HeartGeometryInformation< SPACE_DIM > Class Template Reference

#include <HeartGeometryInformation.hpp>

Inheritance diagram for HeartGeometryInformation< SPACE_DIM >:

Collaboration diagram for HeartGeometryInformation< SPACE_DIM >:

List of all members.

Public Member Functions

HeartGeometryInformation (AbstractTetrahedralMesh< SPACE_DIM, SPACE_DIM > &rMesh, const std::string &rEpiFile, const std::string &rEndoFile, bool indexFromZero)

HeartGeometryInformation (AbstractTetrahedralMesh< SPACE_DIM, SPACE_DIM > &rMesh, const std::string &rEpiFile, const std::string &rLVFile, const std::string &rRVFile, bool indexFromZero)

HeartGeometryInformation (std::string nodeHeterogeneityFileName)

HeartRegionType GetHeartRegion (unsigned nodeIndex) const

std::vector< double > & rGetDistanceMapEpicardium ()

std::vector< double > & rGetDistanceMapEndocardium ()

std::vector< double > & rGetDistanceMapRightVentricle ()

std::vector< double > & rGetDistanceMapLeftVentricle ()

const std::vector< unsigned > & rGetNodesOnEpiSurface ()

const std::vector< unsigned > & rGetNodesOnEndoSurface ()

const std::vector< unsigned > & rGetNodesOnLVSurface ()

const std::vector< unsigned > & rGetNodesOnRVSurface ()

const std::vector
< HeartLayerType > & rGetLayerForEachNode ()

double CalculateRelativeWallPosition (unsigned nodeIndex)

void DetermineLayerForEachNode (double epiFraction, double endoFraction)

void WriteLayerForEachNode (std::string outputDir, std::string file)

ChasteCuboid< SPACE_DIM > CalculateBoundingBoxOfEpi ()

ChasteCuboid< SPACE_DIM > CalculateBoundingBoxOfEndo ()

ChasteCuboid< SPACE_DIM > CalculateBoundingBoxOfLV ()

ChasteCuboid< SPACE_DIM > CalculateBoundingBoxOfRV ()

Static Public Attributes

static const HeartRegionType LEFT_VENTRICLE_WALL = 1001

static const HeartRegionType RIGHT_VENTRICLE_WALL = 1002

static const HeartRegionType LEFT_SEPTUM = 1003

static const HeartRegionType RIGHT_SEPTUM = 1004

static const HeartRegionType LEFT_VENTRICLE_SURFACE = 1005

static const HeartRegionType RIGHT_VENTRICLE_SURFACE = 1006

static const HeartRegionType UNKNOWN = 1007

Private Member Functions

void GetNodesAtSurface (const std::string &surfaceFile, std::vector< unsigned > &rSurfaceNodes, bool indexFromZero=true) const

void ProcessLine (const std::string &line, std::set< unsigned > &rSurfaceNodeIndexSet, unsigned offset) const

double GetDistanceToEndo (unsigned nodeIndex)

double GetDistanceToEpi (unsigned nodeIndex)

ChasteCuboid< SPACE_DIM > CalculateBoundingBoxOfSurface (const std::vector< unsigned > &rSurfaceNodes)

Private Attributes

std::vector< unsigned > mEpiSurface

std::vector< unsigned > mEndoSurface

std::vector< unsigned > mLVSurface

std::vector< unsigned > mRVSurface

AbstractTetrahedralMesh
< SPACE_DIM, SPACE_DIM > * mpMesh

std::vector< double > mDistMapEpicardium

std::vector< double > mDistMapEndocardium

std::vector< double > mDistMapRightVentricle

std::vector< double > mDistMapLeftVentricle

unsigned mNumberOfSurfacesProvided

std::vector< HeartLayerType > mLayerForEachNode

Static Private Attributes

static const double LEFT_SEPTUM_SIZE = 2.0/3.0

static const double RIGHT_SEPTUM_SIZE = 1.0/3.0

Detailed Description

template<unsigned SPACE_DIM>
class HeartGeometryInformation< SPACE_DIM >

This class provides a method to calculate the relative position of a node with respect to two (or three) given surfaces

Definition at line 55 of file HeartGeometryInformation.hpp.

Constructor & Destructor Documentation

template<unsigned SPACE_DIM>

HeartGeometryInformation< SPACE_DIM >::HeartGeometryInformation	(	AbstractTetrahedralMesh< SPACE_DIM, SPACE_DIM > &	rMesh,
		const std::string &	rEpiFile,
		const std::string &	rEndoFile,
		bool	indexFromZero
	)			`[inline]`

Constructor for a two surface mesh

Parameters:

	rMesh,:	reference to the mesh
	rEpiFile,:	file of elements on the epicardial surface
	rEndoFile,:	file of elements on the endocardial surface
	indexFromZero	true for native triangles files. false for Memfem files which are indexed from 1.

Definition at line 46 of file HeartGeometryInformation.cpp.

References DistanceMapCalculator< ELEMENT_DIM, SPACE_DIM >::ComputeDistanceMap(), HeartGeometryInformation< SPACE_DIM >::GetNodesAtSurface(), HeartGeometryInformation< SPACE_DIM >::mDistMapEndocardium, HeartGeometryInformation< SPACE_DIM >::mDistMapEpicardium, HeartGeometryInformation< SPACE_DIM >::mEndoSurface, HeartGeometryInformation< SPACE_DIM >::mEpiSurface, HeartGeometryInformation< SPACE_DIM >::mNumberOfSurfacesProvided, and HeartGeometryInformation< SPACE_DIM >::mpMesh.

template<unsigned SPACE_DIM>

HeartGeometryInformation< SPACE_DIM >::HeartGeometryInformation	(	AbstractTetrahedralMesh< SPACE_DIM, SPACE_DIM > &	rMesh,
		const std::string &	rEpiFile,
		const std::string &	rLVFile,
		const std::string &	rRVFile,
		bool	indexFromZero
	)			`[inline]`

Constructor for a three surface mesh

Parameters:

	rMesh,:	reference to the mesh
	rEpiFile,:	file of elements on the epicardial surface
	rRVFile,:	file of elements on the endocardial right ventricular surface
	rLVFile,:	file of elements on the endocardial left ventricular surface
	indexFromZero	true for native triangles files. false for Memfem files which are indexed from 1.

Definition at line 65 of file HeartGeometryInformation.cpp.

template<unsigned SPACE_DIM>

HeartGeometryInformation< SPACE_DIM >::HeartGeometryInformation ( std::string nodeHeterogeneityFileName ) [inline]

Alternative constructor that takes in the file containing a list of numbers (as many as the number of nodes). Each number specifies the layer for the corresponding node.

This constructor should be called if the heterogeneities have /already/ been computed by an instance of this class and written to file by the WriteLayerForEachNode() method.

Parameters:

nodeHeterogeneityFileName

the file name.

Definition at line 90 of file HeartGeometryInformation.cpp.

References EXCEPTION, HeartGeometryInformation< SPACE_DIM >::mLayerForEachNode, and HeartGeometryInformation< SPACE_DIM >::mpMesh.

Member Function Documentation

template<unsigned SPACE_DIM>

void HeartGeometryInformation< SPACE_DIM >::GetNodesAtSurface	(	const std::string &	surfaceFile,
		std::vector< unsigned > &	rSurfaceNodes,
		bool	indexFromZero = `true`
	)			const `[inline, private]`

Takes in a file of all the surface elements on ONE PARTICULAR surface of the mesh (eg the right ventricular endo-cardial surface) and collects all the nodes on that surface in one vector

Parameters:

	surfaceFile	The surface file
	rSurfaceNodes	The returned vector of nodes indices on this surface
	indexFromZero	true for native triangles files. false for Memfem files which are indexed from 1.

Definition at line 161 of file HeartGeometryInformation.cpp.

References EXCEPTION, HeartGeometryInformation< SPACE_DIM >::mpMesh, HeartGeometryInformation< SPACE_DIM >::ProcessLine(), and AbstractMesh< ELEMENT_DIM, SPACE_DIM >::rGetNodePermutation().

Referenced by HeartGeometryInformation< SPACE_DIM >::HeartGeometryInformation().

template<unsigned SPACE_DIM>

void HeartGeometryInformation< SPACE_DIM >::ProcessLine	(	const std::string &	line,
		std::set< unsigned > &	rSurfaceNodeIndexSet,
		unsigned	offset
	)			const `[inline, private]`

Helper function for GetNodesAtSurface

Parameters:

	line	A line in a surface file
	rSurfaceNodeIndexSet	The nodes in the element corresponding to this line
	offset	is the lowest index of a node in the original mesh (0 for native triangles or 1 for MEMFEM)

Definition at line 142 of file HeartGeometryInformation.cpp.

References EXCEPTION.

Referenced by HeartGeometryInformation< SPACE_DIM >::GetNodesAtSurface().

template<unsigned SPACE_DIM>

double HeartGeometryInformation< SPACE_DIM >::GetDistanceToEndo ( unsigned nodeIndex ) [inline, private]

Helper method to calculate the distance between the node and the Endocardial surface as defined to be the closest surface to the node out of left ventricle and right ventricle.

Parameters:

nodeIndex

is the index of the node in the mesh

Returns:: the distance

Definition at line 254 of file HeartGeometryInformation.cpp.

Referenced by HeartGeometryInformation< SPACE_DIM >::CalculateRelativeWallPosition().

template<unsigned SPACE_DIM>

double HeartGeometryInformation< SPACE_DIM >::GetDistanceToEpi ( unsigned nodeIndex ) [inline, private]

Helper method to calculate the distance between the node and the Epicardial surface

Parameters:

nodeIndex

is the index of the node in the mesh

Returns:: the distance

Definition at line 309 of file HeartGeometryInformation.cpp.

References HeartGeometryInformation< SPACE_DIM >::mDistMapEpicardium.

Referenced by HeartGeometryInformation< SPACE_DIM >::CalculateRelativeWallPosition().

template<unsigned SPACE_DIM>

ChasteCuboid< SPACE_DIM > HeartGeometryInformation< SPACE_DIM >::CalculateBoundingBoxOfSurface ( const std::vector< unsigned > & rSurfaceNodes ) [inline, private]

Get a bounding box for a group of node indices (such as the epi-surface)

Parameters:

rSurfaceNodes

The indices of the nodes which represent this surface

Definition at line 394 of file HeartGeometryInformation.cpp.

References AbstractMesh< ELEMENT_DIM, SPACE_DIM >::GetDistributedVectorFactory(), AbstractMesh< ELEMENT_DIM, SPACE_DIM >::GetNode(), DistributedVectorFactory::IsGlobalIndexLocal(), and HeartGeometryInformation< SPACE_DIM >::mpMesh.

Referenced by HeartGeometryInformation< ELEMENT_DIM >::CalculateBoundingBoxOfEndo(), HeartGeometryInformation< ELEMENT_DIM >::CalculateBoundingBoxOfEpi(), HeartGeometryInformation< ELEMENT_DIM >::CalculateBoundingBoxOfLV(), and HeartGeometryInformation< ELEMENT_DIM >::CalculateBoundingBoxOfRV().

template<unsigned SPACE_DIM>

HeartRegionType HeartGeometryInformation< SPACE_DIM >::GetHeartRegion ( unsigned nodeIndex ) const [inline]

Parameters:

nodeIndex

index is the index of the node in the mesh

Returns:: the region type based on the relative distances to epi and endocardial surfaces

Definition at line 221 of file HeartGeometryInformation.cpp.

Referenced by HeartGeometryInformation< SPACE_DIM >::GetDistanceToEndo().

template<unsigned SPACE_DIM>

std::vector<double>& HeartGeometryInformation< SPACE_DIM >::rGetDistanceMapEpicardium ( ) [inline]

Returns:: the distance map to the epicardium

Definition at line 207 of file HeartGeometryInformation.hpp.

template<unsigned SPACE_DIM>

std::vector<double>& HeartGeometryInformation< SPACE_DIM >::rGetDistanceMapEndocardium ( ) [inline]

Returns:: the distance map to the endocardium

Definition at line 216 of file HeartGeometryInformation.hpp.

template<unsigned SPACE_DIM>

std::vector<double>& HeartGeometryInformation< SPACE_DIM >::rGetDistanceMapRightVentricle ( ) [inline]

Returns:: the distance map to the right ventricle

Definition at line 226 of file HeartGeometryInformation.hpp.

template<unsigned SPACE_DIM>

std::vector<double>& HeartGeometryInformation< SPACE_DIM >::rGetDistanceMapLeftVentricle ( ) [inline]

Returns:: the distance map to the left ventricle

Definition at line 236 of file HeartGeometryInformation.hpp.

template<unsigned SPACE_DIM>

const std::vector<unsigned>& HeartGeometryInformation< SPACE_DIM >::rGetNodesOnEpiSurface ( ) [inline]

Get the nodes on the epicardial surface

Definition at line 243 of file HeartGeometryInformation.hpp.

template<unsigned SPACE_DIM>

const std::vector<unsigned>& HeartGeometryInformation< SPACE_DIM >::rGetNodesOnEndoSurface ( ) [inline]

Get the nodes on the endocardial surface

Definition at line 250 of file HeartGeometryInformation.hpp.

template<unsigned SPACE_DIM>

const std::vector<unsigned>& HeartGeometryInformation< SPACE_DIM >::rGetNodesOnLVSurface ( ) [inline]

Get the nodes on the endocardial left ventricular surface

Definition at line 257 of file HeartGeometryInformation.hpp.

template<unsigned SPACE_DIM>

const std::vector<unsigned>& HeartGeometryInformation< SPACE_DIM >::rGetNodesOnRVSurface ( ) [inline]

Get the nodes on the endocardial right ventricular surface

Definition at line 264 of file HeartGeometryInformation.hpp.

template<unsigned SPACE_DIM>

const std::vector<HeartLayerType>& HeartGeometryInformation< SPACE_DIM >::rGetLayerForEachNode ( ) [inline]

Get the layer for every node in the mesh.

Definition at line 273 of file HeartGeometryInformation.hpp.

Referenced by HeartConfigRelatedCellFactory< SPACE_DIM >::FillInCellularTransmuralAreas().

template<unsigned SPACE_DIM>

double HeartGeometryInformation< SPACE_DIM >::CalculateRelativeWallPosition ( unsigned nodeIndex ) [inline]

Calculates the relative position within the wall thickness (normalised to [0,1])

Parameters:

nodeIndex

index is the index of the node in the mesh

Returns:: the relative position

Definition at line 315 of file HeartGeometryInformation.cpp.

References HeartGeometryInformation< SPACE_DIM >::GetDistanceToEndo(), and HeartGeometryInformation< SPACE_DIM >::GetDistanceToEpi().

Referenced by HeartGeometryInformation< SPACE_DIM >::DetermineLayerForEachNode().

template<unsigned SPACE_DIM>

void HeartGeometryInformation< SPACE_DIM >::DetermineLayerForEachNode	(	double	epiFraction,
		double	endoFraction
	)			`[inline]`

Compute which layer (endocardial, midmyocardial or epicardial) each node is in

Parameters:

	epiFraction	is the fraction of wall designed to be epicardial layer
	endoFraction	is the fraction of wall designed to be endocardial layer

Definition at line 330 of file HeartGeometryInformation.cpp.

References HeartGeometryInformation< SPACE_DIM >::CalculateRelativeWallPosition(), EXCEPTION, AbstractMesh< ELEMENT_DIM, SPACE_DIM >::GetNumNodes(), HeartGeometryInformation< SPACE_DIM >::mLayerForEachNode, and HeartGeometryInformation< SPACE_DIM >::mpMesh.

Referenced by HeartConfigRelatedCellFactory< SPACE_DIM >::FillInCellularTransmuralAreas().

template<unsigned SPACE_DIM>

void HeartGeometryInformation< SPACE_DIM >::WriteLayerForEachNode	(	std::string	outputDir,
		std::string	file
	)			`[inline]`

Write the layer for each node. DetermineLayerForEachNode() must have been called first.

Parameters:

	outputDir	Output directory - note not cleaned
	file	Output file

Definition at line 363 of file HeartGeometryInformation.cpp.

References PetscTools::AmMaster(), PetscTools::Barrier(), AbstractMesh< ELEMENT_DIM, SPACE_DIM >::GetNumNodes(), HeartGeometryInformation< SPACE_DIM >::mLayerForEachNode, HeartGeometryInformation< SPACE_DIM >::mpMesh, and OutputFileHandler::OpenOutputFile().

template<unsigned SPACE_DIM>

ChasteCuboid<SPACE_DIM> HeartGeometryInformation< SPACE_DIM >::CalculateBoundingBoxOfEpi ( ) [inline]

Uses CalculateBoundingBoxOfSurface to calculate an axis-aligned bounding box of the nodes in the input epicardial surface

Definition at line 308 of file HeartGeometryInformation.hpp.

template<unsigned SPACE_DIM>

ChasteCuboid<SPACE_DIM> HeartGeometryInformation< SPACE_DIM >::CalculateBoundingBoxOfEndo ( ) [inline]

Uses CalculateBoundingBoxOfSurface to calculate an axis-aligned bounding box of the nodes in the input endocardial surface

Definition at line 318 of file HeartGeometryInformation.hpp.

template<unsigned SPACE_DIM>

ChasteCuboid<SPACE_DIM> HeartGeometryInformation< SPACE_DIM >::CalculateBoundingBoxOfLV ( ) [inline]

Uses CalculateBoundingBoxOfSurface to calculate an axis-aligned bounding box of the nodes in the input endocardial left ventricular surface

Definition at line 328 of file HeartGeometryInformation.hpp.

template<unsigned SPACE_DIM>

ChasteCuboid<SPACE_DIM> HeartGeometryInformation< SPACE_DIM >::CalculateBoundingBoxOfRV ( ) [inline]

Uses CalculateBoundingBoxOfSurface to calculate an axis-aligned bounding box of the nodes in the input endocardial left ventricular surface

Definition at line 338 of file HeartGeometryInformation.hpp.

Member Data Documentation

template<unsigned SPACE_DIM>

const double HeartGeometryInformation< SPACE_DIM >::LEFT_SEPTUM_SIZE = 2.0/3.0 [inline, static, private]

Area of the septum considered to belong to the left septum (relative to 1)

Definition at line 60 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< SPACE_DIM >::GetHeartRegion().

template<unsigned SPACE_DIM>

const double HeartGeometryInformation< SPACE_DIM >::RIGHT_SEPTUM_SIZE = 1.0/3.0 [inline, static, private]

Area of the septum considered to belong to the right septum (relative to 1)

Definition at line 62 of file HeartGeometryInformation.hpp.

template<unsigned SPACE_DIM>

std::vector<unsigned> HeartGeometryInformation< SPACE_DIM >::mEpiSurface [private]

The nodes on the epicardial surface

Definition at line 65 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< ELEMENT_DIM >::CalculateBoundingBoxOfEpi(), HeartGeometryInformation< SPACE_DIM >::HeartGeometryInformation(), and HeartGeometryInformation< ELEMENT_DIM >::rGetNodesOnEpiSurface().

template<unsigned SPACE_DIM>

std::vector<unsigned> HeartGeometryInformation< SPACE_DIM >::mEndoSurface [private]

The nodes on the endocardial surface (only used in the 2 surface case)

Definition at line 68 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< ELEMENT_DIM >::CalculateBoundingBoxOfEndo(), HeartGeometryInformation< SPACE_DIM >::HeartGeometryInformation(), and HeartGeometryInformation< ELEMENT_DIM >::rGetNodesOnEndoSurface().

template<unsigned SPACE_DIM>

std::vector<unsigned> HeartGeometryInformation< SPACE_DIM >::mLVSurface [private]

The nodes on the endocardial left ventricular surface (only used in the 3 surface case)

Definition at line 71 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< ELEMENT_DIM >::CalculateBoundingBoxOfLV(), HeartGeometryInformation< SPACE_DIM >::HeartGeometryInformation(), and HeartGeometryInformation< ELEMENT_DIM >::rGetNodesOnLVSurface().

template<unsigned SPACE_DIM>

std::vector<unsigned> HeartGeometryInformation< SPACE_DIM >::mRVSurface [private]

The nodes on the endocardial right ventricular surface (only used in the 3 surface case)

Definition at line 74 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< ELEMENT_DIM >::CalculateBoundingBoxOfRV(), HeartGeometryInformation< SPACE_DIM >::HeartGeometryInformation(), and HeartGeometryInformation< ELEMENT_DIM >::rGetNodesOnRVSurface().

template<unsigned SPACE_DIM>

AbstractTetrahedralMesh<SPACE_DIM,SPACE_DIM>* HeartGeometryInformation< SPACE_DIM >::mpMesh [private]

The mesh of the problem

Definition at line 113 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< SPACE_DIM >::CalculateBoundingBoxOfSurface(), HeartGeometryInformation< SPACE_DIM >::DetermineLayerForEachNode(), HeartGeometryInformation< SPACE_DIM >::GetNodesAtSurface(), HeartGeometryInformation< SPACE_DIM >::HeartGeometryInformation(), and HeartGeometryInformation< SPACE_DIM >::WriteLayerForEachNode().

template<unsigned SPACE_DIM>

std::vector<double> HeartGeometryInformation< SPACE_DIM >::mDistMapEpicardium [private]

Vector to store the distance map to epicardium

Definition at line 116 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< SPACE_DIM >::GetDistanceToEndo(), HeartGeometryInformation< SPACE_DIM >::GetDistanceToEpi(), HeartGeometryInformation< SPACE_DIM >::GetHeartRegion(), HeartGeometryInformation< SPACE_DIM >::HeartGeometryInformation(), and HeartGeometryInformation< ELEMENT_DIM >::rGetDistanceMapEpicardium().

template<unsigned SPACE_DIM>

std::vector<double> HeartGeometryInformation< SPACE_DIM >::mDistMapEndocardium [private]

Vector to store the distance map to endocardium

Definition at line 119 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< SPACE_DIM >::GetDistanceToEndo(), HeartGeometryInformation< SPACE_DIM >::HeartGeometryInformation(), and HeartGeometryInformation< ELEMENT_DIM >::rGetDistanceMapEndocardium().

template<unsigned SPACE_DIM>

std::vector<double> HeartGeometryInformation< SPACE_DIM >::mDistMapRightVentricle [private]

Vector to store the distance map to the right ventricle surface

Definition at line 122 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< SPACE_DIM >::GetDistanceToEndo(), HeartGeometryInformation< SPACE_DIM >::GetHeartRegion(), HeartGeometryInformation< SPACE_DIM >::HeartGeometryInformation(), and HeartGeometryInformation< ELEMENT_DIM >::rGetDistanceMapRightVentricle().

template<unsigned SPACE_DIM>

std::vector<double> HeartGeometryInformation< SPACE_DIM >::mDistMapLeftVentricle [private]

Vector to store the distance map to the left ventricle surface

Definition at line 125 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< SPACE_DIM >::GetDistanceToEndo(), HeartGeometryInformation< SPACE_DIM >::GetHeartRegion(), HeartGeometryInformation< SPACE_DIM >::HeartGeometryInformation(), and HeartGeometryInformation< ELEMENT_DIM >::rGetDistanceMapLeftVentricle().

template<unsigned SPACE_DIM>

unsigned HeartGeometryInformation< SPACE_DIM >::mNumberOfSurfacesProvided [private]

Flag used to tell the methods whether two or three surfaces have been supplied

Definition at line 128 of file HeartGeometryInformation.hpp.

template<unsigned SPACE_DIM>

std::vector<HeartLayerType> HeartGeometryInformation< SPACE_DIM >::mLayerForEachNode [private]

Vector to store the layer for each node

Definition at line 131 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< SPACE_DIM >::DetermineLayerForEachNode(), HeartGeometryInformation< SPACE_DIM >::HeartGeometryInformation(), HeartGeometryInformation< ELEMENT_DIM >::rGetLayerForEachNode(), and HeartGeometryInformation< SPACE_DIM >::WriteLayerForEachNode().

template<unsigned SPACE_DIM>

const HeartRegionType HeartGeometryInformation< SPACE_DIM >::LEFT_VENTRICLE_WALL = 1001 [static]

Todo:: #1703 Perhaps add these constants to HeartConfig...

Left ventricular wall

Definition at line 143 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< SPACE_DIM >::GetDistanceToEndo(), and HeartGeometryInformation< SPACE_DIM >::GetHeartRegion().

template<unsigned SPACE_DIM>

const HeartRegionType HeartGeometryInformation< SPACE_DIM >::RIGHT_VENTRICLE_WALL = 1002 [static]

Right ventricular wall

Definition at line 145 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< SPACE_DIM >::GetDistanceToEndo(), and HeartGeometryInformation< SPACE_DIM >::GetHeartRegion().

template<unsigned SPACE_DIM>

const HeartRegionType HeartGeometryInformation< SPACE_DIM >::LEFT_SEPTUM = 1003 [static]

Left portion of the septum

Definition at line 147 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< SPACE_DIM >::GetDistanceToEndo(), and HeartGeometryInformation< SPACE_DIM >::GetHeartRegion().

template<unsigned SPACE_DIM>

const HeartRegionType HeartGeometryInformation< SPACE_DIM >::RIGHT_SEPTUM = 1004 [static]

Right portion of the septum

Definition at line 149 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< SPACE_DIM >::GetDistanceToEndo(), and HeartGeometryInformation< SPACE_DIM >::GetHeartRegion().

template<unsigned SPACE_DIM>

const HeartRegionType HeartGeometryInformation< SPACE_DIM >::LEFT_VENTRICLE_SURFACE = 1005 [static]

Endocardial surface of the left ventricle

Definition at line 151 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< SPACE_DIM >::GetDistanceToEndo().

template<unsigned SPACE_DIM>

const HeartRegionType HeartGeometryInformation< SPACE_DIM >::RIGHT_VENTRICLE_SURFACE = 1006 [static]

Endocardial surface of the right ventricle

Definition at line 153 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< SPACE_DIM >::GetDistanceToEndo().

template<unsigned SPACE_DIM>

const HeartRegionType HeartGeometryInformation< SPACE_DIM >::UNKNOWN = 1007 [static]

Unknown node type (should never occur...)

Definition at line 155 of file HeartGeometryInformation.hpp.

Referenced by HeartGeometryInformation< SPACE_DIM >::GetDistanceToEndo(), and HeartGeometryInformation< SPACE_DIM >::GetHeartRegion().

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

heart/src/problem/HeartGeometryInformation.hpp
heart/src/problem/HeartGeometryInformation.cpp


Public Member Functions
	HeartGeometryInformation (AbstractTetrahedralMesh< SPACE_DIM, SPACE_DIM > &rMesh, const std::string &rEpiFile, const std::string &rEndoFile, bool indexFromZero)
	HeartGeometryInformation (AbstractTetrahedralMesh< SPACE_DIM, SPACE_DIM > &rMesh, const std::string &rEpiFile, const std::string &rLVFile, const std::string &rRVFile, bool indexFromZero)
	HeartGeometryInformation (std::string nodeHeterogeneityFileName)
HeartRegionType	GetHeartRegion (unsigned nodeIndex) const
std::vector< double > &	rGetDistanceMapEpicardium ()
std::vector< double > &	rGetDistanceMapEndocardium ()
std::vector< double > &	rGetDistanceMapRightVentricle ()
std::vector< double > &	rGetDistanceMapLeftVentricle ()
const std::vector< unsigned > &	rGetNodesOnEpiSurface ()
const std::vector< unsigned > &	rGetNodesOnEndoSurface ()
const std::vector< unsigned > &	rGetNodesOnLVSurface ()
const std::vector< unsigned > &	rGetNodesOnRVSurface ()
const std::vector < HeartLayerType > &	rGetLayerForEachNode ()
double	CalculateRelativeWallPosition (unsigned nodeIndex)
void	DetermineLayerForEachNode (double epiFraction, double endoFraction)
void	WriteLayerForEachNode (std::string outputDir, std::string file)
ChasteCuboid< SPACE_DIM >	CalculateBoundingBoxOfEpi ()
ChasteCuboid< SPACE_DIM >	CalculateBoundingBoxOfEndo ()
ChasteCuboid< SPACE_DIM >	CalculateBoundingBoxOfLV ()
ChasteCuboid< SPACE_DIM >	CalculateBoundingBoxOfRV ()
Static Public Attributes
static const HeartRegionType	LEFT_VENTRICLE_WALL = 1001
static const HeartRegionType	RIGHT_VENTRICLE_WALL = 1002
static const HeartRegionType	LEFT_SEPTUM = 1003
static const HeartRegionType	RIGHT_SEPTUM = 1004
static const HeartRegionType	LEFT_VENTRICLE_SURFACE = 1005
static const HeartRegionType	RIGHT_VENTRICLE_SURFACE = 1006
static const HeartRegionType	UNKNOWN = 1007
Private Member Functions
void	GetNodesAtSurface (const std::string &surfaceFile, std::vector< unsigned > &rSurfaceNodes, bool indexFromZero=true) const
void	ProcessLine (const std::string &line, std::set< unsigned > &rSurfaceNodeIndexSet, unsigned offset) const
double	GetDistanceToEndo (unsigned nodeIndex)
double	GetDistanceToEpi (unsigned nodeIndex)
ChasteCuboid< SPACE_DIM >	CalculateBoundingBoxOfSurface (const std::vector< unsigned > &rSurfaceNodes)
Private Attributes
std::vector< unsigned >	mEpiSurface
std::vector< unsigned >	mEndoSurface
std::vector< unsigned >	mLVSurface
std::vector< unsigned >	mRVSurface
AbstractTetrahedralMesh < SPACE_DIM, SPACE_DIM > *	mpMesh
std::vector< double >	mDistMapEpicardium
std::vector< double >	mDistMapEndocardium
std::vector< double >	mDistMapRightVentricle
std::vector< double >	mDistMapLeftVentricle
unsigned	mNumberOfSurfacesProvided
std::vector< HeartLayerType >	mLayerForEachNode
Static Private Attributes
static const double	LEFT_SEPTUM_SIZE = 2.0/3.0
static const double	RIGHT_SEPTUM_SIZE = 1.0/3.0

HeartGeometryInformation< SPACE_DIM > Class Template Reference

Public Member Functions

Static Public Attributes

Private Member Functions

Private Attributes

Static Private Attributes

Detailed Description

template<unsigned SPACE_DIM> class HeartGeometryInformation< SPACE_DIM >

Constructor & Destructor Documentation

Member Function Documentation

Member Data Documentation

template<unsigned SPACE_DIM>
class HeartGeometryInformation< SPACE_DIM >