MR::Registration Namespace Reference

Namespaces
namespace	Metric
namespace	RotationSearch
namespace	Transform
namespace	Warp

Classes
class	Linear
struct	MultiContrastSetting
class	NonLinear
struct	StageSetting

Enumerations
enum	LinearMetricType { Diff , NCC }
enum	LinearRobustMetricEstimatorType { L1 , L2 , LP , None }
enum	OptimiserAlgoType { bbgd , gd , none }

Functions
void	set_init_translation_model_from_option (Registration::Linear &registration, const int &option)
void	set_init_rotation_model_from_option (Registration::Linear &registration, const int &option)
void	parse_general_options (Registration::Linear &registration)
FORCE_INLINE void	check_image_output (const std::string &image_name, const Header &reference)
std::ostream &	operator<< (std::ostream &o, const MultiContrastSetting &a)
void	preload_data (vector< Header > &input, Image< default_type > &images, const vector< MultiContrastSetting > &mc_params)
template<class ImageType >
FORCE_INLINE ImageType	multi_resolution_lmax (ImageType &input, const default_type scale_factor, const bool do_reorientation=false, const uint32_t lmax=0)
template<class ImageType >
FORCE_INLINE ImageType	multi_resolution_lmax (ImageType &input, const default_type scale_factor, const bool do_reorientation, const vector< MultiContrastSetting > &contrast, vector< MultiContrastSetting > *contrast_updated=nullptr)

Variables
const App::OptionGroup	adv_init_options
const App::OptionGroup	lin_stage_options
const App::OptionGroup	rigid_options
const App::OptionGroup	affine_options
const App::OptionGroup	fod_options
const char *	optim_algo_names []
const App::OptionGroup	nonlinear_options
const OptionGroup	multiContrastOptions

Enumeration Type Documentation

LinearMetricType

enum MR::Registration::LinearMetricType

Enumerator
Diff
NCC

Definition at line 58 of file linear.h.

LinearRobustMetricEstimatorType

enum MR::Registration::LinearRobustMetricEstimatorType

Enumerator
L1
L2
LP
None

Definition at line 59 of file linear.h.

OptimiserAlgoType

enum MR::Registration::OptimiserAlgoType

Enumerator
bbgd
gd
none

Definition at line 60 of file linear.h.

Function Documentation

check_image_output()

FORCE_INLINE void MR::Registration::check_image_output	(	const std::string &	image_name,
		const Header &	reference
	)

Definition at line 39 of file multi_contrast.h.

multi_resolution_lmax() [1/2]

template<class ImageType >

FORCE_INLINE ImageType MR::Registration::multi_resolution_lmax	(	ImageType &	input,
		const default_type	scale_factor,
		const bool	do_reorientation,
		const vector< MultiContrastSetting > &	contrast,
		vector< MultiContrastSetting > *	contrast_updated = nullptr
	)

Definition at line 60 of file multi_resolution_lmax.h.

multi_resolution_lmax() [2/2]

template<class ImageType >

FORCE_INLINE ImageType MR::Registration::multi_resolution_lmax	(	ImageType &	input,
		const default_type	scale_factor,
		const bool	do_reorientation = false,
		const uint32_t	lmax = 0
	)

Definition at line 31 of file multi_resolution_lmax.h.

operator<<()

std::ostream & MR::Registration::operator<< ( std::ostream &  o, const MultiContrastSetting &  a  )

inline

Definition at line 102 of file multi_contrast.h.

parse_general_options()

void MR::Registration::parse_general_options

(

Registration::Linear &

registration

)

preload_data()

void MR::Registration::preload_data	(	vector< Header > &	input,
		Image< default_type > &	images,
		const vector< MultiContrastSetting > &	mc_params
	)

set_init_rotation_model_from_option()

void MR::Registration::set_init_rotation_model_from_option	(	Registration::Linear &	registration,
		const int &	option
	)

set_init_translation_model_from_option()

void MR::Registration::set_init_translation_model_from_option	(	Registration::Linear &	registration,
		const int &	option
	)

Variable Documentation

adv_init_options

const App::OptionGroup MR::Registration::adv_init_options

extern

affine_options

const App::OptionGroup MR::Registration::affine_options

extern

fod_options

const OptionGroup MR::Registration::fod_options

Initial value:

=
          OptionGroup ("FOD registration options")
 
          + Option ("directions", "the directions used for FOD reorienation using apodised point spread functions (Default: 60 directions)")
          + Argument ("file", "a list of directions [az el] generated using the gendir command.").type_file_in ()
 
          + Option ("noreorientation", "turn off FOD reorientation. Reorientation is on by default if the number "
                                       "of volumes in the 4th dimension corresponds to the number of coefficients in an "
                                       "antipodally symmetric spherical harmonic series (i.e. 6, 15, 28, 45, 66 etc")

Definition at line 35 of file shared.h.

lin_stage_options

const App::OptionGroup MR::Registration::lin_stage_options

extern

multiContrastOptions

const OptionGroup MR::Registration::multiContrastOptions

Initial value:

=
      OptionGroup ("Multi-contrast options")
      + Option ("mc_weights", "relative weight of images used for multi-contrast registration. Default: 1.0 (equal weighting)")
        + Argument ("weights").type_sequence_float ()

Definition at line 30 of file shared.h.

nonlinear_options

const App::OptionGroup MR::Registration::nonlinear_options

extern

optim_algo_names

const char* MR::Registration::optim_algo_names[]

extern

rigid_options

const App::OptionGroup MR::Registration::rigid_options

extern