layer. More...
unsigned long	nupper () const
	Number of elements in upper layer. More...
unsigned long	nlower () const
	Number of elements in top layer. More...
void	perturbed_spine_node_update (PerturbedSpineNode *spine_node_pt)
const unsigned &	ny1 () const
	Access function for number of elements in lower layer. More...
const unsigned &	ny2 () const
	Access function for number of elements in upper layer. More...
const void	set_perturbation_to_nodal_positions_indices (const unsigned &cosine_index, const unsigned &sine_index)
Public Member Functions inherited from oomph::RectangularQuadMesh< ELEMENT >
	RectangularQuadMesh (const unsigned &nx, const unsigned &ny, const double &lx, const double &ly, TimeStepper *time_stepper_pt=&Mesh::Default_TimeStepper)
	RectangularQuadMesh (const unsigned &nx, const unsigned &ny, const double &xmin, const double &xmax, const double &ymin, const double &ymax, TimeStepper *time_stepper_pt=&Mesh::Default_TimeStepper)
	RectangularQuadMesh (const unsigned &nx, const unsigned &ny, const double &lx, const double &ly, const bool &periodic_in_x, TimeStepper *time_stepper_pt=&Mesh::Default_TimeStepper)
	RectangularQuadMesh (const unsigned &nx, const unsigned &ny, const double &xmin, const double &xmax, const double &ymin, const double &ymax, const bool &periodic_in_x, TimeStepper *time_stepper_pt=&Mesh::Default_TimeStepper)
const unsigned &	nx () const
	Return number of elements in x direction. More...
const unsigned &	ny () const
	Return number of elements in y direction. More...
const double	x_min () const
	Return the minimum value of x coordinate. More...
const double	x_max () const
	Return the maximum value of x coordinate. More...
const double	y_min () const
	Return the minimum value of y coordinate. More...
const double	y_max () const
	Return the maximum value of y coordinate. More...
Public Member Functions inherited from oomph::QuadMeshBase
	QuadMeshBase ()
	Constructor (empty) More...
	QuadMeshBase (const QuadMeshBase &node)=delete
	Broken copy constructor. More...
void	operator= (const QuadMeshBase &)=delete
	Broken assignment operator. More...
virtual	~QuadMeshBase ()
	Destructor (empty) More...
void	setup_boundary_element_info ()
void	setup_boundary_element_info (std::ostream &outfile)
Public Member Functions inherited from oomph::Mesh
	Mesh ()
	Default constructor. More...
	Mesh (const Vector< Mesh * > &sub_mesh_pt)
void	merge_meshes (const Vector< Mesh * > &sub_mesh_pt)
virtual void	reset_boundary_element_info (Vector< unsigned > &ntmp_boundary_elements, Vector< Vector< unsigned >> &ntmp_boundary_elements_in_region, Vector< FiniteElement * > &deleted_elements)
	Virtual function to perform the reset boundary elements info rutines. More...
template<class BULK_ELEMENT >
void	doc_boundary_coordinates (const unsigned &b, std::ofstream &the_file)
virtual void	scale_mesh (const double &factor)
	Mesh (const Mesh &dummy)=delete
	Broken copy constructor. More...
void	operator= (const Mesh &)=delete
	Broken assignment operator. More...
virtual	~Mesh ()
	Virtual Destructor to clean up all memory. More...
void	flush_element_and_node_storage ()
void	flush_element_storage ()
void	flush_node_storage ()
Node *&	node_pt (const unsigned long &n)
	Return pointer to global node n. More...
Node *	node_pt (const unsigned long &n) const
	Return pointer to global node n (const version) More...
GeneralisedElement *&	element_pt (const unsigned long &e)
	Return pointer to element e. More...
GeneralisedElement *	element_pt (const unsigned long &e) const
	Return pointer to element e (const version) More...
const Vector< GeneralisedElement * > &	element_pt () const
	Return reference to the Vector of elements. More...
Vector< GeneralisedElement * > &	element_pt ()
	Return reference to the Vector of elements. More...
FiniteElement *	finite_element_pt (const unsigned &e) const
Node *&	boundary_node_pt (const unsigned &b, const unsigned &n)
	Return pointer to node n on boundary b. More...
Node *	boundary_node_pt (const unsigned &b, const unsigned &n) const
	Return pointer to node n on boundary b. More...
void	set_nboundary (const unsigned &nbound)
	Set the number of boundaries in the mesh. More...
void	remove_boundary_nodes ()
	Clear all pointers to boundary nodes. More...
void	remove_boundary_nodes (const unsigned &b)
void	remove_boundary_node (const unsigned &b, Node *const &node_pt)
	Remove a node from the boundary b. More...
void	add_boundary_node (const unsigned &b, Node *const &node_pt)
	Add a (pointer to) a node to the b-th boundary. More...
void	copy_boundary_node_data_from_nodes ()
bool	boundary_coordinate_exists (const unsigned &i) const
	Indicate whether the i-th boundary has an intrinsic coordinate. More...
unsigned long	nelement () const
	Return number of elements in the mesh. More...
unsigned long	nnode () const
	Return number of nodes in the mesh. More...
unsigned	ndof_types () const
	Return number of dof types in mesh. More...
unsigned	elemental_dimension () const
	Return number of elemental dimension in mesh. More...
unsigned	nodal_dimension () const
	Return number of nodal dimension in mesh. More...
void	add_node_pt (Node *const &node_pt)
	Add a (pointer to a) node to the mesh. More...
void	add_element_pt (GeneralisedElement *const &element_pt)
	Add a (pointer to) an element to the mesh. More...
virtual void	reorder_nodes (const bool &use_old_ordering=true)
virtual void	get_node_reordering (Vector< Node * > &reordering, const bool &use_old_ordering=true) const
template<class BULK_ELEMENT , template< class > class FACE_ELEMENT>
void	build_face_mesh (const unsigned &b, Mesh *const &face_mesh_pt)
unsigned	self_test ()
	Self-test: Check elements and nodes. Return 0 for OK. More...
void	max_and_min_element_size (double &max_size, double &min_size)
double	total_size ()
void	check_inverted_elements (bool &mesh_has_inverted_elements, std::ofstream &inverted_element_file)
void	check_inverted_elements (bool &mesh_has_inverted_elements)
unsigned	check_for_repeated_nodes (const double &epsilon=1.0e-12)
Vector< Node * >	prune_dead_nodes ()
unsigned	nboundary () const
	Return number of boundaries. More...
unsigned long	nboundary_node (const unsigned &ibound) const
	Return number of nodes on a particular boundary. More...
FiniteElement *	boundary_element_pt (const unsigned &b, const unsigned &e) const
	Return pointer to e-th finite element on boundary b. More...
Node *	get_some_non_boundary_node () const
unsigned	nboundary_element (const unsigned &b) const
	Return number of finite elements that are adjacent to boundary b. More...
int	face_index_at_boundary (const unsigned &b, const unsigned &e) const
void	dump (const std::string &dump_file_name, const bool &use_old_ordering=true) const
	Dump the data in the mesh into a file for restart. More...
void	output_paraview (std::ofstream &file_out, const unsigned &nplot) const
void	output_fct_paraview (std::ofstream &file_out, const unsigned &nplot, FiniteElement::SteadyExactSolutionFctPt exact_soln_pt) const
void	output_fct_paraview (std::ofstream &file_out, const unsigned &nplot, const double &time, FiniteElement::UnsteadyExactSolutionFctPt exact_soln_pt) const
void	output (std::ostream &outfile)
	Output for all elements. More...
void	output (std::ostream &outfile, const unsigned &n_plot)
	Output at f(n_plot) points in each element. More...
void	output (FILE *file_pt)
	Output for all elements (C-style output) More...
void	output (FILE *file_pt, const unsigned &nplot)
	Output at f(n_plot) points in each element (C-style output) More...
void	output (const std::string &output_filename)
	Output for all elements. More...
void	output (const std::string &output_filename, const unsigned &n_plot)
	Output at f(n_plot) points in each element. More...
void	output_fct (std::ostream &outfile, const unsigned &n_plot, FiniteElement::SteadyExactSolutionFctPt)
	Output a given Vector function at f(n_plot) points in each element. More...
void	output_fct (std::ostream &outfile, const unsigned &n_plot, const double &time, FiniteElement::UnsteadyExactSolutionFctPt)
void	output_boundaries (std::ostream &outfile)
	Output the nodes on the boundaries (into separate tecplot zones) More...
void	output_boundaries (const std::string &output_filename)
void	assign_initial_values_impulsive ()
	Assign initial values for an impulsive start. More...
void	shift_time_values ()
void	calculate_predictions ()
void	set_nodal_and_elemental_time_stepper (TimeStepper *const &time_stepper_pt, const bool &preserve_existing_data)
virtual void	set_mesh_level_time_stepper (TimeStepper *const &time_stepper_pt, const bool &preserve_existing_data)
void	set_consistent_pinned_values_for_continuation (ContinuationStorageScheme *const &continuation_stepper_pt)
	Set consistent values for pinned data in continuation. More...
bool	does_pointer_correspond_to_mesh_data (double *const &parameter_pt)
	Does the double pointer correspond to any mesh data. More...
void	set_nodal_time_stepper (TimeStepper *const &time_stepper_pt, const bool &preserve_existing_data)
	Set the timestepper associated with the nodal data in the mesh. More...
void	set_elemental_internal_time_stepper (TimeStepper *const &time_stepper_pt, const bool &preserve_existing_data)
virtual void	compute_norm (double &norm)
virtual void	compute_norm (Vector< double > &norm)
virtual void	compute_error (std::ostream &outfile, FiniteElement::UnsteadyExactSolutionFctPt exact_soln_pt, const double &time, double &error, double &norm)
virtual void	compute_error (std::ostream &outfile, FiniteElement::SteadyExactSolutionFctPt exact_soln_pt, double &error, double &norm)
virtual void	compute_error (FiniteElement::SteadyExactSolutionFctPt exact_soln_pt, double &error, double &norm)
virtual void	compute_error (FiniteElement::SteadyExactSolutionFctPt exact_soln_pt, Vector< double > &error, Vector< double > &norm)
virtual void	compute_error (std::ostream &outfile, FiniteElement::UnsteadyExactSolutionFctPt exact_soln_pt, const double &time, Vector< double > &error, Vector< double > &norm)
virtual void	compute_error (std::ostream &outfile, FiniteElement::SteadyExactSolutionFctPt exact_soln_pt, Vector< double > &error, Vector< double > &norm)
virtual void	compute_error (FiniteElement::UnsteadyExactSolutionFctPt exact_soln_pt, const double &time, double &error, double &norm)
	Returns the norm of the error and that of the exact solution. More...
virtual void	compute_error (FiniteElement::UnsteadyExactSolutionFctPt exact_soln_pt, const double &time, Vector< double > &error, Vector< double > &norm)
bool	is_mesh_distributed () const
	Boolean to indicate if Mesh has been distributed. More...
OomphCommunicator *	communicator_pt () const
void	delete_all_external_storage ()
	Wipe the storage for all externally-based elements. More...
Public Member Functions inherited from oomph::PerturbedSpineMesh
virtual	~PerturbedSpineMesh ()
	Destructor to clean up the memory allocated to the perturbed spines. More...
PerturbedSpine *const &	perturbed_spine_pt (const unsigned long &i) const
	Return the i-th perturbed spine in the mesh. More...
unsigned long	nspine () const
	Return the number of perturbed spines in the mesh. More...
void	add_perturbed_spine_pt (PerturbedSpine *const &spine_pt)
	Add a perturbed spine to the mesh. More...
PerturbedSpineNode *	node_pt (const unsigned long &n)
	Return a pointer to the n-th global PerturbedSpineNode. More...
PerturbedSpineNode *	element_node_pt (const unsigned long &e, const unsigned &n)
unsigned long	assign_global_eqn_numbers (Vector< double * > &Dof_pt)
	Assign equation numbers for perturbed spines. More...
void	node_update (const bool &update_all_solid_nodes=false)
void	dump (std::ofstream &dump_file, const bool &use_old_ordering=true) const
	Overload the dump function so that the spine data is dumped. More...
void	read (std::ifstream &restart_file)
	Overload the read function so that the spine data is also read. More...

Protected Member Functions
double	x_spacing_function (unsigned xelement, unsigned xnode, unsigned yelement, unsigned ynode)
double	y_spacing_function (unsigned xelement, unsigned xnode, unsigned yelement, unsigned ynode)
void	spine_node_update_lower (PerturbedSpineNode *spine_node_pt)
	Update function for the lower part of the domain. More...
void	spine_node_update_upper (PerturbedSpineNode *spine_node_pt)
	Update function for the upper part of the domain. More...
virtual void	build_two_layer_mesh (TimeStepper *time_stepper_pt)
Protected Member Functions inherited from oomph::RectangularQuadMesh< ELEMENT >
void	build_mesh (TimeStepper *time_stepper_pt=&Mesh::Default_TimeStepper)
	Generic mesh construction function: contains all the hard work. More...
	RectangularQuadMesh (const unsigned &nx, const unsigned &ny, const double &xmin, const double &xmax, const double &ymin, const double &ymax, const bool &periodic_in_x, const bool &build, TimeStepper *time_stepper_pt=&Mesh::Default_TimeStepper)
Protected Member Functions inherited from oomph::Mesh
unsigned long	assign_global_eqn_numbers (Vector< double * > &Dof_pt)
	Assign (global) equation numbers to the nodes. More...
void	describe_dofs (std::ostream &out, const std::string &current_string) const
void	describe_local_dofs (std::ostream &out, const std::string &current_string) const
void	assign_local_eqn_numbers (const bool &store_local_dof_pt)
	Assign local equation numbers in all elements. More...
void	convert_to_boundary_node (Node *&node_pt, const Vector< FiniteElement * > &finite_element_pt)
void	convert_to_boundary_node (Node *&node_pt)

Protected Attributes
unsigned	Ny1
	Number of elements in lower layer. More...
unsigned	Ny2
	Number of elements in upper layer. More...
double	H1
	Height of the lower layer. More...
double	H2
	Height of the upper layer. More...
SpineMesh *	Base_mesh_pt
	Pointer to corresponding mesh of base state problem. More...
int	YC_index
int	YS_index
Vector< FiniteElement * >	Lower_layer_element_pt
	Vector of pointers to element in the lower layer. More...
Vector< FiniteElement * >	Upper_layer_element_pt
	Vector of pointers to element in the upper layer. More...
Protected Attributes inherited from oomph::RectangularQuadMesh< ELEMENT >
unsigned	Nx
	Nx: number of elements in x-direction. More...
unsigned	Ny
	Ny: number of elements in y-direction. More...
unsigned	Np
	Np: number of (linear) points in the element. More...
double	Xmin
	Minimum value of x coordinate. More...
double	Xmax
	Maximum value of x coordinate. More...
double	Ymin
	Minimum value of y coordinate. More...
double	Ymax
	Maximum value of y coordinate. More...
bool	Xperiodic
Protected Attributes inherited from oomph::Mesh
Vector< Vector< Node * > >	Boundary_node_pt
bool	Lookup_for_elements_next_boundary_is_setup
Vector< Vector< FiniteElement * > >	Boundary_element_pt
Vector< Vector< int > >	Face_index_at_boundary
Vector< Node * >	Node_pt
	Vector of pointers to nodes. More...
Vector< GeneralisedElement * >	Element_pt
	Vector of pointers to generalised elements. More...
std::vector< bool >	Boundary_coordinate_exists
Protected Attributes inherited from oomph::PerturbedSpineMesh
Vector< PerturbedSpine * >	PerturbedSpine_pt
	A PerturbedSpine mesh contains a Vector of pointers to perturbed spines. More...

Static Private Attributes
static int	Perturbation_to_nodal_position_indices_not_set_up

Additional Inherited Members
Public Types inherited from oomph::Mesh
typedef void(FiniteElement::*	SteadyExactSolutionFctPt) (const Vector< double > &x, Vector< double > &soln)
typedef void(FiniteElement::*	UnsteadyExactSolutionFctPt) (const double &time, const Vector< double > &x, Vector< double > &soln)
Static Public Attributes inherited from oomph::Mesh
static Steady< 0 >	Default_TimeStepper
	The Steady Timestepper. More...
static bool	Suppress_warning_about_empty_mesh_level_time_stepper_function
	Static boolean flag to control warning about mesh level timesteppers. More...

Detailed Description

template<class ELEMENT>
class oomph::TwoLayerPerturbedSpineMesh< ELEMENT >

Two-layer spine mesh class derived from standard 2D mesh. The mesh contains two layers of spinified fluid elements (of type ELEMENT; e.g PerturbedSpineElement<QCrouzeixRaviartElement<2>) and an intermediate interface layer of corresponding PerturbedSpine interface elements, of type INTERFACE_ELEMENT, e.g. PerturbedSpineLineFluidInterfaceElement<ELEMENT> for 2D planar problems.

Constructor & Destructor Documentation

TwoLayerPerturbedSpineMesh() [1/3]

template<class ELEMENT >

oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::TwoLayerPerturbedSpineMesh	(	const unsigned &	nx,
		const unsigned &	ny1,
		const unsigned &	ny2,
		const double &	lx,
		const double &	h1,
		const double &	h2,
		SpineMesh *&	base_mesh_pt,
		TimeStepper *	time_stepper_pt = &Mesh::Default_TimeStepper
	)

Constructor: Pass in:

• number of elements in x-direction
• number of elements in y-direction in bottom layer
• number of elements in y-direction in top layer
• axial length
• height of bottom layer
• height of top layer
• pointer to the base mesh (where we compute the base flow)
• pointer to timestepper (defaults to Steady timestepper)

Constructor for 2D perturbed spine mesh: Pass in:

• number of elements in x-direction
• number of elements in y-direction in bottom layer
• number of elements in y-direction in top layer
• axial length
• height of bottom layer
• height of top layer
• pointer to the base mesh (where we compute the base flow)
• pointer to timestepper (defaults to Steady timestepper)

The mesh contains two layers of elements (of type ELEMENT; e.g PerturbedSpineElement<QCrouzeixRaviartElement<2>) and an interfacial layer of corresponding PerturbedSpine interface elements of type INTERFACE_ELEMENT, e.g. PerturbedSpineLineFluidInterfaceElement<ELEMENT> for 2D planar problems.

We set YC_index and YS_index, which store the indices at which the cosine and sine parts (respectively) of the perturbation to the nodal y-position are stored in the bulk element, to a "magic" number which indicates that the indices have not been set up yet.

                                                          :
  RectangularQuadMesh<ELEMENT>(nx,ny1+ny2,0.0,lx,0.0,h1+h2,false,false,
                               time_stepper_pt),
  Base_mesh_pt(base_mesh_pt),
  YC_index(Perturbation_to_nodal_position_indices_not_set_up),
  YS_index(Perturbation_to_nodal_position_indices_not_set_up)
 {
  // We've called the "generic" constructor for the RectangularQuadMesh
  // which doesn't do much...
  // Now set up the parameters that characterise the mesh geometry
  // then call the build function
  
  // Number of elements in bottom and top layers
  Ny1 = ny1;
  Ny2 = ny2; 
  
  // Set height of upper and lower layers
  H1 = h1;
  H2 = h2;
  
  // Now build the mesh: 
  build_two_layer_mesh(time_stepper_pt);
  
 }

TwoLayerPerturbedSpineMesh() [2/3]

template<class ELEMENT >

oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::TwoLayerPerturbedSpineMesh	(	const unsigned &	nx,
		const unsigned &	ny1,
		const unsigned &	ny2,
		const double &	lx,
		const double &	h1,
		const double &	h2,
		const bool &	periodic_in_x,
		SpineMesh *&	base_mesh_pt,
		TimeStepper *	time_stepper_pt = &Mesh::Default_TimeStepper
	)

Constructor: Pass in:

• number of elements in x-direction
• number of elements in y-direction in bottom layer
• number of elements in y-direction in top layer
• axial length
• height of bottom layer
• height of top layer
• boolean flag to make the mesh periodic in the x-direction
• pointer to the base mesh (where we compute the base flow)
• pointer to timestepper (defaults to Steady timestepper)

Constructor for 2D perturbed spine mesh: Pass in:

• number of elements in x-direction
• number of elements in y-direction in bottom layer
• number of elements in y-direction in top layer
• axial length
• height of bottom layer
• height of top layer
• boolean flag to make the mesh periodic in the x-direction
• pointer to the base mesh (where we compute the base flow)
• pointer to timestepper (defaults to Steady timestepper)

The mesh contains two layers of elements (of type ELEMENT; e.g PerturbedSpineElement<QCrouzeixRaviartElement<2>) and an interfacial layer of corresponding PerturbedSpine interface elements of type INTERFACE_ELEMENT, e.g. PerturbedSpineLineFluidInterfaceElement<ELEMENT> for 2D planar problems.

We set YC_index and YS_index, which store the indices at which the cosine and sine parts (respectively) of the perturbation to the nodal y-position are stored in the bulk element, to a "magic" number which indicates that the indices have not been set up yet.

                                                          :
  RectangularQuadMesh<ELEMENT >(nx,ny1+ny2,0.0,lx,0.0,h1+h2,
                                periodic_in_x,false,time_stepper_pt),
  Base_mesh_pt(base_mesh_pt),
  YC_index(Perturbation_to_nodal_position_indices_not_set_up),
  YS_index(Perturbation_to_nodal_position_indices_not_set_up)
 {
  // We've called the "generic" constructor for the RectangularQuadMesh
  // which doesn't do much...
  // Now set up the parameters that characterise the mesh geometry
  // then call the constructor
  
  // Number of elements in bottom and top layers
  Ny1 = ny1;
  Ny2 = ny2; 
  
  // Set height of upper and lower layers
  H1 = h1;
  H2 = h2;
  
  // Now build the mesh: 
  build_two_layer_mesh(time_stepper_pt);
  
 }

References oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::build_two_layer_mesh(), oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::H1, oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::H2, oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::ny1(), oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::Ny1, oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::ny2(), and oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::Ny2.

TwoLayerPerturbedSpineMesh() [3/3]

template<class ELEMENT >

oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::TwoLayerPerturbedSpineMesh	(	const unsigned &	nx,
		const unsigned &	ny1,
		const unsigned &	ny2,
		const double &	lx,
		const double &	h1,
		const double &	h2,
		const bool &	periodic_in_x,
		const bool &	build_mesh,
		SpineMesh *&	base_mesh_pt,
		TimeStepper *	time_stepper_pt = &Mesh::Default_TimeStepper
	)

Constructor: Pass in:

• number of elements in x-direction
• number of elements in y-direction in bottom layer
• number of elements in y-direction in top layer
• axial length
• height of bottom layer
• height of top layer
• boolean flag to make the mesh periodic in the x-direction
• boolean flag to specify whether or not to call the "build_two_layer_mesh" function
• pointer to the base mesh (where we compute the base flow)
• pointer to timestepper (defaults to Steady timestepper)

Constructor for 2D perturbed spine mesh: Pass in:

• number of elements in x-direction
• number of elements in y-direction in bottom layer
• number of elements in y-direction in top layer
• axial length
• height of bottom layer
• height of top layer
• boolean flag to make the mesh periodic in the x-direction
• boolean flag to specify whether or not to call the "build_two_layer_mesh" function
• pointer to the base mesh (where we compute the base flow)
• pointer to timestepper (defaults to Steady timestepper)

The mesh contains two layers of elements (of type ELEMENT; e.g PerturbedSpineElement<QCrouzeixRaviartElement<2>) and an interfacial layer of corresponding PerturbedSpine interface elements of type INTERFACE_ELEMENT, e.g. PerturbedSpineLineFluidInterfaceElement<ELEMENT> for 2D planar problems.

We set YC_index and YS_index, which store the indices at which the cosine and sine parts (respectively) of the perturbation to the nodal y-position are stored in the bulk element, to a "magic" number which indicates that the indices have not been set up yet.

                                                          :
  RectangularQuadMesh<ELEMENT >(nx,ny1+ny2,0.0,lx,0.0,h1+h2,
                                periodic_in_x,false,time_stepper_pt),
  Base_mesh_pt(base_mesh_pt),
  YC_index(Perturbation_to_nodal_position_indices_not_set_up),
  YS_index(Perturbation_to_nodal_position_indices_not_set_up)
 {
  // We've called the "generic" constructor for the RectangularQuadMesh
  // which doesn't do much...
  // Now set up the parameters that characterise the mesh geometry
  // then call the constructor
  
  // Number of elements in bottom and top layers
  Ny1 = ny1;
  Ny2 = ny2; 
  
  // Set height of upper and lower layers
  H1 = h1;
  H2 = h2;
  
  // Only build the mesh here if build_mesh=true
  // This is useful when calling this constructor from a derived class
  // (such as PatrickAxisym2x6TwoLayerPerturbedSpineMesh) where the mesh
  // building needs to be called from *its* constructor and this constructor
  // is only used to pass arguments to the RectangularQuadMesh constructor.
  if(build_mesh) { build_two_layer_mesh(time_stepper_pt); }
  
}

References oomph::RectangularQuadMesh< ELEMENT >::build_mesh(), oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::build_two_layer_mesh(), oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::H1, oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::H2, oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::ny1(), oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::Ny1, oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::ny2(), and oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::Ny2.

Member Function Documentation

build_two_layer_mesh()

template<class ELEMENT >

void oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::build_two_layer_mesh ( TimeStepper *  time_stepper_pt )

protectedvirtual

Helper function to actually build the two-layer spine mesh (called from various constructors)

Helper function that actually builds the two-layer spine mesh based on the parameters set in the various constructors

 {
  
  // Build the underlying quad mesh: 
  RectangularQuadMesh<ELEMENT >::build_mesh(time_stepper_pt);
  
  // Set up the pointers to elements in the upper and lower fluid
  // ------------------------------------------------------------
 
  // Calculate numbers of nodes in upper and lower regions
  const unsigned long n_lower = this->Nx*Ny1;
  const unsigned long n_upper = this->Nx*Ny2;
 
  // Loop over lower elements and push back
  Lower_layer_element_pt.reserve(n_lower);
  for(unsigned e=0;e<n_lower;e++)
   {
    Lower_layer_element_pt.push_back(this->finite_element_pt(e));
   }
  // Loop over upper elements and push back
  Upper_layer_element_pt.reserve(n_upper);
  for(unsigned e=n_lower;e<(n_lower+n_upper);e++)
   {
    Upper_layer_element_pt.push_back(this->finite_element_pt(e));
   }
 
  // Allocate memory for the spines and fractions along spines
  // ---------------------------------------------------------
 
  // Read out number of linear points in the element
  const unsigned n_p =
   dynamic_cast<ELEMENT*>(finite_element_pt(0))->nnode_1d();
 
  // Allocate store for the spines:
  if(this->Xperiodic) { PerturbedSpine_pt.reserve((n_p-1)*this->Nx); }
  else { PerturbedSpine_pt.reserve((n_p-1)*this->Nx+1); }
 
  // FIRST SPINE
  // -----------
 
  // Element 0
  // Node 0
 
  // Create a perturbed spine and pass it a pointer to the corresponding
  // base spine
  PerturbedSpine* new_perturbed_spine_pt =
   new PerturbedSpine(time_stepper_pt,Base_mesh_pt->spine_pt(0));
  PerturbedSpine_pt.push_back(new_perturbed_spine_pt);
 
  // Get pointer to node
  PerturbedSpineNode* nod_pt = element_node_pt(0,0);
 
  // Set the pointer to the spine
  nod_pt->perturbed_spine_pt() = new_perturbed_spine_pt;
  // Set the fraction
  nod_pt->fraction() = 0.0;
  // Pointer to the mesh that implements the update fct
  nod_pt->spine_mesh_pt() = this; 
  // ID of update function within this mesh: 0 = lower; 1 = upper
  nod_pt->node_update_fct_id() = 0;
 
  // Pass the spine a pointer to this node
  new_perturbed_spine_pt->node_at_bottom_of_spine_pt() = nod_pt;
  
  // Loop vertically along the spine
  // Loop over the elements in fluid 1
  for(unsigned long i=0;i<Ny1;i++)
   {
    // Loop over the vertical nodes, apart from the first
    for(unsigned l1=1;l1<n_p;l1++)
     {
      // Get pointer to node
      PerturbedSpineNode* nod_pt=element_node_pt(i*this->Nx,l1*n_p);
      // Set the pointer to the spine
      nod_pt->perturbed_spine_pt() = new_perturbed_spine_pt;
      // Set the fraction
      nod_pt->fraction() = (nod_pt->x(1)-this->Ymin)/(H1);
      // Pointer to the mesh that implements the update fct
      nod_pt->spine_mesh_pt() = this; 
      // ID of update function within this mesh: 0 = lower; 1 = upper
      nod_pt->node_update_fct_id() = 0;
     }
   }
  
  // Loop over the elements in fluid 2
  for(unsigned long i=0;i<Ny2;i++)
   {
    // Loop over vertical nodes, apart from the first
    for(unsigned l1=1;l1<n_p;l1++)
     { 
      // Get pointer to node
      PerturbedSpineNode* nod_pt=element_node_pt((Ny1+i)*this->Nx,l1*n_p);
      
      //Set the pointer to the spine
      nod_pt->perturbed_spine_pt() = new_perturbed_spine_pt;
      //Set the fraction
      nod_pt->fraction() =(nod_pt->x(1)-(this->Ymin+H1))/(H2);
      // Pointer to the mesh that implements the update fct
      nod_pt->spine_mesh_pt() = this; 
      // ID of update function within this mesh: 0 = lower; 1 = upper
      nod_pt->node_update_fct_id() = 1;
      
      // Pass the spine a pointer to the "top" node
      if(i==(Ny2-1) && l1==(n_p-1))
       {
        new_perturbed_spine_pt->node_at_top_of_spine_pt() = nod_pt;
       }
     }
   }
  
  
  //LOOP OVER OTHER SPINES
  //----------------------
  
  //Now loop over the elements horizontally
  for(unsigned long j=0;j<this->Nx;j++)
   {
    //Loop over the nodes in the elements horizontally, ignoring 
    //the first column
    
    // Last spine needs special treatment in x-periodic meshes:
    unsigned n_pmax=n_p;
    if ((this->Xperiodic)&&(j==this->Nx-1)) n_pmax=n_p-1;
    
    for(unsigned l2=1;l2<n_pmax;l2++)
     {
      // Create a perturbed spine and pass it a pointer to the
      // corresponding base spine
      new_perturbed_spine_pt =
       new PerturbedSpine(time_stepper_pt,
                          Base_mesh_pt->spine_pt(((n_pmax-1)*j)+l2));
      PerturbedSpine_pt.push_back(new_perturbed_spine_pt);
      
      // Get pointer to node
      PerturbedSpineNode* nod_pt=element_node_pt(j,l2);
      
      //Set the pointer to the spine
      nod_pt->perturbed_spine_pt() = new_perturbed_spine_pt;
      //Set the fraction
      nod_pt->fraction() = 0.0;
      // Pointer to the mesh that implements the update fct
      nod_pt->spine_mesh_pt() = this; 
      // ID of update function within this mesh: 0 = lower; 1 = upper
      nod_pt->node_update_fct_id() = 0;
 
     // Pass the spine a pointer to this node
     new_perturbed_spine_pt->node_at_bottom_of_spine_pt() = nod_pt;
 
     //Loop vertically along the spine
     //Loop over the elements in fluid 1
     for(unsigned long i=0;i<Ny1;i++)
      {
       //Loop over the vertical nodes, apart from the first
       for(unsigned l1=1;l1<n_p;l1++)
        {
         // Get pointer to node
         PerturbedSpineNode* nod_pt=element_node_pt(i*this->Nx+j,l1*n_p+l2);
         //Set the pointer to the spine
         nod_pt->perturbed_spine_pt() = new_perturbed_spine_pt;
         //Set the fraction
         nod_pt->fraction() = (nod_pt->x(1)-this->Ymin)/H1;
         // Pointer to the mesh that implements the update fct
         nod_pt->spine_mesh_pt() = this; 
         // ID of update function within this mesh: 0 = lower; 1 = upper
         nod_pt->node_update_fct_id() = 0;
        }  
      }
 
     //Loop over the elements in fluid 2
     for(unsigned long i=0;i<Ny2;i++)
      {
       //Loop over vertical nodes, apart from the first
       for(unsigned l1=1;l1<n_p;l1++)
        {
         // Get pointer to node
         PerturbedSpineNode* nod_pt=element_node_pt((Ny1+i)*this->Nx+j,l1*n_p+l2);
 
         //Set the pointer to the spine
         nod_pt->perturbed_spine_pt() = new_perturbed_spine_pt;
         //Set the fraction
         nod_pt->fraction() = (nod_pt->x(1)-(this->Ymin+H1))/H2;
         // Pointer to the mesh that implements the update fct
         nod_pt->spine_mesh_pt() = this; 
         // ID of update function within this mesh: 0 = lower; 1 = upper
         nod_pt->node_update_fct_id() = 1;
 
         // Pass the spine a pointer to the "top" node
         if(i==(Ny2-1) && l1==(n_p-1))
          {
           new_perturbed_spine_pt->node_at_top_of_spine_pt() = nod_pt;
          }
        }
      }
    }
  }
 
 
 // Last spine needs special treatment for periodic meshes
 // because it's the same as the first one...
 if (this->Xperiodic)
  {
   // Last spine is the same as first one...
   PerturbedSpine* final_perturbed_spine_pt=PerturbedSpine_pt[0];   
 
   // Get pointer to node
   PerturbedSpineNode* nod_pt=element_node_pt((this->Nx-1),(n_p-1));
 
   //Set the pointer to the spine
   nod_pt->perturbed_spine_pt() = final_perturbed_spine_pt;
   //Set the fraction to be the same as for the nodes on the first row
   nod_pt->fraction() = element_node_pt(0,0)->fraction();
   // Pointer to the mesh that implements the update fct
   nod_pt->spine_mesh_pt() = element_node_pt(0,0)->spine_mesh_pt();
   // ID of update function within this mesh: 0 = lower; 1 = upper
   nod_pt->node_update_fct_id() = element_node_pt(0,0)->node_update_fct_id();
   
   //Now loop vertically along the spine
   for(unsigned i=0;i<(Ny1+Ny2);i++)
    {
     //Loop over the vertical nodes, apart from the first
     for(unsigned l1=1;l1<n_p;l1++)
      {
       // Get pointer to node
       PerturbedSpineNode* nod_pt = 
        element_node_pt(i*this->Nx+(this->Nx-1),l1*n_p+(n_p-1));
 
       //Set the pointer to the spine
       nod_pt->perturbed_spine_pt() = final_perturbed_spine_pt;
       //Set the fraction to be the same as in first row
       nod_pt->fraction() = element_node_pt(i*this->Nx,l1*n_p)->fraction();
       // ID of update function within this mesh: 0 = lower; 1 = upper
       nod_pt->node_update_fct_id() = 
        element_node_pt(i*this->Nx,l1*n_p)->node_update_fct_id();
       // Pointer to the mesh that implements the update fct
       nod_pt->spine_mesh_pt() = element_node_pt(i*this->Nx,l1*n_p)
        ->spine_mesh_pt();
      }
    }
  }
 
}

References oomph::RectangularQuadMesh< ELEMENT >::build_mesh(), e(), and GlobalParameters::Nx.

Referenced by oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::TwoLayerPerturbedSpineMesh().

element_reorder()

template<class ELEMENT >

void oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::element_reorder

virtual

Reorder the elements so we loop over them vertically first (advantageous in "wide" domains if a frontal solver is used).

Reorder the elements, so we loop over them vertically first (advantageous in "wide" domains if a frontal solver is used).

Reimplemented from oomph::RectangularQuadMesh< ELEMENT >.

{
 
 unsigned Nx = this->Nx;
 //Find out how many elements there are
 unsigned long Nelement = nelement();
 //Find out how many fluid elements there are
 unsigned long Nfluid = Nx*(Ny1+Ny2);
 //Create a dummy array of elements
 Vector<FiniteElement *> dummy;
 
 //Loop over the elements in horizontal order
 for(unsigned long j=0;j<Nx;j++)
  {
   //Loop over the elements in lower layer vertically
   for(unsigned long i=0;i<Ny1;i++)
    {
     //Push back onto the new stack
     dummy.push_back(finite_element_pt(Nx*i + j));
    }
 
   //Push back the line element onto the stack
   dummy.push_back(finite_element_pt(Nfluid+j));
 
   //Loop over the elements in upper layer vertically
   for(unsigned long i=Ny1;i<(Ny1+Ny2);i++)
    {
     //Push back onto the new stack
     dummy.push_back(finite_element_pt(Nx*i + j));
    }
  }
 
 //Now copy the reordered elements into the element_pt
 for(unsigned long e=0;e<Nelement;e++)
  {
   Element_pt[e] = dummy[e];
  }
 
}

References e(), i, j, and GlobalParameters::Nx.

lower_layer_element_pt()

template<class ELEMENT >

FiniteElement* & oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::lower_layer_element_pt ( const unsigned long &  i )

inline

Access functions for pointers to elements in lower layer.

  { return Lower_layer_element_pt[i]; }

References i, and oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::Lower_layer_element_pt.

Referenced by PerturbedStateProblem< BASE_ELEMENT, PERTURBED_ELEMENT >::PerturbedStateProblem().

nlower()

template<class ELEMENT >

unsigned long oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::nlower ( ) const

inline

Number of elements in top layer.

{ return Lower_layer_element_pt.size(); }

References oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::Lower_layer_element_pt.

Referenced by PerturbedStateProblem< BASE_ELEMENT, PERTURBED_ELEMENT >::PerturbedStateProblem().

nupper()

template<class ELEMENT >

unsigned long oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::nupper ( ) const

inline

Number of elements in upper layer.

{ return Upper_layer_element_pt.size(); }

References oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::Upper_layer_element_pt.

Referenced by PerturbedStateProblem< BASE_ELEMENT, PERTURBED_ELEMENT >::PerturbedStateProblem().

ny1()

template<class ELEMENT >

const unsigned& oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::ny1 ( ) const

inline

Access function for number of elements in lower layer.

{ return Ny1; }

References oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::Ny1.

Referenced by oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::TwoLayerPerturbedSpineMesh().

ny2()

template<class ELEMENT >

const unsigned& oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::ny2 ( ) const

inline

Access function for number of elements in upper layer.

{ return Ny2; }

References oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::Ny2.

Referenced by oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::TwoLayerPerturbedSpineMesh().

perturbed_spine_node_update()

template<class ELEMENT >

void oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::perturbed_spine_node_update ( PerturbedSpineNode *  spine_node_pt )

inlinevirtual

General node update function implements pure virtual function defined in PerturbedSpineMesh base class and performs specific update actions, depending on the node update fct id stored for each node. This function sets the nodal positions to be the same as in the base state problem through the perturbed spine's pointer to its corresponding base spine. Additionally this function updates the perturbations to the nodal positions, which are stored as (pinned) values at the nodes.

Implements oomph::PerturbedSpineMesh.

 {
  unsigned id=spine_node_pt->node_update_fct_id();
  switch(id)
   {
   case 0:
    spine_node_update_lower(spine_node_pt);
    break;
    
   case 1:
    spine_node_update_upper(spine_node_pt);
    break;
    
   default:
    std::ostringstream error_message;
    error_message << "Unknown id passed to perturbed_spine_node_update " << id 
                  << std::endl;
    throw OomphLibError(error_message.str(),
                        "TwoLayerPerturbedSpineMesh::perturbed_spine_node_update()",
                        OOMPH_EXCEPTION_LOCATION);
   }
 }

References oomph::PerturbedSpineNode::node_update_fct_id(), OOMPH_EXCEPTION_LOCATION, oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::spine_node_update_lower(), and oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::spine_node_update_upper().

set_perturbation_to_nodal_positions_indices()

template<class ELEMENT >

const void oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::set_perturbation_to_nodal_positions_indices ( const unsigned &  cosine_index, const unsigned &  sine_index  )

inline

Set up the internal data YC_index and YS_index, which store the indices at which the perturbations to the nodal y-position are stored in the bulk element

 {
  YC_index = cosine_index;
  YS_index = sine_index;
 }

References oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::YC_index, and oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::YS_index.

Referenced by PerturbedStateProblem< BASE_ELEMENT, PERTURBED_ELEMENT >::PerturbedStateProblem().

spine_node_update_lower()

template<class ELEMENT >

void oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::spine_node_update_lower ( PerturbedSpineNode *  spine_node_pt )

inlineprotected

Update function for the lower part of the domain.

  {
   // Get fraction along the spine
   const double w = spine_node_pt->fraction();
 
   // Get base spine height
   const double h =
    spine_node_pt->perturbed_spine_pt()->base_spine_pt()->height();
 
   // Set the nodal y-position
   spine_node_pt->x(1) = this->Ymin + w*h;
 
   // Get perturbed spine height (cosine and sine parts)
   const double HC = spine_node_pt->perturbed_spine_pt()->height(0);
   const double HS = spine_node_pt->perturbed_spine_pt()->height(1);
 
   // Set the perturbation (cosine and sine parts) to the nodal
   // y-position. Note that YC_index and YS_index are the indices at
   // which the perturbations to the nodal y-position are stored in
   // the bulk elements
   if(YC_index>=0)
    {
     spine_node_pt->set_value(YC_index,w*HC);
    }
   else
    {
     std::ostringstream error_message;
     error_message << "The cosine part of the perturbation to the nodal\n"
                   << "y-position has not been set up." << std::endl;
     throw OomphLibError(
      error_message.str(),
      "TwoLayerPerturbedSpineMesh::spine_node_update_lower(...)",
      OOMPH_EXCEPTION_LOCATION);
    }
   if(YS_index>=0)
    {
     spine_node_pt->set_value(YS_index,w*HS);
    }
   else
    {
     std::ostringstream error_message;
     error_message << "The sine part of the perturbation to the nodal\n"
                   << "y-position has not been set up." << std::endl;
     throw OomphLibError(
      error_message.str(),
      "TwoLayerPerturbedSpineMesh::spine_node_update_lower(...)",
      OOMPH_EXCEPTION_LOCATION);
    }
  }

References oomph::PerturbedSpine::base_spine_pt(), oomph::PerturbedSpineNode::fraction(), oomph::Spine::height(), oomph::PerturbedSpine::height(), OOMPH_EXCEPTION_LOCATION, oomph::PerturbedSpineNode::perturbed_spine_pt(), oomph::Data::set_value(), w, oomph::Node::x(), oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::YC_index, oomph::RectangularQuadMesh< ELEMENT >::Ymin, and oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::YS_index.

Referenced by oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::perturbed_spine_node_update().

spine_node_update_upper()

template<class ELEMENT >

void oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::spine_node_update_upper ( PerturbedSpineNode *  spine_node_pt )

inlineprotected

Update function for the upper part of the domain.

  {
   // Get fraction along the spine
   const double w = spine_node_pt->fraction();
 
   // Get base spine height
   const double h =
    spine_node_pt->perturbed_spine_pt()->base_spine_pt()->height();
 
   // Set the nodal y-position
   spine_node_pt->x(1) = (this->Ymin + h) + w*(this->Ymax - (this->Ymin+h));
 
   // Get perturbed spine height (cosine and sine parts)
   const double HC = spine_node_pt->perturbed_spine_pt()->height(0);
   const double HS = spine_node_pt->perturbed_spine_pt()->height(1);
 
   // Set the perturbation (cosine and sine parts) to the nodal
   // y-position. Note that YC_index and YS_index are the indices at
   // which the perturbations to the nodal y-position are stored in
   // the bulk elements
   if(YC_index>=0)
    {
     // To see analysis of why this is okay, see the pdf file
     // "perturbed_node_update_procedure.pdf" (emailed to myself)
     spine_node_pt->set_value(YC_index,HC*(1.0-w));
    }
   else
    {
     std::ostringstream error_message;
     error_message << "The cosine part of the perturbation to the nodal\n"
                   << "y-position has not been set up." << std::endl;
     throw OomphLibError(
      error_message.str(),
      "TwoLayerPerturbedSpineMesh::spine_node_update_upper(...)",
      OOMPH_EXCEPTION_LOCATION);
    }
   if(YS_index>=0)
    {
     // To see analysis of why this is okay, see the pdf file
     // "perturbed_node_update_procedure.pdf" (emailed to myself)
     spine_node_pt->set_value(YS_index,HS*(1.0-w));
    }
   else
    {
     std::ostringstream error_message;
     error_message << "The sine part of the perturbation to the nodal\n"
                   << "y-position has not been set up." << std::endl;
     throw OomphLibError(
      error_message.str(),
      "TwoLayerPerturbedSpineMesh::spine_node_update_upper(...)",
      OOMPH_EXCEPTION_LOCATION);
    }
  }

References oomph::PerturbedSpine::base_spine_pt(), oomph::PerturbedSpineNode::fraction(), oomph::Spine::height(), oomph::PerturbedSpine::height(), OOMPH_EXCEPTION_LOCATION, oomph::PerturbedSpineNode::perturbed_spine_pt(), oomph::Data::set_value(), w, oomph::Node::x(), oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::YC_index, oomph::RectangularQuadMesh< ELEMENT >::Ymax, oomph::RectangularQuadMesh< ELEMENT >::Ymin, and oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::YS_index.

Referenced by oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::perturbed_spine_node_update().

upper_layer_element_pt()

template<class ELEMENT >

FiniteElement* & oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::upper_layer_element_pt ( const unsigned long &  i )

inline

Access functions for pointers to elements in upper layer.

  { return Upper_layer_element_pt[i]; }

References i, and oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::Upper_layer_element_pt.

Referenced by PerturbedStateProblem< BASE_ELEMENT, PERTURBED_ELEMENT >::PerturbedStateProblem().

x_spacing_function()

template<class ELEMENT >

double oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::x_spacing_function ( unsigned  xelement, unsigned  xnode, unsigned  yelement, unsigned  ynode  )

protectedvirtual

The spacing function for the x co-ordinates with two regions.

The spacing function for the x co-ordinate, which is the same as the default function.

Reimplemented from oomph::RectangularQuadMesh< ELEMENT >.

 {
  // Calculate the values of equal increments in nodal values
  double xstep = (this->Xmax-this->Xmin)/((this->Np-1)*this->Nx);
 
  // Return the appropriate value
  return (this->Xmin + xstep*((this->Np-1)*xelement + xnode));
 }

References GlobalParameters::Nx.

y_spacing_function()

template<class ELEMENT >

double oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::y_spacing_function ( unsigned  xelement, unsigned  xnode, unsigned  yelement, unsigned  ynode  )

protectedvirtual

The spacing function for the y co-ordinates with three regions in each fluid.

The spacing function for the y co-ordinates, which splits the region into two regions (1 and 2), according to the heights H1 and H2, with Ny1 and Ny2 elements respectively.

Reimplemented from oomph::RectangularQuadMesh< ELEMENT >.

 {
  // Set up some spacing parameters
  
  // The lower region a starts at Ymin
  double Ymin = RectangularQuadMesh<ELEMENT >::Ymin;
 
  // The upper region a ends at Ymax
  double Ymax = RectangularQuadMesh<ELEMENT >::Ymax;
 
  // Number of nodes per element
  unsigned n_p = RectangularQuadMesh<ELEMENT >::Np;
 
  // The lower region starts at Ymin
  double y1init = Ymin;
 
  // The upper region starts at H1 - Ymin
  double y2init = H1 - Ymin;
 
  // Calculate the space between each node in each region, assuming
  // uniform spacing
 
  // Lower region has a length (H1-Ymin)
  double y1step = (H1-Ymin)/((n_p-1)*Ny1);
 
  // Upper region has a length (Ymax-H1)
  double y2step = (Ymax-H1)/((n_p-1)*Ny2);
  
  // Now return the actual node position (different in the two regions)
  if(yelement < Ny1) 
   {
    return (y1init + y1step*((n_p-1)*yelement + ynode));
   }
  else
   {
    return (y2init + y2step*((n_p-1)*(yelement-Ny1) + ynode));
   }
 }

Member Data Documentation

Base_mesh_pt

template<class ELEMENT >

SpineMesh* oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::Base_mesh_pt

protected

Pointer to corresponding mesh of base state problem.

H1

template<class ELEMENT >

double oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::H1

protected

Height of the lower layer.

Referenced by oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::TwoLayerPerturbedSpineMesh().

H2

template<class ELEMENT >

double oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::H2

protected

Height of the upper layer.

Referenced by oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::TwoLayerPerturbedSpineMesh().

Lower_layer_element_pt

template<class ELEMENT >

Vector<FiniteElement *> oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::Lower_layer_element_pt

protected

Vector of pointers to element in the lower layer.

Referenced by oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::lower_layer_element_pt(), and oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::nlower().

Ny1

template<class ELEMENT >

unsigned oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::Ny1

protected

Number of elements in lower layer.

Referenced by oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::ny1(), and oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::TwoLayerPerturbedSpineMesh().

Ny2

template<class ELEMENT >

unsigned oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::Ny2

protected

Number of elements in upper layer.

Referenced by oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::ny2(), and oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::TwoLayerPerturbedSpineMesh().

Perturbation_to_nodal_position_indices_not_set_up

template<class ELEMENT >

int oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::Perturbation_to_nodal_position_indices_not_set_up

staticprivate

Static "magic" number that indicates that the indices at which the perturbations to the nodal y-positions are stored have not been set up

Upper_layer_element_pt

template<class ELEMENT >

Vector<FiniteElement *> oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::Upper_layer_element_pt

protected

Vector of pointers to element in the upper layer.

Referenced by oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::nupper(), and oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::upper_layer_element_pt().

YC_index

template<class ELEMENT >

int oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::YC_index

protected

Index at which the cosine part of the perturbation to the nodal y-position is stored in the bulk element. The mesh needs to know this so that the value of the nodal position perturbation can be updated during the "perturbed spine node update" procedure

Referenced by oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::set_perturbation_to_nodal_positions_indices(), oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::spine_node_update_lower(), and oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::spine_node_update_upper().

YS_index

template<class ELEMENT >

int oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::YS_index

protected

Index at which the sine part of the perturbation to the nodal y-position is stored in the bulk element. The mesh needs to know this so that the value of the nodal position perturbation can be updated during the "perturbed spine node update" procedure

Referenced by oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::set_perturbation_to_nodal_positions_indices(), oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::spine_node_update_lower(), and oomph::TwoLayerPerturbedSpineMesh< ELEMENT >::spine_node_update_upper().

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

• two_layer_perturbed_spine_mesh.template.h
• two_layer_perturbed_spine_mesh.template.cc