slices_d.h File Reference

#include <cartobase/object/object.h>
#include <cartobase/stream/directory.h>
#include <cartobase/stream/fileutil.h>
#include <aims/io/channelR.h>
#include <brainrat/data/slices.h>
#include <brainrat/exception/stackerexcept.h>

Include dependency graph for slices_d.h:

Go to the source code of this file.

Functions
template<class T >
bool	detectSlices (aims::Process &p, const std::string &, aims::Finder &)
template<class T >
bool	individStackSlices (aims::Process &p, const std::string &, aims::Finder &)
template<class T >
void	rescale (carto::VolumeRef< T > &in, RescalerInfo &info)
template<class T >
bool	writeStackedSlices (int32_t dx, int32_t dy, int32_t res, float z, T background, std::vector< Component > &cpnt, carto::VolumeRef< T > &data, std::string outputfile, std::string format)
template<class T >
bool	writeNumberedSlices (int32_t dx, int32_t dy, int32_t res, float z, T background, std::vector< Component > &cpnt, carto::VolumeRef< T > &data, std::string outputdir, std::string outputname, std::string format, uint8_t slicemin)

Function Documentation

detectSlices()

template<class T >

bool detectSlices	(	aims::Process &	p,
		const std::string &	,
		aims::Finder &
	)

Definition at line 23 of file slices_d.h.

References HistologyScanSlicesDetector::analyze(), HistologyScanSlicesDetector::boundingBoxes(), SlicesDetector::c, SlicesDetector::disable_checks, SlicesDetector::fileIn, SlicesDetector::fileOut, SlicesDetector::fraction, SlicesDetector::ht, SlicesDetector::lt, MAX_HISTO, SlicesDetector::min_size, SlicesDetector::n, NB_MODES, and SlicesDetector::res.

individStackSlices()

template<class T >

bool individStackSlices	(	aims::Process &	p,
		const std::string &	,
		aims::Finder &
	)

Definition at line 118 of file slices_d.h.

References HistologyScanSlicesDetector::analyze(), SlicesStacker::c, changeComponentsIndex(), SlicesStacker::dimensionorders, SlicesStacker::dimensionsizes, SlicesStacker::dx, SlicesStacker::dy, SlicesStacker::fileIn, SlicesStacker::fileInP, SlicesStacker::fileOut, SlicesStacker::format, SlicesStacker::fraction, SlicesStacker::ht, SlicesStacker::lt, MAX_HISTO, SlicesStacker::min_size, SlicesStacker::n, NB_MODES, SlicesStacker::nostack, SlicesStacker::outName, SlicesStacker::res, SlicesStacker::sn, sortComponent(), writeComponents(), writeNumberedSlices(), writeStackedSlices(), and SlicesStacker::z.

rescale()

template<class T >

void rescale	(	carto::VolumeRef< T > &	in,
		RescalerInfo &	info
	)

Definition at line 236 of file slices_d.h.

writeNumberedSlices()

template<class T >

bool writeNumberedSlices	(	int32_t	dx,
		int32_t	dy,
		int32_t	res,
		float	z,
		T	background,
		std::vector< Component > &	cpnt,
		carto::VolumeRef< T > &	data,
		std::string	outputdir,
		std::string	outputname,
		std::string	format,
		uint8_t	slicemin
	)

Definition at line 361 of file slices_d.h.

References background(), BORDER_GLOBAL, BORDER_LOCAL, ComponentSize_hz, ComponentSize_vt, extractMaxima(), extractVectorFromComponent(), and INCH.

Referenced by individStackSlices().

writeStackedSlices()

template<class T >

bool writeStackedSlices	(	int32_t	dx,
		int32_t	dy,
		int32_t	res,
		float	z,
		T	background,
		std::vector< Component > &	cpnt,
		carto::VolumeRef< T > &	data,
		std::string	outputfile,
		std::string	format
	)

Definition at line 273 of file slices_d.h.

References background(), BORDER_GLOBAL, BORDER_LOCAL, ComponentSize_hz, ComponentSize_vt, extractMaxima(), extractVectorFromComponent(), and INCH.

Referenced by individStackSlices().