OpenTissue::grid::detail Namespace Reference

Classes
class	Iterator
	basic iterator for walking through the WHOLE container More...
class	IndexIterator
	iterator that keeps track of i,j,k position More...
class	JunctionCandidate
class	JunctionCollisionPolicy
class	FullRedistance
class	Voxelizer
Functions
template<typename grid_type >
grid_type::value_type	compute_aof_value (grid_type const &phi, size_t const &i, size_t const &j, size_t const &k, double scale=0.5)
template<typename unsigned_int_container >
void	associate (size_t i, size_t j, unsigned_int_container &assoc)
template<typename grid_type >
void	fast_blur (grid_type &image, grid_type &tmp, double si, double sj, double sk, double log_base)
template<typename array_type , typename real_type >
void	compute_gaussian_kernel (array_type &G, real_type const &s)
template<typename value_type , typename real_type >
void	convolution1D (value_type *output, value_type const *input, int const &xdim, int const &ydim, int const &zdim, int const &dim, real_type const &s)
template<typename value_type , typename real_type >
void	convolution3D (value_type *output, value_type const *input, int const &xdim, int const &ydim, int const &zdim, real_type const &sx, real_type const &sy, real_type const &sz)
template<typename grid_type >
bool	is_local_minima (size_t i, size_t j, size_t k, grid_type const &phi)
template<typename grid_type >
bool	is_strict_local_minima (size_t i, size_t j, size_t k, grid_type const &phi)

---

Function Documentation

template<typename unsigned_int_container >

void OpenTissue::grid::detail::associate	(	size_t	i,
		size_t	j,
		unsigned_int_container &	assoc
	)			[inline]

Associate two adjacent components so that they represent the same component.

Parameters:

	i	Component label value of a pixel under consideration.
	j	Component label value of an adjacent pixel.
	assoc	Array containing associations of component label values.

template<typename grid_type >

grid_type::value_type OpenTissue::grid::detail::compute_aof_value	(	grid_type const &	phi,
		size_t const &	i,
		size_t const &	j,
		size_t const &	k,
		double	scale = 0.5
	)			[inline]

Compute Average Outward Flux at designated nodal position of a signed distance grid.

Parameters:

	phi	The signed distance grid.
	i	The i'th index of the node.
	j	The j'th index of the node.
	k	The k'th index of the node.
	scale	Default value is 0.5, this determines the scale on which the flux is computed. 0.5 correponds to ``voxel-based''.

Returns:

The flux value.

template<typename array_type , typename real_type >

void OpenTissue::grid::detail::compute_gaussian_kernel	(	array_type &	G,
		real_type const &	s
	)			[inline]

Compute Gaussian Kernel. This method computes a normalized 1D Gaussian kernel.

The Gaussian is centered in the middel of G, hence it is useful to allocate a valarray of size 4*s+1.

Parameters:

	G	A pre-allocated valarray of scalars for the result.
	s	The standard deviation of the Gaussian.

template<typename value_type , typename real_type >

void OpenTissue::grid::detail::convolution1D	(	value_type *	output,
		value_type const *	input,
		int const &	xdim,
		int const &	ydim,
		int const &	zdim,
		int const &	dim,
		real_type const &	s
	)			[inline]

One-dimensional convolution with a Gaussian kernel.

Parameters:

	output	The resulting image.
	input	The original image.
	xdim	The size of I along the first dimenison.
	ydim	The size of I along the second dimenison.
	zdim	The size of I along the third dimenison.
	dim	Which dimension to convolve along.
	s	The standard deviation of the Gaussian to be convolved with.

template<typename value_type , typename real_type >

void OpenTissue::grid::detail::convolution3D	(	value_type *	output,
		value_type const *	input,
		int const &	xdim,
		int const &	ydim,
		int const &	zdim,
		real_type const &	sx,
		real_type const &	sy,
		real_type const &	sz
	)			[inline]

Three-dimensional convolution with a Gaussian kernel.

Parameters:

	output	The resulting image. Should be preallocated to same size as I.
	input	The original image.
	xdim	The size of I along the first dimenison.
	ydim	The size of I along the second dimenison.
	zdim	The size of I along the third dimenison.
	sx	The standard deviation of the Gaussian along the first direction.
	sy	The standard deviation of the Gaussian along the second direction.
	sz	The standard deviation of the Gaussian along the third direction.

template<typename grid_type >

void OpenTissue::grid::detail::fast_blur	(	grid_type &	image,
		grid_type &	tmp,
		double	si,
		double	sj,
		double	sk,
		double	log_base
	)			[inline]

template<typename grid_type >

bool OpenTissue::grid::detail::is_local_minima	(	size_t	i,
		size_t	j,
		size_t	k,
		grid_type const &	phi
	)			[inline]

Test if a specified node is a strict local minima.

Parameters:

	i
	j
	k
	phi

Returns:

True if node i,j,k is a local minima, otherwise false.

template<typename grid_type >

bool OpenTissue::grid::detail::is_strict_local_minima	(	size_t	i,
		size_t	j,
		size_t	k,
		grid_type const &	phi
	)			[inline]

Test if a specified node is a strict local minima.

Parameters:

	i
	j
	k
	phi

Returns:

True if node i,j,k is a local minima, otherwise false.