#include <aims/mesh/surfacemanip.h>

Static Public Member Functions
template<int D, class T >
static std::vector< std::set< uint > >	surfaceNeighbours (const AimsSurface< D, T > &surf)

template<int D, class T >
static std::vector< std::set< uint > >	surfaceNeighbours (const AimsTimeSurface< D, T > &surf)

template<int D, class T >
static std::vector< std::set< uint > >	surfaceNeighbours2ndOrder (const AimsTimeSurface< D, T > &surf)

template<int D, class T >
static std::vector< std::map< uint, float > >	surfaceNeighbourDistance (const AimsTimeSurface< D, T > &surf)

template<int D, class T >
static void	invertSurfacePolygons (AimsTimeSurface< D, T > &surface)

static void	cutMesh (const AimsSurfaceTriangle &insurf, const Point4df &plane, AimsSurfaceTriangle &cut, AimsTimeSurface< 2, Void > &borderline)

static void	cutMesh (const std::vector< const AimsSurfaceTriangle *> &insurf, const Point4df &plane, std::vector< carto::rc_ptr< AimsSurfaceTriangle > > &cut, AimsTimeSurface< 2, Void > &borderline)

static void	cutMesh (const AimsSurfaceTriangle &insurf, const Point4df &plane, AimsSurfaceTriangle &cut, AimsSurfaceTriangle &planemesh, bool checkplane=true)

static void	cutMesh (const std::vector< const AimsSurfaceTriangle *> &insurf, const Point4df &plane, std::vector< carto::rc_ptr< AimsSurfaceTriangle > > &cut, AimsSurfaceTriangle &planemesh, bool checkplane=true)

static void	cutMesh (const AimsSurfaceTriangle &insurf, const Point4df &plane, AimsSurfaceTriangle &cut, AimsSurfaceTriangle &planemesh, AimsTimeSurface< 2, Void > &borderline, bool checkplane=true)

static void	cutMesh (const std::vector< const AimsSurfaceTriangle *> &insurf, const Point4df &plane, std::vector< carto::rc_ptr< AimsSurfaceTriangle > > &cut, AimsSurfaceTriangle &planemesh, AimsTimeSurface< 2, Void > &borderline, bool checkplane=true)

static void	cutMesh (const AimsSurfaceTriangle &insurf, const Point4df &plane, AimsSurfaceTriangle &cut, AimsSurfaceTriangle &planemesh, AimsTimeSurface< 2, Void > &borderline, bool meshplane, bool checkplane)

static void	cutMesh (const std::vector< const AimsSurfaceTriangle *> &insurf, const Point4df &plane, std::vector< carto::rc_ptr< AimsSurfaceTriangle > > &cut, AimsSurfaceTriangle &planemesh, AimsTimeSurface< 2, Void > &borderline, bool meshplane, bool checkplane)

static void	cutMesh (const AimsSurfaceTriangle &insurf, const Point4df &plane, AimsTimeSurface< 2, Void > &borderline, int timestep=0)
	This variant only computes the border line. More...

static void	cutMesh (const AimsSurface< 3, Void > &insurf, const Point4df &plane, AimsTimeSurface< 2, Void > &borderline)
	This variant only computes the border line. More...

static void	meshPlanarPolygon (const Point4df &plane, const AimsTimeSurface< 2, Void > &border, AimsSurfaceTriangle &outmesh)

static bool	checkMesh (const AimsSurfaceTriangle &insurf, AimsSurfaceTriangle *outsurf=0)
	Check mesh for intersecting triangles. More...

static float	meshArea (const AimsSurfaceTriangle &surf)

static float	meshArea (const AimsSurface< 3, Void > &surf)

static float	meshVolume (const AimsSurfaceTriangle &surf)

static float	meshVolume (const AimsSurface< 3, Void > &surf)

template<int D, class T >
static void	meshMerge (AimsTimeSurface< D, T > &dst, const AimsTimeSurface< D, T > &add)
	concatenates 2 meshes into one (adds the second to the first one) More...

template<int D, class T >
static void	meshMerge (AimsTimeSurface< D, T > &dst, const std::list< AimsTimeSurface< D, T > > &src)
	concatenates several meshes (src) into a single one (dst) More...

template<int D, typename T >
static void	meshTransform (AimsTimeSurface< D, T > &mesh, const Motion &trans)
	Applies a transformation to a mesh. More...

template<int D, typename T >
static AimsTimeSurface< D, T > *	meshExtract (const AimsTimeSurface< D, T > &mesh, const TimeTexture< int16_t > &tex, int16_t value, std::vector< size_t > **overtIndex=0)

template<typename T >
static AimsSurface< 2, Void > *	meshTextureBoundary (const AimsSurface< 3, Void > &mesh, const Texture< T > &tex, T region)
	Extracts the boundary of region of value <region> of the input texture, on the mesh. More...

template<typename T >
static AimsTimeSurface< 2, Void > *	meshTextureBoundary (const AimsSurfaceTriangle &mesh, const TimeTexture< T > &tex, T region)
	Extracts the boundary of region of value <region> of the input texture, on the mesh. More...

static Point3df	nearestPointToMesh (const Point3df &pos, const AimsSurfaceTriangle &mesh, unsigned nneighbours=1, unsigned *index=0)
	computes the position of the point in the mesh nearest to the given position, averaging across the nneighbours nearest vertices. More...

static AimsSurfaceTriangle *	refineMeshTri4 (const AimsSurfaceTriangle &mesh, const std::vector< uint > &selectedPolygons=std::vector< uint >())
	Refine a mesh by subdivising every triangle into 4 smaller ones. More...

template<int D, typename T >
static TimeTexture< float > *	meshDensity (const AimsTimeSurface< D, T > &mesh, bool asDistance=false)
	Calculate a mesh density: inverse of the average edges distance If asDistance is true, then the average distance is returned instead of the density. More...

template<int D, typename T >
static TimeTexture< float > *	meshEdgeLengthRatioTexture (const AimsTimeSurface< D, T > &nummesh, const AimsTimeSurface< D, T > &denommesh)
	Calculate an edge length ratio in edges of two meshes with the same topology. More...

static bool	checkMeshIntersect (const AimsSurfaceTriangle &, const AimsSurfaceTriangle &)
	Checks if two meshes intersect. More...

static std::vector< Point3df > *	lineDirections (const AimsTimeSurface< 2, Void > &)
	calculate directions of a line mesh, fora each vertex More...

template<int D, typename T >
static void	sortPolygonsAlongDirection (AimsTimeSurface< D, T > &mesh, int timestep, const Point3df &direction)
	Sort polygons along a given direction. More...

template<int D, typename T >
static void	rasterizeMeshWireframe (const AimsTimeSurface< D, T > &mesh, carto::rc_ptr< carto::Volume< int16_t > > &volume, int value=1)
	Rasterize polygons edges into a volume. More...

static void	rasterizeMesh (const AimsTimeSurface< 3, Void > &mesh, carto::rc_ptr< carto::Volume< int16_t > > &volume, int value=2)
	Rasterize polygons into a volume. More...

template<typename T >
static void	rasterizeLine (const Point3df &p0, const Point3df &direction, float lmax, T &volume, int value)
	T should be carto::Volume<int16_t> or BucketMap<Void>::Bucket. More...

Detailed Description

Definition at line 61 of file surfacemanip.h.

Member Function Documentation

◆ checkMesh()

static bool aims::SurfaceManip::checkMesh	(	const AimsSurfaceTriangle &	insurf,
		AimsSurfaceTriangle *	outsurf = `0`
	)

static

Check mesh for intersecting triangles.

If outsurf is not null and intersecting triangles do exist, outsurf is used to store a corrected mesh

◆ checkMeshIntersect()

static bool aims::SurfaceManip::checkMeshIntersect	(	const AimsSurfaceTriangle &	,
		const AimsSurfaceTriangle &
	)

static

Checks if two meshes intersect.

◆ cutMesh() [1/10]

static void aims::SurfaceManip::cutMesh	(	const AimsSurfaceTriangle &	insurf,
		const Point4df &	plane,
		AimsSurfaceTriangle &	cut,
		AimsTimeSurface< 2, Void > &	borderline
	)

static

◆ cutMesh() [2/10]

static void aims::SurfaceManip::cutMesh	(	const std::vector< const AimsSurfaceTriangle *> &	insurf,
		const Point4df &	plane,
		std::vector< carto::rc_ptr< AimsSurfaceTriangle > > &	cut,
		AimsTimeSurface< 2, Void > &	borderline
	)

static

◆ cutMesh() [3/10]

static void aims::SurfaceManip::cutMesh	(	const AimsSurfaceTriangle &	insurf,
		const Point4df &	plane,
		AimsSurfaceTriangle &	cut,
		AimsSurfaceTriangle &	planemesh,
		bool	checkplane = `true`
	)

static

◆ cutMesh() [4/10]

static void aims::SurfaceManip::cutMesh	(	const std::vector< const AimsSurfaceTriangle *> &	insurf,
		const Point4df &	plane,
		std::vector< carto::rc_ptr< AimsSurfaceTriangle > > &	cut,
		AimsSurfaceTriangle &	planemesh,
		bool	checkplane = `true`
	)

static

◆ cutMesh() [5/10]

static void aims::SurfaceManip::cutMesh	(	const AimsSurfaceTriangle &	insurf,
		const Point4df &	plane,
		AimsSurfaceTriangle &	cut,
		AimsSurfaceTriangle &	planemesh,
		AimsTimeSurface< 2, Void > &	borderline,
		bool	checkplane = `true`
	)

static

◆ cutMesh() [6/10]

static void aims::SurfaceManip::cutMesh	(	const std::vector< const AimsSurfaceTriangle *> &	insurf,
		const Point4df &	plane,
		std::vector< carto::rc_ptr< AimsSurfaceTriangle > > &	cut,
		AimsSurfaceTriangle &	planemesh,
		AimsTimeSurface< 2, Void > &	borderline,
		bool	checkplane = `true`
	)

static

◆ cutMesh() [7/10]

static void aims::SurfaceManip::cutMesh	(	const AimsSurfaceTriangle &	insurf,
		const Point4df &	plane,
		AimsSurfaceTriangle &	cut,
		AimsSurfaceTriangle &	planemesh,
		AimsTimeSurface< 2, Void > &	borderline,
		bool	meshplane,
		bool	checkplane
	)

static

◆ cutMesh() [8/10]

static void aims::SurfaceManip::cutMesh	(	const std::vector< const AimsSurfaceTriangle *> &	insurf,
		const Point4df &	plane,
		std::vector< carto::rc_ptr< AimsSurfaceTriangle > > &	cut,
		AimsSurfaceTriangle &	planemesh,
		AimsTimeSurface< 2, Void > &	borderline,
		bool	meshplane,
		bool	checkplane
	)

static

◆ cutMesh() [9/10]

static void aims::SurfaceManip::cutMesh	(	const AimsSurfaceTriangle &	insurf,
		const Point4df &	plane,
		AimsTimeSurface< 2, Void > &	borderline,
		int	timestep = `0`
	)

static

This variant only computes the border line.

◆ cutMesh() [10/10]

static void aims::SurfaceManip::cutMesh	(	const AimsSurface< 3, Void > &	insurf,
		const Point4df &	plane,
		AimsTimeSurface< 2, Void > &	borderline
	)

static

This variant only computes the border line.

◆ invertSurfacePolygons()

template<int D, class T >

void aims::SurfaceManip::invertSurfacePolygons ( AimsTimeSurface< D, T > & surface )

static

Definition at line 134 of file surfacemanip_d.h.

References AimsSurface< D, T >::polygon().

Referenced by meshTransform().

◆ lineDirections()

static std::vector<Point3df>* aims::SurfaceManip::lineDirections ( const AimsTimeSurface< 2, Void > & )

static

calculate directions of a line mesh, fora each vertex

◆ meshArea() [1/2]

static float aims::SurfaceManip::meshArea ( const AimsSurfaceTriangle & surf )

static

◆ meshArea() [2/2]

static float aims::SurfaceManip::meshArea ( const AimsSurface< 3, Void > & surf )

static

◆ meshDensity()

template<int D, typename T >

TimeTexture< float > * aims::SurfaceManip::meshDensity	(	const AimsTimeSurface< D, T > &	mesh,
		bool	asDistance = `false`
	)

static

Calculate a mesh density: inverse of the average edges distance If asDistance is true, then the average distance is returned instead of the density.

Definition at line 371 of file surfacemanip_d.h.

References norm(), AimsSurface< D, T >::polygon(), and AimsSurface< D, T >::vertex().

◆ meshEdgeLengthRatioTexture()

template<int D, typename T >

TimeTexture< float > * aims::SurfaceManip::meshEdgeLengthRatioTexture	(	const AimsTimeSurface< D, T > &	nummesh,
		const AimsTimeSurface< D, T > &	denommesh
	)

static

Calculate an edge length ratio in edges of two meshes with the same topology.

The max length ratios of edges is kept for each vertex

Definition at line 433 of file surfacemanip_d.h.

References norm(), AimsSurface< D, T >::polygon(), and AimsSurface< D, T >::vertex().

◆ meshExtract()

template<int D, typename T >

AimsTimeSurface< D, T > * aims::SurfaceManip::meshExtract	(	const AimsTimeSurface< D, T > &	mesh,
		const TimeTexture< int16_t > &	tex,
		int16_t	value,
		std::vector< size_t > **	overtIndex = `0`
	)

static

Definition at line 246 of file surfacemanip_d.h.

References norm(), norm2(), AimsSurface< D, T >::normal(), AimsTimeSurface< D, T >::normal(), nt, AimsSurface< D, T >::polygon(), AimsTimeSurface< D, T >::polygon(), AimsSurface< D, T >::vertex(), and AimsTimeSurface< D, T >::vertex().

◆ meshMerge() [1/2]

template<int D, class T >

void aims::SurfaceManip::meshMerge	(	AimsTimeSurface< D, T > &	dst,
		const AimsTimeSurface< D, T > &	add
	)

static

concatenates 2 meshes into one (adds the second to the first one)

Definition at line 159 of file surfacemanip_d.h.

References AimsTimeSurface< D, T >::header(), norm(), norm2(), AimsSurface< D, T >::normal(), AimsSurface< D, T >::polygon(), carto::TypedObject< T >::setProperty(), and AimsSurface< D, T >::vertex().

Referenced by meshMerge().

◆ meshMerge() [2/2]

template<int D, class T >

void aims::SurfaceManip::meshMerge	(	AimsTimeSurface< D, T > &	dst,
		const std::list< AimsTimeSurface< D, T > > &	src
	)

static

concatenates several meshes (src) into a single one (dst)

Definition at line 196 of file surfacemanip_d.h.

References AimsTimeSurface< D, T >::erase(), and meshMerge().

◆ meshPlanarPolygon()

static void aims::SurfaceManip::meshPlanarPolygon	(	const Point4df &	plane,
		const AimsTimeSurface< 2, Void > &	border,
		AimsSurfaceTriangle &	outmesh
	)

static

◆ meshTextureBoundary() [1/2]

template<typename T >

AimsSurface< 2, Void > * aims::SurfaceManip::meshTextureBoundary	(	const AimsSurface< 3, Void > &	mesh,
		const Texture< T > &	tex,
		T	region
	)

static

Extracts the boundary of region of value <region> of the input texture, on the mesh.

If region is negative, take boundaries of all regions. The input texture is a label texture.

Definition at line 529 of file surfacemanip_d.h.

References AimsSurface< D, T >::polygon(), aims::internal::take_mid_point_and_insert(), and AimsSurface< D, T >::vertex().

Referenced by meshTextureBoundary().

◆ meshTextureBoundary() [2/2]

template<typename T >

AimsTimeSurface< 2, Void > * aims::SurfaceManip::meshTextureBoundary	(	const AimsSurfaceTriangle &	mesh,
		const TimeTexture< T > &	tex,
		T	region
	)

static

Extracts the boundary of region of value <region> of the input texture, on the mesh.

If region is negative, take boundaries of all regions. The input texture is a label texture.

Definition at line 635 of file surfacemanip_d.h.

References meshTextureBoundary().

◆ meshTransform()

template<int D, class T >

void aims::SurfaceManip::meshTransform	(	AimsTimeSurface< D, T > &	mesh,
		const Motion &	trans
	)

static

Applies a transformation to a mesh.

Definition at line 208 of file surfacemanip_d.h.

References invertSurfacePolygons(), soma::AffineTransformation3dBase::isDirect(), norm(), AimsTimeSurface< D, T >::normal(), soma::Transformation3d::transform(), aims::AffineTransformation3d::translation(), and AimsTimeSurface< D, T >::vertex().

◆ meshVolume() [1/2]

static float aims::SurfaceManip::meshVolume ( const AimsSurfaceTriangle & surf )

static

◆ meshVolume() [2/2]

static float aims::SurfaceManip::meshVolume ( const AimsSurface< 3, Void > & surf )

static

◆ nearestPointToMesh()

static Point3df aims::SurfaceManip::nearestPointToMesh	(	const Point3df &	pos,
		const AimsSurfaceTriangle &	mesh,
		unsigned	nneighbours = `1`,
		unsigned *	index = `0`
	)

static

computes the position of the point in the mesh nearest to the given position, averaging across the nneighbours nearest vertices.

The optional index parameter will contain, when given, the index of the nearest mesh vertex

◆ rasterizeLine()

template<typename T >

static void aims::SurfaceManip::rasterizeLine	(	const Point3df &	p0,
		const Point3df &	direction,
		float	lmax,
		T &	volume,
		int	value
	)

static

T should be carto::Volume<int16_t> or BucketMap<Void>::Bucket.

Moreover, coordinates should be already be divided by the voxel size

Referenced by rasterizeMeshWireframe().

◆ rasterizeMesh()

static void aims::SurfaceManip::rasterizeMesh	(	const AimsTimeSurface< 3, Void > &	mesh,
		carto::rc_ptr< carto::Volume< int16_t > > &	volume,
		int	value = `2`
	)

static

Rasterize polygons into a volume.

◆ rasterizeMeshWireframe()

template<int D, typename T >

void aims::SurfaceManip::rasterizeMeshWireframe	(	const AimsTimeSurface< D, T > &	mesh,
		carto::rc_ptr< carto::Volume< int16_t > > &	volume,
		int	value = `1`
	)

static

Rasterize polygons edges into a volume.

Definition at line 46 of file mesh_rasterization_d.h.

References AimsVector< T, D >::norm(), AimsVector< T, D >::normalize(), AimsTimeSurface< D, T >::polygon(), rasterizeLine(), and AimsTimeSurface< D, T >::vertex().

◆ refineMeshTri4()

static AimsSurfaceTriangle* aims::SurfaceManip::refineMeshTri4	(	const AimsSurfaceTriangle &	mesh,
		const std::vector< uint > &	selectedPolygons = `std::vector< uint >()`
	)

static

Refine a mesh by subdivising every triangle into 4 smaller ones.

If selectedPolygons is specified (non-empty), it should contain polygons indices which must specifically be refined, the remaining ones will stay unchanged.

◆ sortPolygonsAlongDirection()

template<int D, typename T >

void aims::SurfaceManip::sortPolygonsAlongDirection	(	AimsTimeSurface< D, T > &	mesh,
		int	timestep,
		const Point3df &	direction
	)

static

Sort polygons along a given direction.

Polygons centers will be used for sorting. Only one timestep is performed (to be fast).

Definition at line 689 of file surfacemanip_d.h.

References AimsVector< T, D >::dot(), AimsTimeSurface< D, T >::polygon(), and AimsTimeSurface< D, T >::vertex().

◆ surfaceNeighbourDistance()

template<int D, class T >

std::vector< std::map< uint, float > > aims::SurfaceManip::surfaceNeighbourDistance ( const AimsTimeSurface< D, T > & surf )

static

Definition at line 111 of file surfacemanip_d.h.

References AimsTimeSurface< D, T >::polygon(), and AimsTimeSurface< D, T >::vertex().

◆ surfaceNeighbours() [1/2]

template<int D, class T >

std::vector< std::set< uint > > aims::SurfaceManip::surfaceNeighbours ( const AimsSurface< D, T > & surf )

static

Definition at line 45 of file surfacemanip_d.h.

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

◆ surfaceNeighbours() [2/2]

template<int D, class T >

std::vector< std::set< uint > > aims::SurfaceManip::surfaceNeighbours ( const AimsTimeSurface< D, T > & surf )

static

Definition at line 61 of file surfacemanip_d.h.

References AimsTimeSurface< D, T >::polygon(), and AimsTimeSurface< D, T >::vertex().

◆ surfaceNeighbours2ndOrder()

template<int D, class T >

std::vector< std::set< uint > > aims::SurfaceManip::surfaceNeighbours2ndOrder ( const AimsTimeSurface< D, T > & surf )

static

Definition at line 77 of file surfacemanip_d.h.

References AimsTimeSurface< D, T >::polygon(), and AimsTimeSurface< D, T >::vertex().

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

Static Public Member Functions

Detailed Description

Member Function Documentation

◆ checkMesh()

◆ checkMeshIntersect()

◆ cutMesh() [1/10]

◆ cutMesh() [2/10]

◆ cutMesh() [3/10]

◆ cutMesh() [4/10]

◆ cutMesh() [5/10]

◆ cutMesh() [6/10]

◆ cutMesh() [7/10]

◆ cutMesh() [8/10]

◆ cutMesh() [9/10]

◆ cutMesh() [10/10]

◆ invertSurfacePolygons()

◆ lineDirections()

◆ meshArea() [1/2]

◆ meshArea() [2/2]

◆ meshDensity()

◆ meshEdgeLengthRatioTexture()

◆ meshExtract()

◆ meshMerge() [1/2]

◆ meshMerge() [2/2]

◆ meshPlanarPolygon()

◆ meshTextureBoundary() [1/2]

◆ meshTextureBoundary() [2/2]

◆ meshTransform()

◆ meshVolume() [1/2]

◆ meshVolume() [2/2]

◆ nearestPointToMesh()

◆ rasterizeLine()

◆ rasterizeMesh()

◆ rasterizeMeshWireframe()

◆ refineMeshTri4()

◆ sortPolygonsAlongDirection()

◆ surfaceNeighbourDistance()

◆ surfaceNeighbours() [1/2]

◆ surfaceNeighbours() [2/2]

◆ surfaceNeighbours2ndOrder()