Functions
Texture< float >	GeodesicDepth (const AimsSurface< 3, Void > &mesh, const AimsData< short > &vol, float radius_close, float radius_erode)
	Compute the geodesic depth of a triangulation The vol define the object and the background The radius-* are morphological parameter. More...

template<class T >
Texture< float >	MeshDistance (const AimsSurface< 3, Void > &mesh, const Texture< T > &inittex, bool allowUnreached)

template Texture< float >	MeshDistance (const AimsSurface< 3, Void > &, const Texture< short > &, bool)

template Texture< float >	MeshDistance (const AimsSurface< 3, Void > &, const Texture< float > &, bool)

template<class T >
Texture< T >	MeshDilation (const AimsSurface< 3, Void > &mesh, const Texture< T > &inittex, const T &Back, const T &For, const float dist, bool connexity)

template<class T >
Texture< T >	MeshErosion (const AimsSurface< 3, Void > &mesh, const Texture< T > &inittex, const T &Back, const T &For, const float dist, bool connexity)

TimeTexture< short >	MeshDilationStepbyStep (const AimsSurface< 3, Void > &mesh, const Texture< short > &inittex, const float dist, bool connectivity)

TimeTexture< short >	MeshErosionStepbyStep (const AimsSurface< 3, Void > &mesh, const Texture< short > &inittex, const float dist, bool connectivity)

Texture< float >	MeshGreyDilation (const AimsSurface< 3, Void > &mesh, const Texture< float > &inittex, const unsigned dist)

Texture< float >	MeshGreyErosion (const AimsSurface< 3, Void > &mesh, const Texture< float > &inittex, const unsigned dist)

template<class T >
Texture< T >	SplitSulci (const AimsSurface< 3, Void > &mesh, const Texture< T > &inittex, const T &Back, const T &For, const T label, const unsigned min, const unsigned max)

template<class T >
Texture< T >	LineariseSulci (const AimsSurface< 3, Void > &mesh, const Texture< T > &inittex, const T &label, const T &Back, const T &For, unsigned &min, unsigned &max, unsigned nbDil)

template<class T >
Texture< T >	CloseSulci (const AimsSurface< 3, Void > &mesh, const Texture< T > &sulctex, float nbDilMax, bool connexity, const T &Back, const T &For, const std::vector< std::list< unsigned > > &neigho, const std::set< T > &label_forbidden)
	Close the sulcus map (dilation and skeletization). More...

template<class T >
Texture< T >	CloseSulci (const AimsSurface< 3, Void > &mesh, const Texture< T > &sulctex, float nbDilMax, bool connexity, const T &Back, const T &For, const std::vector< std::list< unsigned > > &neigho)

template<class T >
unsigned	NbOfPoint (const Texture< T > tex, const T label)

template<class T >
bool	HasHole (const Texture< T > &tex, const AimsSurface< 3, Void > &mesh, const T label)

template<class T >
bool	SimplePoint (const Texture< T > &tex, const std::list< unsigned > &neigho)
	Tell if a point (whose ordonned neighbourhood is neigho) is simple. More...

template<class T >
bool	ImmortalPoint (const Texture< T > &tex, const std::list< unsigned > &neigho)
	Tell if a point (whose ordonned neighbourhood is neigho) is immortal (squeletization) More...

template<class T >
Texture< T >	MeshSkeletization (const AimsSurface< 3, Void > &mesh, const Texture< T > &inittex, T label, T Back, const std::vector< std::list< unsigned > > &neigho)
	Skeletization of the components of the innitex with label label. More...

TimeTexture< short >	MeshVoronoiStepbyStep (const AimsSurface< 3, Void > &mesh, const Texture< short > &inittex, float dist, bool connexity, bool object)

Texture< short >	MeshVoronoi (const AimsSurface< 3, Void > &mesh, const Texture< short > &inittex, float dist, bool connexity, bool object)

template<class T >
Texture< T >	MeshVoronoiT (const AimsSurface< 3, Void > &mesh, const Texture< T > &inittex, const T &Back, const T &For, float dist, bool connexity, bool object)
	Compute a geodesic voronoi diagram (dist = MAX_FLOAT,object=true ) of objects defined in inittex. More...

template<class T >
Texture< std::set< T > >	MeshBorderVoronoi (const AimsSurface< 3, Void > &mesh, const Texture< T > &inittex, const std::set< T > &setBack, const std::set< T > &setFor)
	Extract the boundarie of a voronoi diagram i.e. More...

template<class T >
Texture< std::set< T > >	gyrusSeedDefinition (const AimsSurface< 3, Void > &mesh, const Texture< T > &inittex, const std::set< T > &setBack, const std::set< T > &setFor, const std::set< std::set< T > > &labelAllowed)
	Define the gyrus seed from the SKIZ. More...

template<class T >
Texture< T >	gyrusSeedDilationInSKIZ (const AimsSurface< 3, Void > &mesh, const Texture< T > &seed, const Texture< T > &skiz, const T &Back, const T &For)

template<class T >
Texture< short >	border2Texture (const Texture< std::set< T > > &tex, const AimsSurface< 3, Void > &mesh, const std::set< T > &setBack, const std::set< T > &setFor)
	Convert a multidimensional boundary map to a texture of short. More...

Texture< std::set< short > >	MeshVoronoi2Set (const AimsSurface< 3, Void > &mesh, const Texture< std::set< short > > &inittex, const Texture< short > &sulcitex, bool connexity)

template<class T , class U >
Texture< short >	Voronoi2toTexture (const Texture< std::set< T > > &vor, const AimsSurface< 3, Void > &mesh, const std::set< T > &setBack, const std::set< T > &setFor)

AimsSurfaceTriangle	MakePlaneMesh (unsigned n, Point3df Xi, Point3df Xf)

template<class T >
std::map< T, float >	SurfaceParcel (const Texture< T > &tex, const AimsSurface< 3, Void > &mesh)
	Give the surface of labelled parcels defined from textures. More...

template<class T >
std::map< T, float >	VolumeParcel (const AimsData< T > &vol)
	Give the surface of labelled parcels defined from volume. More...

std::set< std::pair< short, short > >	ModelGraph2Boundaries (const Graph &g, const std::map< std::string, short > &traduction)

std::set< std::set< short > >	gyrusHierarchy2setBoundaries (const std::map< std::string, short > &trans, const Graph &g)

std::set< std::set< short > >	GyrusModel2SetOfSetOfSulci (const std::map< std::string, std::set< std::string > > &gyriAndSulci, const std::map< std::string, short > &trans)

std::set< std::string >	GyrusModel2SetOfSulci (const char *model, const std::set< std::string > &existingName)

std::set< std::string >	GyrusModel2SetOfSulci (const std::map< std::string, std::set< std::string > > &gyriAndSulci, const std::set< std::string > &existingName)

std::map< std::string, std::set< std::string > >	GyrusModel2GyriAndSulci (const std::string &model)

TimeTexture< short >	SulcusVolume2Texture (const AimsSurface< 3, Void > &mesh, const Texture< float > &curvtex, const AimsData< short > &bottom_vol, const AimsData< short > &surface_vol, float alpha, float dmin, int MINCC, const std::map< short, std::string > &trans, const std::set< std::string > &labels, float maxdil, float maxdil_mesh, float alpha_reg, bool connexity, const std::vector< std::list< unsigned > > &neigho)
	Projection of the voxels relative to the bottom of the sulci to the edges of a triangulation. More...

TimeTexture< short >	SulcusVolume2Texture (const AimsSurface< 3, Void > &mesh, const AimsData< short > &bottom_vol, const AimsData< short > &surface_vol, const Point3df &CA, float demin, float dpmin, int MINCC, const std::map< short, std::string > &trans, const std::set< std::string > &labels, float maxdil, float maxdil_mesh, float alpha_reg, bool connexity, const std::vector< std::list< unsigned > > &neigho)
	Use interpolation plane to project the sulcal line. More...

Texture< short >	FirstSulciProjectionWithCurvatureMap (const AimsData< short > &ccvol, const AimsData< short > &sulcvol, const AimsSurface< 3, Void > &mesh, std::set< short > &cc_sulci_labels, std::map< short, short > &tri_sulci, std::map< unsigned, Point3dfSet > &cc_sulci_coord, std::map< Point3df, Point3df, Point3dfCompare > &initend, const Texture< float > &curvtex, float alpha, float dmin)

Texture< short >	FirstSulciProjectionWithInterpolationPlane (const AimsData< short > &ccvol, const AimsData< short > &sulcvol, const AimsSurface< 3, Void > &mesh, std::set< short > &cc_sulci_labels, std::map< short, short > &tri_sulci, const std::map< Point3df, Point3dfSet, Point3dfCompare > &neigh, std::map< unsigned, Point3dfSet > &cc_sulci_coord, std::map< Point3df, Point3df, Point3dfCompare > &initend, float demin, float dpmin, short label_insula_left, short label_insula_right, const Point3df &CA)

void	AffinePointProjection (Texture< short > &tex, const AimsSurface< 3, Void > &mesh, const std::map< Point3df, Point3df, Point3dfCompare > &initend, const Point3dfSet &setpointi, short label, float dmin, float alpha_reg)

AimsData< short >	MeshParcellation2Volume (const AimsData< short > &initVol, const Texture< short > &tex, const AimsSurface< 3, Void > &mesh, short val_domain, short back)

Texture< short >	VolumeParcellation2MeshParcellation (const AimsData< short > &initVol, const AimsSurface< 3, Void > &mesh, short back)

void	NeighbourInCC (std::map< Point3df, Point3dfSet, Point3dfCompare > &neigh, const AimsData< short > &bvol, const AimsData< short > &svol, Connectivity::Type connectivity, short label, const unsigned size_neigh, unsigned max_points=50)
	Give the neighbours of a point The neighbours have the same label as the point. More...

std::pair< Point3df, Point3df >	NormalFromPoints (const Point3dfSet &init_point)

Point3df	NormalFromPoints (const Point3df &pt, const Point3dfSet &init_point)

Point3df	cross (const Point3df &A, const Point3df &B)

Point3df	IntersectionPointOfPlanAndLine (const Point3df &s1, const Point3df &s2, const Point3df &s3, const Point3df &direction_line, const Point3df &pt)

float	DistancePointToPlane (const Point3df &A, const std::pair< Point3df, Point3df > &plane)

float	DistancePointToLine (const Point3df &A, const std::pair< Point3df, Point3df > &line)

Point3df	meanNormalofCC (const std::vector< Point3df > &cc, const Point3dfNeigh &neigh, unsigned MIN_NEIGH)

void	SulcusOperture (const AimsSurface< 3, Void > &mesh, std::map< Point3df, std::pair< float, float >, Point3dfCompare > &sulci2mesh, const AimsData< short > &surface_vol, const float demin, const float dpmin, const unsigned MINCC, const std::map< short, std::string > &trans, const std::set< std::string > &labels)

void	ClosestMeshTrianglesFromSulcusVoxel (const Point3df &pt, const std::pair< Point3df, Point3df > &bipoint, Point3df &n_sulci, float &dmn, float &dmp, float demin, float dpmin, const AimsSurface< 3, Void > &mesh)

void	ClosestMeshNodesFromSulcusVoxel (const Point3df &pt, const std::pair< Point3df, Point3df > &bipoint, Point3df &n0, float demin, float dpmin, float &dmn, float &dmp, const AimsSurface< 3, Void > &mesh)

AimsData< float >	OpertureParameters (const AimsSurface< 3, Void > &mesh, const std::map< Point3df, std::pair< float, float >, Point3dfCompare > &sulci2mesh, const AimsData< short > &vol)

void	CCOperture (const std::vector< Point3df > &cc, const AimsSurface< 3, Void > &mesh, const Point3dfNeigh &neigh, std::map< Point3df, std::pair< float, float >, Point3dfCompare > &sulci2mesh, const float demin, const float dpmin)

std::set< unsigned >	SubMesh (const AimsSurface< 3, Void > &mesh, const Point3df &bbmin, const Point3df &bbmax)

float	max (float x, float y)

float	min (float x, float y)

Point3df	Point3dfMax (const Point3df &X, const Point3df &Y)

Point3df	Point3dfMin (const Point3df &X, const Point3df &Y)

Variables
const short	MESHDISTANCE_FORBIDDEN
	global variable... More...

const short	MESHDISTANCE_UNREACHED

Function Documentation

◆ AffinePointProjection()

void aims::meshdistance::AffinePointProjection	(	Texture< short > &	tex,
		const AimsSurface< 3, Void > &	mesh,
		const std::map< Point3df, Point3df, Point3dfCompare > &	initend,
		const Point3dfSet &	setpointi,
		short	label,
		float	dmin,
		float	alpha_reg
	)

◆ border2Texture()

template<class T >

Texture< short > aims::meshdistance::border2Texture	(	const Texture< std::set< T > > &	tex,
		const AimsSurface< 3, Void > &	mesh,
		const std::set< T > &	setBack,
		const std::set< T > &	setFor
	)

Convert a multidimensional boundary map to a texture of short.

Definition at line 293 of file meshparcellation_d.h.

References Texture< T >::item(), and AimsSurface< D, T >::vertex().

◆ CCOperture()

void aims::meshdistance::CCOperture	(	const std::vector< Point3df > &	cc,
		const AimsSurface< 3, Void > &	mesh,
		const Point3dfNeigh &	neigh,
		std::map< Point3df, std::pair< float, float >, Point3dfCompare > &	sulci2mesh,
		const float	demin,
		const float	dpmin
	)

◆ ClosestMeshNodesFromSulcusVoxel()

void aims::meshdistance::ClosestMeshNodesFromSulcusVoxel	(	const Point3df &	pt,
		const std::pair< Point3df, Point3df > &	bipoint,
		Point3df &	n0,
		float	demin,
		float	dpmin,
		float &	dmn,
		float &	dmp,
		const AimsSurface< 3, Void > &	mesh
	)

◆ ClosestMeshTrianglesFromSulcusVoxel()

void aims::meshdistance::ClosestMeshTrianglesFromSulcusVoxel	(	const Point3df &	pt,
		const std::pair< Point3df, Point3df > &	bipoint,
		Point3df &	n_sulci,
		float &	dmn,
		float &	dmp,
		float	demin,
		float	dpmin,
		const AimsSurface< 3, Void > &	mesh
	)

◆ CloseSulci() [1/2]

template<class T >

Texture< T > aims::meshdistance::CloseSulci	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< T > &	sulctex,
		float	nbDilMax,
		bool	connexity,
		const T &	Back,
		const T &	For,
		const std::vector< std::list< unsigned > > &	neigho,
		const std::set< T > &	label_forbidden
	)

inline

Close the sulcus map (dilation and skeletization).

All the labels/components are processed

Definition at line 429 of file meshmorphomat_d.h.

References AimsMeshLabelNbConnectedComponent(), HasHole(), Texture< T >::item(), MeshSkeletization(), NbOfPoint(), and AimsSurface< D, T >::vertex().

◆ CloseSulci() [2/2]

template<class T >

Texture< T > aims::meshdistance::CloseSulci	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< T > &	sulctex,
		float	nbDilMax,
		bool	connexity,
		const T &	Back,
		const T &	For,
		const std::vector< std::list< unsigned > > &	neigho
	)

inline

Definition at line 288 of file meshmorphomat_d.h.

References AimsMeshLabelNbConnectedComponent(), HasHole(), Texture< T >::item(), MeshSkeletization(), NbOfPoint(), and AimsSurface< D, T >::vertex().

◆ cross()

Point3df aims::meshdistance::cross	(	const Point3df &	A,
		const Point3df &	B
	)

inline

Definition at line 234 of file projection.h.

Referenced by DistancePointToLine(), aims::MixtureOfPPCA< T >::distComputation(), aims::ProbabilisticPcaElement::doIt(), aims::DiscriminantAnalysisElement::doIt(), aims::PpcaAnalyserElement::init(), IntersectionPointOfPlanAndLine(), aims::PpcaAnalyserElement::newStep1(), and aims::PpcaAnalyserElement::newStep2().

◆ DistancePointToLine()

float aims::meshdistance::DistancePointToLine	(	const Point3df &	A,
		const std::pair< Point3df, Point3df > &	line
	)

inline

Definition at line 334 of file projection.h.

References cross(), and AimsVector< T, D >::norm().

◆ DistancePointToPlane()

float aims::meshdistance::DistancePointToPlane	(	const Point3df &	A,
		const std::pair< Point3df, Point3df > &	plane
	)

inline

Definition at line 320 of file projection.h.

References AimsVector< T, D >::dot().

◆ FirstSulciProjectionWithCurvatureMap()

Texture<short> aims::meshdistance::FirstSulciProjectionWithCurvatureMap	(	const AimsData< short > &	ccvol,
		const AimsData< short > &	sulcvol,
		const AimsSurface< 3, Void > &	mesh,
		std::set< short > &	cc_sulci_labels,
		std::map< short, short > &	tri_sulci,
		std::map< unsigned, Point3dfSet > &	cc_sulci_coord,
		std::map< Point3df, Point3df, Point3dfCompare > &	initend,
		const Texture< float > &	curvtex,
		float	alpha,
		float	dmin
	)

◆ FirstSulciProjectionWithInterpolationPlane()

Texture<short> aims::meshdistance::FirstSulciProjectionWithInterpolationPlane	(	const AimsData< short > &	ccvol,
		const AimsData< short > &	sulcvol,
		const AimsSurface< 3, Void > &	mesh,
		std::set< short > &	cc_sulci_labels,
		std::map< short, short > &	tri_sulci,
		const std::map< Point3df, Point3dfSet, Point3dfCompare > &	neigh,
		std::map< unsigned, Point3dfSet > &	cc_sulci_coord,
		std::map< Point3df, Point3df, Point3dfCompare > &	initend,
		float	demin,
		float	dpmin,
		short	label_insula_left,
		short	label_insula_right,
		const Point3df &	CA
	)

◆ GeodesicDepth()

Texture<float> aims::meshdistance::GeodesicDepth	(	const AimsSurface< 3, Void > &	mesh,
		const AimsData< short > &	vol,
		float	radius_close,
		float	radius_erode
	)

Compute the geodesic depth of a triangulation The vol define the object and the background The radius-* are morphological parameter.

◆ gyrusHierarchy2setBoundaries()

std::set<std::set<short> > aims::meshdistance::gyrusHierarchy2setBoundaries	(	const std::map< std::string, short > &	trans,
		const Graph &	g
	)

◆ GyrusModel2GyriAndSulci()

std::map<std::string, std::set<std::string> > aims::meshdistance::GyrusModel2GyriAndSulci ( const std::string & model )

◆ GyrusModel2SetOfSetOfSulci()

std::set<std::set<short> > aims::meshdistance::GyrusModel2SetOfSetOfSulci	(	const std::map< std::string, std::set< std::string > > &	gyriAndSulci,
		const std::map< std::string, short > &	trans
	)

◆ GyrusModel2SetOfSulci() [1/2]

std::set<std::string> aims::meshdistance::GyrusModel2SetOfSulci	(	const char *	model,
		const std::set< std::string > &	existingName
	)

◆ GyrusModel2SetOfSulci() [2/2]

std::set<std::string> aims::meshdistance::GyrusModel2SetOfSulci	(	const std::map< std::string, std::set< std::string > > &	gyriAndSulci,
		const std::set< std::string > &	existingName
	)

◆ gyrusSeedDefinition()

template<class T >

Texture< std::set< T > > aims::meshdistance::gyrusSeedDefinition	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< T > &	inittex,
		const std::set< T > &	setBack,
		const std::set< T > &	setFor,
		const std::set< std::set< T > > &	labelAllowed
	)

Define the gyrus seed from the SKIZ.

Definition at line 56 of file meshparcellation_d.h.

References ASSERT, Texture< T >::item(), Texture< T >::nItem(), AimsSurface< D, T >::polygon(), and AimsSurface< D, T >::vertex().

◆ gyrusSeedDilationInSKIZ()

template<class T >

Texture< T > aims::meshdistance::gyrusSeedDilationInSKIZ	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< T > &	seed,
		const Texture< T > &	skiz,
		const T &	Back,
		const T &	For
	)

Definition at line 205 of file meshparcellation_d.h.

References ASSERT, Texture< T >::item(), MeshDilation(), Texture< T >::nItem(), and AimsSurface< D, T >::vertex().

◆ HasHole()

template<class T >

bool aims::meshdistance::HasHole	(	const Texture< T > &	tex,
		const AimsSurface< 3, Void > &	mesh,
		const T	label
	)

inline

Definition at line 602 of file meshmorphomat_d.h.

References ASSERT, Texture< T >::item(), Texture< T >::nItem(), AimsSurface< D, T >::polygon(), and AimsSurface< D, T >::vertex().

Referenced by CloseSulci().

◆ ImmortalPoint()

template<class T >

bool aims::meshdistance::ImmortalPoint	(	const Texture< T > &	tex,
		const std::list< unsigned > &	neigho
	)

inline

Tell if a point (whose ordonned neighbourhood is neigho) is immortal (squeletization)

Definition at line 668 of file meshmorphomat_d.h.

References Texture< T >::item().

Referenced by MeshSkeletization().

◆ IntersectionPointOfPlanAndLine()

Point3df aims::meshdistance::IntersectionPointOfPlanAndLine	(	const Point3df &	s1,
		const Point3df &	s2,
		const Point3df &	s3,
		const Point3df &	direction_line,
		const Point3df &	pt
	)

inline

Definition at line 251 of file projection.h.

References ASSERT, cross(), and AimsVector< T, D >::normalize().

◆ LineariseSulci()

template<class T >

Texture< T > aims::meshdistance::LineariseSulci	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< T > &	inittex,
		const T &	label,
		const T &	Back,
		const T &	For,
		unsigned &	min,
		unsigned &	max,
		unsigned	nbDil
	)

Definition at line 51 of file meshmorphomat_d.h.

References ASSERT, Texture< T >::item(), Texture< T >::nItem(), AimsSurface< D, T >::polygon(), and AimsSurface< D, T >::vertex().

◆ MakePlaneMesh()

AimsSurfaceTriangle aims::meshdistance::MakePlaneMesh	(	unsigned	n,
		Point3df	Xi,
		Point3df	Xf
	)

◆ max()

float aims::meshdistance::max	(	float	x,
		float	y
	)

inline

Definition at line 97 of file thickness.h.

Referenced by aims::AddBlobsToPSGraph(), aims::GreyLevelBlobTools< T >::Barycenter(), aims::MixtureOfPPCA< T >::classesVisualisation(), aims::clip(), aims::clipDynamic(), geodesic::cos_from_edges(), aims::ElementFilteringFunctionFactory< T >::create(), aims::MixtureOfPPCA< T >::distComputation(), aims::MorphoGreyLevel< T >::doDilation(), aims::MorphoGreyLevel< T >::doErosion(), AimsPCA::doIt(), aims::ProbabilisticPcaElement::doIt(), aims::DiscriminantAnalysisElement::doIt(), Equalizer< T >::doit(), aims::ProbabilisticPca< T >::fuzzyClassification(), PowellOptimizer< T, D >::getCostEvolution(), aims::PpcaAnalyserElement::init(), geodesic::Mesh::initialize_mesh_data(), geodesic::Edge::local_coordinates(), aims::knn::TchebychevDistance::operator()(), Point3dfMax(), aims::RoiStats::populate(), geodesic::GeodesicAlgorithmExact::propagate(), Transformation::setiterMax(), aims::setKernel(), SplitSulci(), geodesic::Mesh::update_weight(), and geodesic::GeodesicAlgorithmExact::~GeodesicAlgorithmExact().

◆ meanNormalofCC()

Point3df aims::meshdistance::meanNormalofCC	(	const std::vector< Point3df > &	cc,
		const Point3dfNeigh &	neigh,
		unsigned	MIN_NEIGH
	)

inline

Definition at line 349 of file projection.h.

References AimsVector< T, D >::dot(), AimsVector< T, D >::end(), MESHDISTANCE_FORBIDDEN, MESHDISTANCE_UNREACHED, NormalFromPoints(), and AimsVector< T, D >::normalize().

◆ MeshBorderVoronoi()

template<class T >

Texture< std::set< T > > aims::meshdistance::MeshBorderVoronoi	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< T > &	inittex,
		const std::set< T > &	setBack,
		const std::set< T > &	setFor
	)

Extract the boundarie of a voronoi diagram i.e.

compute the skiz

Definition at line 238 of file meshparcellation_d.h.

References ASSERT, Texture< T >::item(), Texture< T >::nItem(), AimsSurface< D, T >::polygon(), and AimsSurface< D, T >::vertex().

◆ MeshDilation()

template<class T >

Texture< T > aims::meshdistance::MeshDilation	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< T > &	inittex,
		const T &	Back,
		const T &	For,
		const float	dist,
		bool	connexity
	)

Definition at line 788 of file meshmorphomat_d.h.

Referenced by gyrusSeedDilationInSKIZ().

◆ MeshDilationStepbyStep()

TimeTexture<short> aims::meshdistance::MeshDilationStepbyStep	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< short > &	inittex,
		const float	dist,
		bool	connectivity
	)

◆ MeshDistance() [1/3]

template<class T >

Texture< float > aims::meshdistance::MeshDistance	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< T > &	inittex,
		bool	allowUnreached
	)

Definition at line 43 of file meshdistance_d.h.

References ASSERT, Texture< T >::item(), MESHDISTANCE_FORBIDDEN, MESHDISTANCE_UNREACHED, Texture< T >::nItem(), AimsSurface< D, T >::polygon(), Texture< T >::push_back(), Texture< T >::reserve(), and AimsSurface< D, T >::vertex().

Referenced by MeshSkeletization().

◆ MeshDistance() [2/3]

template Texture<float> aims::meshdistance::MeshDistance	(	const AimsSurface< 3, Void > &	,
		const Texture< short > &	,
		bool
	)

◆ MeshDistance() [3/3]

template Texture<float> aims::meshdistance::MeshDistance	(	const AimsSurface< 3, Void > &	,
		const Texture< float > &	,
		bool
	)

◆ MeshErosion()

template<class T >

Texture< T > aims::meshdistance::MeshErosion	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< T > &	inittex,
		const T &	Back,
		const T &	For,
		const float	dist,
		bool	connexity
	)

Definition at line 801 of file meshmorphomat_d.h.

◆ MeshErosionStepbyStep()

TimeTexture<short> aims::meshdistance::MeshErosionStepbyStep	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< short > &	inittex,
		const float	dist,
		bool	connectivity
	)

◆ MeshGreyDilation()

Texture<float> aims::meshdistance::MeshGreyDilation	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< float > &	inittex,
		const unsigned	dist
	)

◆ MeshGreyErosion()

Texture<float> aims::meshdistance::MeshGreyErosion	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< float > &	inittex,
		const unsigned	dist
	)

◆ MeshParcellation2Volume()

AimsData<short> aims::meshdistance::MeshParcellation2Volume	(	const AimsData< short > &	initVol,
		const Texture< short > &	tex,
		const AimsSurface< 3, Void > &	mesh,
		short	val_domain,
		short	back
	)

◆ MeshSkeletization()

template<class T >

Texture< T > aims::meshdistance::MeshSkeletization	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< T > &	inittex,
		T	label,
		T	Back,
		const std::vector< std::list< unsigned > > &	neigho
	)

Skeletization of the components of the innitex with label label.

neigho is the ordonned neighbourhood for each point. The output texture has only two labels : The background (0) and the object (label)

Definition at line 710 of file meshmorphomat_d.h.

References ImmortalPoint(), Texture< T >::item(), MeshDistance(), and AimsSurface< D, T >::vertex().

Referenced by CloseSulci().

◆ MeshVoronoi()

Texture<short> aims::meshdistance::MeshVoronoi	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< short > &	inittex,
		float	dist,
		bool	connexity,
		bool	object
	)

◆ MeshVoronoi2Set()

Texture<std::set<short> > aims::meshdistance::MeshVoronoi2Set	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< std::set< short > > &	inittex,
		const Texture< short > &	sulcitex,
		bool	connexity
	)

◆ MeshVoronoiStepbyStep()

TimeTexture<short> aims::meshdistance::MeshVoronoiStepbyStep	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< short > &	inittex,
		float	dist,
		bool	connexity,
		bool	object
	)

◆ MeshVoronoiT()

template<class T >

Texture< T > aims::meshdistance::MeshVoronoiT	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< T > &	inittex,
		const T &	Back,
		const T &	For,
		float	dist,
		bool	connexity,
		bool	object
	)

Compute a geodesic voronoi diagram (dist = MAX_FLOAT,object=true ) of objects defined in inittex.

The background has the label Back and the objects have a positive label. The distance can be euclidean geodesic (connexity=false) or just the connexity of the triangulation(connexity=true) This function can as well be used for dilation(object=true) / erosion(object=false) using the parameter dist as the size of the structuring element

Definition at line 59 of file meshvoronoi_d.h.

References ASSERT, Texture< T >::item(), MESHDISTANCE_FORBIDDEN, Texture< T >::nItem(), AimsSurface< D, T >::polygon(), Texture< T >::push_back(), Texture< T >::reserve(), and AimsSurface< D, T >::vertex().

◆ min()

float aims::meshdistance::min	(	float	x,
		float	y
	)

inline

Definition at line 105 of file thickness.h.

Referenced by Pyramid< T >::_build(), aims::AddBlobsToPSGraph(), aims::KmeansStrategy< T >::aggregate(), aims::clip(), aims::clipDynamic(), geodesic::cos_from_edges(), aims::ElementFilteringFunctionFactory< T >::create(), aims::MorphoGreyLevel< T >::doDilation(), aims::MorphoGreyLevel< T >::doErosion(), Equalizer< T >::doit(), geodesic::Mesh::initialize_mesh_data(), Point3dfMin(), aims::RoiStats::populate(), geodesic::GeodesicAlgorithmExact::propagate(), SplitSulci(), geodesic::Mesh::update_weight(), and geodesic::GeodesicAlgorithmExact::~GeodesicAlgorithmExact().

◆ ModelGraph2Boundaries()

std::set<std::pair<short,short> > aims::meshdistance::ModelGraph2Boundaries	(	const Graph &	g,
		const std::map< std::string, short > &	traduction
	)

◆ NbOfPoint()

template<class T >

unsigned aims::meshdistance::NbOfPoint	(	const Texture< T >	tex,
		const T	label
	)

inline

Definition at line 697 of file meshmorphomat_d.h.

References Texture< T >::item(), and Texture< T >::nItem().

Referenced by CloseSulci().

◆ NeighbourInCC()

void aims::meshdistance::NeighbourInCC	(	std::map< Point3df, Point3dfSet, Point3dfCompare > &	neigh,
		const AimsData< short > &	bvol,
		const AimsData< short > &	svol,
		Connectivity::Type	connectivity,
		short	label,
		const unsigned	size_neigh,
		unsigned	max_points = `50`
	)

Give the neighbours of a point The neighbours have the same label as the point.

◆ NormalFromPoints() [1/2]

std::pair<Point3df,Point3df> aims::meshdistance::NormalFromPoints ( const Point3dfSet & init_point )

inline

Definition at line 153 of file projection.h.

References AimsEigen< T >::doit(), and AimsEigen< T >::sort().

Referenced by meanNormalofCC().

◆ NormalFromPoints() [2/2]

Point3df aims::meshdistance::NormalFromPoints	(	const Point3df &	pt,
		const Point3dfSet &	init_point
	)

inline

Definition at line 197 of file projection.h.

References AimsEigen< T >::doit(), AimsVector< T, D >::normalize(), and AimsEigen< T >::sort().

◆ OpertureParameters()

AimsData<float> aims::meshdistance::OpertureParameters	(	const AimsSurface< 3, Void > &	mesh,
		const std::map< Point3df, std::pair< float, float >, Point3dfCompare > &	sulci2mesh,
		const AimsData< short > &	vol
	)

◆ Point3dfMax()

Point3df aims::meshdistance::Point3dfMax	(	const Point3df &	X,
		const Point3df &	Y
	)

inline

Definition at line 113 of file thickness.h.

References max().

◆ Point3dfMin()

Point3df aims::meshdistance::Point3dfMin	(	const Point3df &	X,
		const Point3df &	Y
	)

inline

Definition at line 122 of file thickness.h.

References min().

◆ SimplePoint()

template<class T >

bool aims::meshdistance::SimplePoint	(	const Texture< T > &	tex,
		const std::list< unsigned > &	neigho
	)

inline

Tell if a point (whose ordonned neighbourhood is neigho) is simple.

Definition at line 577 of file meshmorphomat_d.h.

References Texture< T >::item().

◆ SplitSulci()

template<class T >

Texture< T > aims::meshdistance::SplitSulci	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< T > &	inittex,
		const T &	Back,
		const T &	For,
		const T	label,
		const unsigned	min,
		const unsigned	max
	)

Definition at line 211 of file meshmorphomat_d.h.

References AimsMeshLabelNbConnectedComponent(), ASSERT, Texture< T >::item(), max(), min(), Texture< T >::nItem(), AimsSurface< D, T >::polygon(), split(), and AimsSurface< D, T >::vertex().

◆ SubMesh()

std::set<unsigned> aims::meshdistance::SubMesh	(	const AimsSurface< 3, Void > &	mesh,
		const Point3df &	bbmin,
		const Point3df &	bbmax
	)

◆ SulcusOperture()

void aims::meshdistance::SulcusOperture	(	const AimsSurface< 3, Void > &	mesh,
		std::map< Point3df, std::pair< float, float >, Point3dfCompare > &	sulci2mesh,
		const AimsData< short > &	surface_vol,
		const float	demin,
		const float	dpmin,
		const unsigned	MINCC,
		const std::map< short, std::string > &	trans,
		const std::set< std::string > &	labels
	)

◆ SulcusVolume2Texture() [1/2]

TimeTexture<short> aims::meshdistance::SulcusVolume2Texture	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< float > &	curvtex,
		const AimsData< short > &	bottom_vol,
		const AimsData< short > &	surface_vol,
		float	alpha,
		float	dmin,
		int	MINCC,
		const std::map< short, std::string > &	trans,
		const std::set< std::string > &	labels,
		float	maxdil,
		float	maxdil_mesh,
		float	alpha_reg,
		bool	connexity,
		const std::vector< std::list< unsigned > > &	neigho
	)

Projection of the voxels relative to the bottom of the sulci to the edges of a triangulation.

The curvature of the triangulation is taken into account. The label of the projected sulci is the same as the initial label. Use a curvature or a depth map to project the sulcal line

◆ SulcusVolume2Texture() [2/2]

TimeTexture<short> aims::meshdistance::SulcusVolume2Texture	(	const AimsSurface< 3, Void > &	mesh,
		const AimsData< short > &	bottom_vol,
		const AimsData< short > &	surface_vol,
		const Point3df &	CA,
		float	demin,
		float	dpmin,
		int	MINCC,
		const std::map< short, std::string > &	trans,
		const std::set< std::string > &	labels,
		float	maxdil,
		float	maxdil_mesh,
		float	alpha_reg,
		bool	connexity,
		const std::vector< std::list< unsigned > > &	neigho
	)

Use interpolation plane to project the sulcal line.

◆ SurfaceParcel()

template<class T >

std::map< T, float > aims::meshdistance::SurfaceParcel	(	const Texture< T > &	tex,
		const AimsSurface< 3, Void > &	mesh
	)

Give the surface of labelled parcels defined from textures.

Definition at line 406 of file meshparcellation_d.h.

References ASSERT, AimsVector< T, D >::dot(), Texture< T >::item(), Texture< T >::nItem(), norm(), norm2(), AimsSurface< D, T >::polygon(), and AimsSurface< D, T >::vertex().

◆ VolumeParcel()

template<class T >

std::map< T, float > aims::meshdistance::VolumeParcel ( const AimsData< T > & vol )

Give the surface of labelled parcels defined from volume.

Definition at line 456 of file meshparcellation_d.h.

References ForEach3d, AimsData< T >::sizeX(), AimsData< T >::sizeY(), and AimsData< T >::sizeZ().

◆ VolumeParcellation2MeshParcellation()

Texture<short> aims::meshdistance::VolumeParcellation2MeshParcellation	(	const AimsData< short > &	initVol,
		const AimsSurface< 3, Void > &	mesh,
		short	back
	)

◆ Voronoi2toTexture()

template<class T , class U >

Texture< short > aims::meshdistance::Voronoi2toTexture	(	const Texture< std::set< T > > &	vor,
		const AimsSurface< 3, Void > &	mesh,
		const std::set< T > &	setBack,
		const std::set< T > &	setFor
	)

Definition at line 349 of file meshparcellation_d.h.

References ASSERT, Texture< T >::item(), MESHDISTANCE_FORBIDDEN, and AimsSurface< D, T >::vertex().

Variable Documentation

◆ MESHDISTANCE_FORBIDDEN

const short aims::meshdistance::MESHDISTANCE_FORBIDDEN

global variable...

Definition at line 85 of file meshvoronoi.h.

Referenced by meanNormalofCC(), MeshDistance(), MeshVoronoiT(), and Voronoi2toTexture().

◆ MESHDISTANCE_UNREACHED

const short aims::meshdistance::MESHDISTANCE_UNREACHED

Definition at line 86 of file meshvoronoi.h.

Referenced by meanNormalofCC(), and MeshDistance().

Functions

Variables

Function Documentation

◆ AffinePointProjection()

◆ border2Texture()

◆ CCOperture()

◆ ClosestMeshNodesFromSulcusVoxel()

◆ ClosestMeshTrianglesFromSulcusVoxel()

◆ CloseSulci() [1/2]

◆ CloseSulci() [2/2]

◆ cross()

◆ DistancePointToLine()

◆ DistancePointToPlane()

◆ FirstSulciProjectionWithCurvatureMap()

◆ FirstSulciProjectionWithInterpolationPlane()

◆ GeodesicDepth()

◆ gyrusHierarchy2setBoundaries()

◆ GyrusModel2GyriAndSulci()

◆ GyrusModel2SetOfSetOfSulci()

◆ GyrusModel2SetOfSulci() [1/2]

◆ GyrusModel2SetOfSulci() [2/2]

◆ gyrusSeedDefinition()

◆ gyrusSeedDilationInSKIZ()

◆ HasHole()

◆ ImmortalPoint()

◆ IntersectionPointOfPlanAndLine()

◆ LineariseSulci()

◆ MakePlaneMesh()

◆ max()

◆ meanNormalofCC()

◆ MeshBorderVoronoi()

◆ MeshDilation()

◆ MeshDilationStepbyStep()

◆ MeshDistance() [1/3]

◆ MeshDistance() [2/3]

◆ MeshDistance() [3/3]

◆ MeshErosion()

◆ MeshErosionStepbyStep()

◆ MeshGreyDilation()

◆ MeshGreyErosion()

◆ MeshParcellation2Volume()

◆ MeshSkeletization()

◆ MeshVoronoi()

◆ MeshVoronoi2Set()

◆ MeshVoronoiStepbyStep()

◆ MeshVoronoiT()

◆ min()

◆ ModelGraph2Boundaries()

◆ NbOfPoint()

◆ NeighbourInCC()

◆ NormalFromPoints() [1/2]

◆ NormalFromPoints() [2/2]

◆ OpertureParameters()

◆ Point3dfMax()

◆ Point3dfMin()

◆ SimplePoint()

◆ SplitSulci()

◆ SubMesh()

◆ SulcusOperture()

◆ SulcusVolume2Texture() [1/2]

◆ SulcusVolume2Texture() [2/2]

◆ SurfaceParcel()

◆ VolumeParcel()

◆ VolumeParcellation2MeshParcellation()

◆ Voronoi2toTexture()

Variable Documentation

◆ MESHDISTANCE_FORBIDDEN

◆ MESHDISTANCE_UNREACHED