This class is a child of the iLinearModel class implementing the Nested Spectral reconsutction. More...

#include <iLinearSpectralModel.hh>

Inheritance diagram for iLinearSpectralModel:

Collaboration diagram for iLinearSpectralModel:

Public Member Functions
	iLinearSpectralModel ()
	Constructor of iLinearSpectralModel. Simply set all data members to default values. More...

	~iLinearSpectralModel ()
	Destructor of iLinearSpectralModel. More...

int	CheckSpecificParameters ()
	This function is used to check whether all member variables have been correctly initialized or not. More...

int	ReadAndCheckConfigurationFileSpecific ()
	This function is used to read options from a configuration file, specific to this model. More...

int	ReadAndCheckOptionsList (string a_listOptions)

int	InitializeSpecific ()
	This function is used to initialize the model parametric images and basis functions. More...

void	ShowHelpModelSpecific ()
	This function is used to print out specific help about the dynamic model and its options. It is pure virtual so must be implemented by children. More...

	iLinearSpectralModel ()

	~iLinearSpectralModel ()

int	CheckSpecificParameters ()
	This function is used to check whether all member variables have been correctly initialized or not. More...

int	ReadAndCheckConfigurationFileSpecific ()
	This function is used to read options from a configuration file. More...

int	ReadAndCheckOptionsList (string a_listOptions)

int	InitializeSpecific ()
	This function is used to initialize the parametric images and basis functions for all Linear Models. More...

void	ShowHelpModelSpecific ()
	This function is used to print out specific help about the dynamic model and its options. It is pure virtual so must be implemented by children. More...

Public Member Functions inherited from iLinearModel
	iLinearModel ()
	Constructor of iLinearModel. Simply set all data members to default values. More...

	~iLinearModel ()
	Destructor of iLinearModel. More...

int	CheckSpecificParametersForAllLinearModels ()
	This function is used to check parameters for all Linear Models. . More...

int	ReadAndCheckConfigurationFileSpecificToAllLinearModels ()
	This function is used to read parameters that are generic for all Linear Models. . More...

int	InitializeSpecificToAllLinearModels ()
	This function is used to initialize the parametric images and basis functions for all Linear Models. More...

void	ShowBasisFunctions ()
	This function is used to print the basis functions. More...

int	EstimateModelParameters (oImageSpace *ap_Image, int a_ite, int a_sset)

int	EstimateImageWithModel (oImageSpace *ap_Image, int a_ite, int a_sset)

int	NestedEM (oImageSpace *ap_ImageS, int a_ite)

int	EstimateParametersWithNNLS (oImageSpace *ap_ImageS, int a_ite)

int	Patlak_LS (oImageSpace *ap_ImageS, int a_ite)

	iLinearModel ()

	~iLinearModel ()

int	CheckSpecificParametersForAllLinearModels ()

int	ReadAndCheckConfigurationFileSpecificToAllLinearModels ()

int	InitializeSpecificToAllLinearModels ()

void	ShowBasisFunctions ()

int	EstimateModelParameters (oImageSpace *ap_Image, int a_ite, int a_sset)

int	EstimateImageWithModel (oImageSpace *ap_Image, int a_ite, int a_sset)

int	NestedEM (oImageSpace *ap_ImageS, int a_ite)

int	EstimateParametersWithNNLS (oImageSpace *ap_ImageS, int a_ite)

int	Patlak_LS (oImageSpace *ap_ImageS, int a_ite)

Public Member Functions inherited from vDynamicModel
	vDynamicModel ()
	Constructor of vDynamicModel. Simply set all data members to default values. More...

virtual	~vDynamicModel ()
	Destructor of vDynamicModel. More...

void	SetImageDimensionsAndQuantification (oImageDimensionsAndQuantification *ap_ImageDimensionsAndQuantification)

void	SetVerbose (int a_verbose)

virtual int	CheckParameters ()
	This function is used to check parameters after the latter have been all set using Set functions. More...

int	ReadAndCheckConfigurationFile (string a_fileOptions)

int	Initialize ()
	A public function used to initialize the dynamic model. More...

void	ShowHelp ()
	This function is used to print out general help about dynamic models. More...

virtual int	EstimateModel (oImageSpace *ap_Image, int a_ite, int a_sset)

virtual int	EstimateImage (oImageSpace *ap_Image, int a_ite, int a_sset)

int	SaveParametricImages (int a_iteration, int a_subset=-1)

virtual int	ApplyOutputFOVMaskingOnParametricImages ()
	Mask the outside of the transaxial FOV based on the m_fovOutPercent. More...

bool	GetAICflag ()

bool	GetModelBasisFunctionsRequiredFlag ()

int	GetNbTimeBasisFunctions ()

FLTNB **	GetTimeBasisFunctions ()

virtual void	ComputeOutputParImage ()
	Compute output image using the m2p_parametricImages matrix Store the result in the m2p_outputParImages matrix. More...

void	SetUseModelInReconstruction (bool a_useModelInReconstruction)

int	NNLS (FLTNB *A, int m, int n, FLTNB B, FLTNB X, FLTNB rnorm, FLTNB wp, FLTNB zzp, int *indexp)

	vDynamicModel ()

virtual	~vDynamicModel ()

void	SetImageDimensionsAndQuantification (oImageDimensionsAndQuantification *ap_ImageDimensionsAndQuantification)

void	SetVerbose (int a_verbose)

virtual int	CheckParameters ()

int	ReadAndCheckConfigurationFile (string a_fileOptions)

int	Initialize ()

void	ShowHelp ()

virtual int	EstimateModel (oImageSpace *ap_Image, int a_ite, int a_sset)

virtual int	EstimateImage (oImageSpace *ap_Image, int a_ite, int a_sset)

int	SaveParametricImages (int a_iteration, int a_subset=-1)

virtual int	ApplyOutputFOVMaskingOnParametricImages ()

bool	GetAICflag ()

bool	GetModelBasisFunctionsRequiredFlag ()

int	GetNbTimeBasisFunctions ()

FLTNB **	GetTimeBasisFunctions ()

virtual void	ComputeOutputParImage ()

void	SetUseModelInReconstruction (bool a_useModelInReconstruction)

int	NNLS (FLTNB *A, int m, int n, FLTNB B, FLTNB X, FLTNB rnorm, FLTNB wp, FLTNB zzp, int *indexp)

Protected Attributes
HPFLTNB	m_fast_exp

HPFLTNB	m_slow_exp

bool	m_full_trapping_basis_flag

bool	m_blood_fraction_fasis_flag

int	m_spectral_bank_size

int	m_additionalBF_size

HPFLTNB *	mp_spectral_bank

Protected Attributes inherited from iLinearModel
int	m_OptimisationMethod

int	m_nbRgateBF

int	m_nbCgateBF

FLTNB **	m2p_respBasisFunctions

FLTNB **	m2p_cardBasisFunctions

FLTNB *	mp_corrBasisCoeffs

FLTNB *	mp_corrBasisFunctions

uint32_t	m_nbLinearModelCycles

int	m_basisFunctionsUpdStartIte

int	m_basisFunctionsUpdRatio

int	m_basisFunctionsUpdIdx

Protected Attributes inherited from vDynamicModel
oImageDimensionsAndQuantification *	mp_ID

int	m_verbose

int	m_nbTimeBF

int	m_nbWeightFactors

int	m_nbModelParam

int	m_nbRGModelParam

int	m_nbCGModelParam

string	m_AICfile

oArterialInputCurve *	mp_ArterialInputCurve

FLTNB **	m2p_parametricImages

FLTNB *	mp_blackListedvoxelsImage

FLTNB **	m2p_nestedModelTimeBasisFunctions

FLTNB **	m2p_outputParImages

FLTNB **	m2p_RGParametricImages

FLTNB **	m2p_CGParametricImages

string	m_fileOptions

string	m_listOptions

bool	m_checked

bool	m_initialized

bool	m_useModelInReconstruction

bool	m_saveParImageFlag

bool	m_saveBlacklistedImageMaskFlag

bool	m_AICfileProvided

bool	m_ModelSpecificBasisFunctionsRequired

bool	m_noImageUpdateFlag

bool	m_noParametersUpdateFlag

int	m_startIteUpdateFlag

FLTNB *	mp_maskModel

INTNB	m_nbVoxelsMask

FLTNB *	mp_w

FLTNB ***	m3p_nnlsA

FLTNB **	m2p_nnlsB

FLTNB **	m2p_nnlsMat

FLTNB **	m2p_nnlsX

FLTNB **	m2p_nnlsWp

int **	m2p_nnlsIdx

uint16_t	m_nnlsN =0

Detailed Description

This class is a child of the iLinearModel class implementing the Nested Spectral reconsutction.

Definition at line 24 of file code/include/dynamic/iLinearSpectralModel.hh.

Constructor & Destructor Documentation

◆ iLinearSpectralModel() [1/2]

iLinearSpectralModel::iLinearSpectralModel ( )

Constructor of iLinearSpectralModel. Simply set all data members to default values.

Definition at line 22 of file code/src/dynamic/iLinearSpectralModel.cc.

◆ ~iLinearSpectralModel() [1/2]

iLinearSpectralModel::~iLinearSpectralModel ( )

Destructor of iLinearSpectralModel.

Definition at line 52 of file code/src/dynamic/iLinearSpectralModel.cc.

◆ iLinearSpectralModel() [2/2]

iLinearSpectralModel::iLinearSpectralModel ( )

◆ ~iLinearSpectralModel() [2/2]

iLinearSpectralModel::~iLinearSpectralModel ( )

Member Function Documentation

◆ CheckSpecificParameters() [1/2]

int iLinearSpectralModel::CheckSpecificParameters ( )

virtual

This function is used to check whether all member variables have been correctly initialized or not.

Returns: 0 if success, positive value otherwise.

Reimplemented from iLinearModel.

Definition at line 247 of file code/src/dynamic/iLinearSpectralModel.cc.

Here is the call graph for this function:

◆ CheckSpecificParameters() [2/2]

int iLinearSpectralModel::CheckSpecificParameters ( )

virtual

This function is used to check whether all member variables have been correctly initialized or not.

Returns: 0 if success, positive value otherwise.

Reimplemented from iLinearModel.

◆ InitializeSpecific() [1/2]

int iLinearSpectralModel::InitializeSpecific ( )

virtual

This function is used to initialize the model parametric images and basis functions.

Returns: 0 if success, other value otherwise.; 0 if success, other value otherwise.

Reimplemented from iLinearModel.

Definition at line 275 of file code/src/dynamic/iLinearSpectralModel.cc.

Here is the call graph for this function:

◆ InitializeSpecific() [2/2]

int iLinearSpectralModel::InitializeSpecific ( )

virtual

This function is used to initialize the parametric images and basis functions for all Linear Models.

Returns: 0 if success, other value otherwise.; 0 if success, other value otherwise.

Reimplemented from iLinearModel.

◆ ReadAndCheckConfigurationFileSpecific() [1/2]

int iLinearSpectralModel::ReadAndCheckConfigurationFileSpecific ( )

virtual

This function is used to read options from a configuration file, specific to this model.

Returns: 0 if success, other value otherwise.

Reimplemented from iLinearModel.

Definition at line 120 of file code/src/dynamic/iLinearSpectralModel.cc.

Here is the call graph for this function:

◆ ReadAndCheckConfigurationFileSpecific() [2/2]

int iLinearSpectralModel::ReadAndCheckConfigurationFileSpecific ( )

virtual

This function is used to read options from a configuration file.

Returns: 0 if success, other value otherwise.

Reimplemented from iLinearModel.

◆ ReadAndCheckOptionsList() [1/2]

int iLinearSpectralModel::ReadAndCheckOptionsList ( string a_listOptions )

virtual

Reimplemented from iLinearModel.

◆ ReadAndCheckOptionsList() [2/2]

int iLinearSpectralModel::ReadAndCheckOptionsList ( string a_listOptions )

virtual

Reimplemented from iLinearModel.

Definition at line 215 of file code/src/dynamic/iLinearSpectralModel.cc.

◆ ShowHelpModelSpecific() [1/2]

void iLinearSpectralModel::ShowHelpModelSpecific ( )

virtual

This function is used to print out specific help about the dynamic model and its options. It is pure virtual so must be implemented by children.

Reimplemented from iLinearModel.

◆ ShowHelpModelSpecific() [2/2]

void iLinearSpectralModel::ShowHelpModelSpecific ( )

virtual

This function is used to print out specific help about the dynamic model and its options. It is pure virtual so must be implemented by children.

Reimplemented from iLinearModel.

Definition at line 67 of file code/src/dynamic/iLinearSpectralModel.cc.

Here is the call graph for this function:

Member Data Documentation

◆ m_additionalBF_size

int iLinearSpectralModel::m_additionalBF_size

protected

Size of additional basis functions required for the model (eg. constant etc) .

Definition at line 94 of file code/include/dynamic/iLinearSpectralModel.hh.

◆ m_blood_fraction_fasis_flag

bool iLinearSpectralModel::m_blood_fraction_fasis_flag

protected

Value for constant basis function to be added.

Definition at line 92 of file code/include/dynamic/iLinearSpectralModel.hh.

◆ m_fast_exp

HPFLTNB iLinearSpectralModel::m_fast_exp

protected

Fastest spectral function.

Definition at line 89 of file code/include/dynamic/iLinearSpectralModel.hh.

◆ m_full_trapping_basis_flag

bool iLinearSpectralModel::m_full_trapping_basis_flag

protected

Value for constant basis function to be added.

Definition at line 91 of file code/include/dynamic/iLinearSpectralModel.hh.

◆ m_slow_exp

HPFLTNB iLinearSpectralModel::m_slow_exp

protected

Fastest spectral function.

Definition at line 90 of file code/include/dynamic/iLinearSpectralModel.hh.

◆ m_spectral_bank_size

int iLinearSpectralModel::m_spectral_bank_size

protected

requested number for size Bank of spectral function decay rates.

Definition at line 93 of file code/include/dynamic/iLinearSpectralModel.hh.

◆ mp_spectral_bank

HPFLTNB * iLinearSpectralModel::mp_spectral_bank

protected

Bank of spectral function decay rates.

Definition at line 95 of file code/include/dynamic/iLinearSpectralModel.hh.

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

Public Member Functions

Protected Attributes

Detailed Description

Constructor & Destructor Documentation

◆ iLinearSpectralModel() [1/2]

◆ ~iLinearSpectralModel() [1/2]

◆ iLinearSpectralModel() [2/2]

◆ ~iLinearSpectralModel() [2/2]

Member Function Documentation

◆ CheckSpecificParameters() [1/2]

◆ CheckSpecificParameters() [2/2]

◆ InitializeSpecific() [1/2]

◆ InitializeSpecific() [2/2]

◆ ReadAndCheckConfigurationFileSpecific() [1/2]

◆ ReadAndCheckConfigurationFileSpecific() [2/2]

◆ ReadAndCheckOptionsList() [1/2]

◆ ReadAndCheckOptionsList() [2/2]

◆ ShowHelpModelSpecific() [1/2]

◆ ShowHelpModelSpecific() [2/2]

Member Data Documentation

◆ m_additionalBF_size

◆ m_blood_fraction_fasis_flag

◆ m_fast_exp

◆ m_full_trapping_basis_flag

◆ m_slow_exp

◆ m_spectral_bank_size

◆ mp_spectral_bank