Channel with leaflet mesh. More...

#include <channel_with_leaflet_mesh.template.h>

Inheritance diagram for oomph::ChannelWithLeafletMesh< ELEMENT >:

Public Member Functions
	ChannelWithLeafletMesh (GeomObject leaflet_pt, const double &lleft, const double &lright, const double &hleaflet, const double &htot, const unsigned &nleft, const unsigned &nright, const unsigned &ny1, const unsigned &ny2, TimeStepper time_stepper_pt=&Mesh::Default_TimeStepper)

virtual	~ChannelWithLeafletMesh ()
	Destructor : empty. More...

ChannelWithLeafletDomain *	domain_pt ()
	Access function to domain. More...

Public Member Functions inherited from oomph::SimpleRectangularQuadMesh< ELEMENT >
	SimpleRectangularQuadMesh (const unsigned &Nx, const unsigned &Ny, const double &Lx, const double &Ly, TimeStepper *time_stepper_pt=&Mesh::Default_TimeStepper)

const unsigned &	nx () const
	Access function for number of elements in x directions. More...

const unsigned &	ny () const
	Access function for number of elements in y directions. 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	node_update (const bool &update_all_solid_nodes=false)

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

virtual void	dump (std::ofstream &dump_file, const bool &use_old_ordering=true) const
	Dump the data in the mesh into a file for restart. More...

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...

virtual void	read (std::ifstream &restart_file)
	Read solution from restart file. 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...

Protected Attributes
ChannelWithLeafletDomain *	Domain_pt
	Pointer to domain. More...

GeomObject *	Leaflet_pt
	Pointer to GeomObject that represents the leaflet. More...

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

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...

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)

Detailed Description

template<class ELEMENT>
class oomph::ChannelWithLeafletMesh< ELEMENT >

Channel with leaflet mesh.

Constructor & Destructor Documentation

◆ ChannelWithLeafletMesh()

template<class ELEMENT >

oomph::ChannelWithLeafletMesh< ELEMENT >::ChannelWithLeafletMesh	(	GeomObject *	leaflet_pt,
		const double &	lleft,
		const double &	lright,
		const double &	hleaflet,
		const double &	htot,
		const unsigned &	nleft,
		const unsigned &	nright,
		const unsigned &	ny1,
		const unsigned &	ny2,
		TimeStepper *	time_stepper_pt = `&Mesh::Default_TimeStepper`
	)

Constructor: Pass pointer to GeomObject that represents the leaflet, the length of the domain to left and right of the leaflet, the height of the leaflet and the overall height of the channel, the number of element columns to the left and right of the leaflet, the number of rows of elements from the bottom of the channel to the end of the leaflet, the number of rows of elements above the end of the leaflet. Timestepper defaults to Steady default Timestepper defined in the Mesh base class

     : SimpleRectangularQuadMesh<ELEMENT>(
         nright + nleft, ny1 + ny2, lright + lleft, htot, time_stepper_pt)
   {
     // Mesh can only be built with 2D Qelements.
     MeshChecker::assert_geometric_element<QElementGeometricBase, ELEMENT>(2);
  
     // Copy pointer to leaflet into private storage
     Leaflet_pt = leaflet_pt;
  
     // Create the ChannelWithLeafletDomain with the wall
     // represented by the geometric object
     Domain_pt = new ChannelWithLeafletDomain(
       leaflet_pt, lleft, lright, hleaflet, htot, nleft, nright, ny1, ny2);
  
  
     // Total number of (macro/finite)elements
     unsigned nmacro = (ny1 + ny2) * (nleft + nright);
  
     // Loop over all elements and set macro element pointer
     for (unsigned e = 0; e < nmacro; e++)
     {
       // Get pointer to finite element
       FiniteElement* el_pt = this->finite_element_pt(e);
  
       // Set pointer to macro element
       el_pt->set_macro_elem_pt(this->Domain_pt->macro_element_pt(e));
     }
  
     // Update the nodal positions corresponding to their
     // macro element representations.
     this->node_update();
  
     // Change the numbers of boundaries
     this->set_nboundary(7);
  
     // Remove the nodes of boundary 0
     this->remove_boundary_nodes(0);
  
     // Get the number of nodes along the element edge from first element
     unsigned nnode_1d = this->finite_element_pt(0)->nnode_1d();
  
     // Boundary 0 will be before the wall, boundary 6 after it
     for (unsigned e = 0; e < nleft; e++)
     {
       for (unsigned i = 0; i < nnode_1d; i++)
       {
         Node* nod_pt = this->finite_element_pt(e)->node_pt(i);
         // do not add the last node : it will go to boundary 6
         if (e != nleft - 1 || i != 2)
         {
           this->add_boundary_node(0, nod_pt);
         }
       }
     }
  
     for (unsigned e = nleft; e < nleft + nright; e++)
     {
       for (unsigned i = 0; i < nnode_1d; i++)
       {
         Node* nod_pt = this->finite_element_pt(e)->node_pt(i);
         this->add_boundary_node(6, nod_pt);
       }
     }
  
     // Vector of Lagrangian coordinates used as boundary coordinate
     Vector<double> zeta(1);
  
     // Set the wall as a boundary
     for (unsigned k = 0; k < ny1; k++)
     {
       unsigned e = (nleft + nright) * k + nleft - 1;
       for (unsigned i = 0; i < nnode_1d; i++)
       {
         Node* nod_pt =
           this->finite_element_pt(e)->node_pt((i + 1) * nnode_1d - 1);
         this->convert_to_boundary_node(nod_pt);
         this->add_boundary_node(4, nod_pt);
  
         // Set coordinates
         zeta[0] = double(k) * hleaflet / double(ny1) +
                   double(i) * hleaflet / double(ny1) / double(nnode_1d - 1);
         nod_pt->set_coordinates_on_boundary(4, zeta);
       }
     }
  
  
     // Duplicate the nodes of the wall and assign then as a boundary.
     // This will make one boundary for the east of the elements at the
     // left of the wall, and one for the west of the elements at the right
     // of the wall.
     // This is necessary to use TaylorHoodElements, because it will allow
     // a discontinuity of the pressure accross the wall.
     // We separate the lower element from the rest as we do not want to
     // add the same node twice to the boundary, and the upper element as its
     // upper node must be the same one than the node of the upper element
     // at the right of the wall
  
     // Lower element
     unsigned e = nleft - 1;
  
     // Allocate storage for newly created node outside
     // so we can refer to the most recently created one below.
     Node* nod_pt = 0;
  
     // duplicate the east nodes and add them to the 6th boundary
     // Add the first node to the 0th boundary (horizontal)
     for (unsigned i = 0; i < nnode_1d; i++)
     {
       nod_pt = this->finite_element_pt(e)->construct_boundary_node(
         (i + 1) * nnode_1d - 1, time_stepper_pt);
       this->add_boundary_node(5, nod_pt);
       if (i == 0)
       {
         this->add_boundary_node(0, nod_pt);
       }
       this->add_node_pt(nod_pt);
       // Set coordinates
       zeta[0] = i * hleaflet / double(ny1) / double(nnode_1d - 1);
       nod_pt->set_coordinates_on_boundary(5, zeta);
     }
  
  
     // Other elements just at the left of the wall
     for (unsigned k = 1; k < ny1; k++)
     {
       e = (nleft + nright) * k + nleft - 1;
  
       // add the upper node of the previous element
       this->finite_element_pt(e)->node_pt(nnode_1d - 1) = nod_pt;
       this->add_boundary_node(5, nod_pt);
       // Set coordinates
       zeta[0] = k * hleaflet / double(ny1);
       nod_pt->set_coordinates_on_boundary(5, zeta);
  
       // Loop over other nodes on element's eastern edge
       for (unsigned i = 1; i < nnode_1d; i++)
       {
         // Don't duplicate the node at the very top of the "obstacle"
         if ((k == ny1 - 1) && (i == nnode_1d - 1))
         {
           // Get the node but don't do anything else
           nod_pt = this->finite_element_pt(e)->node_pt(nnode_1d * nnode_1d - 1);
         }
         else
         {
           // Overwrite the node with a boundary node
           nod_pt = this->finite_element_pt(e)->construct_boundary_node(
             (i + 1) * nnode_1d - 1, time_stepper_pt);
           this->add_node_pt(nod_pt);
         }
  
         // Add node to boundary
         this->add_boundary_node(5, nod_pt);
         // Set coordinates
         zeta[0] = double(k) * hleaflet / double(ny1) +
                   double(i) * hleaflet / double(ny1) / double(nnode_1d - 1);
         nod_pt->set_coordinates_on_boundary(5, zeta);
       }
     }
  
     this->node_update();
  
     // Re-setup lookup scheme that establishes which elements are located
     // on the mesh boundaries (doesn't need to be wiped)
     this->setup_boundary_element_info();
  
     // We have parametrised boundary 4 and 5
     this->Boundary_coordinate_exists[4] = true;
     this->Boundary_coordinate_exists[5] = true;
  
   } // end of constructor

References oomph::Mesh::add_boundary_node(), oomph::Mesh::add_node_pt(), oomph::Mesh::Boundary_coordinate_exists, oomph::FiniteElement::construct_boundary_node(), oomph::Mesh::convert_to_boundary_node(), oomph::ChannelWithLeafletMesh< ELEMENT >::Domain_pt, e(), oomph::Mesh::finite_element_pt(), i, k, oomph::ChannelWithLeafletMesh< ELEMENT >::Leaflet_pt, oomph::Domain::macro_element_pt(), oomph::FiniteElement::nnode_1d(), oomph::FiniteElement::node_pt(), oomph::Mesh::node_update(), oomph::Mesh::remove_boundary_nodes(), oomph::Node::set_coordinates_on_boundary(), oomph::FiniteElement::set_macro_elem_pt(), oomph::Mesh::set_nboundary(), oomph::QuadMeshBase::setup_boundary_element_info(), and Eigen::zeta().

◆ ~ChannelWithLeafletMesh()

template<class ELEMENT >

virtual oomph::ChannelWithLeafletMesh< ELEMENT >::~ChannelWithLeafletMesh ( )

inlinevirtual

Destructor : empty.

79 {}

Member Function Documentation

◆ domain_pt()

template<class ELEMENT >

ChannelWithLeafletDomain* oomph::ChannelWithLeafletMesh< ELEMENT >::domain_pt ( )

inline

Access function to domain.

     {
       return Domain_pt;
     }

References oomph::ChannelWithLeafletMesh< ELEMENT >::Domain_pt.

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

Member Data Documentation

◆ Domain_pt

template<class ELEMENT >

ChannelWithLeafletDomain* oomph::ChannelWithLeafletMesh< ELEMENT >::Domain_pt

protected

Pointer to domain.

Referenced by oomph::ChannelWithLeafletMesh< ELEMENT >::ChannelWithLeafletMesh(), and oomph::ChannelWithLeafletMesh< ELEMENT >::domain_pt().

◆ Leaflet_pt

template<class ELEMENT >

GeomObject* oomph::ChannelWithLeafletMesh< ELEMENT >::Leaflet_pt

protected

Pointer to GeomObject that represents the leaflet.

Referenced by oomph::AlgebraicChannelWithLeafletMesh< ELEMENT >::AlgebraicChannelWithLeafletMesh(), oomph::ChannelWithLeafletMesh< ELEMENT >::ChannelWithLeafletMesh(), and oomph::MacroElementNodeUpdateChannelWithLeafletMesh< ELEMENT >::MacroElementNodeUpdateChannelWithLeafletMesh().

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

Public Member Functions

Protected Attributes

Additional Inherited Members

Detailed Description

template<class ELEMENT> class oomph::ChannelWithLeafletMesh< ELEMENT >

Constructor & Destructor Documentation

◆ ChannelWithLeafletMesh()

◆ ~ChannelWithLeafletMesh()

Member Function Documentation

◆ domain_pt()

Member Data Documentation

◆ Domain_pt

◆ Leaflet_pt

template<class ELEMENT>
class oomph::ChannelWithLeafletMesh< ELEMENT >