fims_distributions::DensityComponentBase< Type > Struct Template Reference

Base class for all module_name functors. More...

#include <density_components_base.hpp>

Inheritance diagram for fims_distributions::DensityComponentBase< Type >:

Public Member Functions
Type &	get_observed (size_t i)
	Retrieve one observed value based on input_type.
Type &	get_observed (size_t i, size_t j)
	Retrieve one observed matrix-like value based on input_type.
Type &	get_expected (size_t i)
	Retrieve one expected value based on input_type and use_mean.
size_t	get_n_x ()
	Get length of the active observed input vector.
size_t	get_n_expected ()
	Get length of the active expected input vector.
	DensityComponentBase ()
	Constructor, which initializes default prior pointer state and ID.
virtual const Type	evaluate ()=0
	Evaluate the distribution-specific log-likelihood contribution.
Public Member Functions inherited from fims_model_object::FIMSObject< Type >
uint32_t	GetId () const
	Getter that returns the unique id for parameters in the model.
bool	CheckDimensions (size_t actual, size_t expected)
	Check the dimensions of an object.
Public Member Functions inherited from fims_model_object::FIMSMemoryTracker
void	register_self (const uint32_t id)
	Registers a FIMSObject instance with the memory tracker.

Public Attributes
std::string	input_type
	Classification of the input pathway for this distribution object. Options used by accessor methods are, "prior", "random_effects", and "data".
std::shared_ptr< fims_data_object::DataObject< Type > >	data_observed_values
	Observed data.
fims::Vector< Type >	expected_values
	Expected value vector for prior-based pathways.
fims::Vector< Type > *	re = NULL
	Pointer to random effects vector.
fims::Vector< Type > *	re_expected_values = NULL
	Expected value vector for random-effects pathways.
fims::Vector< Type > *	data_expected_values = NULL
	Expected value vector for data pathways.
std::vector< fims::Vector< Type > * >	priors
	Vector of pointers where each entry points to a prior parameter.
fims::Vector< Type >	observed_values
	Input value of distribution function for priors or random effects.
fims::Vector< Type >	expected_mean
	The expected mean of the distribution; overrides expected values.
std::string	use_mean = std::string("no")
	If "yes", expected_mean is used instead of expected_values. The default is "no" leading to the use of expected_values.
Type	lpdf
	Total log probability density contribution of the distribution.
int	observed_data_id_m = -999
	ID of observed data component.
fims::Vector< Type >	lpdf_vec
	Vector storing observation-level log-likelihood contributions.
bool	osa_flag = false
	Boolean; if true, one-step-ahead (OSA) residuals are calculated.
bool	simulate_flag = false
	Boolean; if true, data are simulated from the distribution.
std::vector< uint32_t >	key
	Unique ID for variable map that points to a fims::Vector.
Public Attributes inherited from fims_model_object::FIMSObject< Type >
uint32_t	id
std::vector< Type * >	parameters
std::vector< Type * >	random_effects_parameters
std::vector< Type * >	fixed_effects_parameters

Static Public Attributes
static uint32_t	id_g = 0
	Global unique identifier for distribution modules.
Static Public Attributes inherited from fims_model_object::FIMSMemoryTracker
static int	total_active_objects = 0
	Total number of active FIMSObject instances currently in memory.

Detailed Description

template<typename Type>
struct fims_distributions::DensityComponentBase< Type >

Base class for all module_name functors.

Template Parameters

Type	The type of the module_name functor.

Member Function Documentation

evaluate()

template<typename Type >

virtual const Type fims_distributions::DensityComponentBase< Type >::evaluate ( )

pure virtual

Evaluate the distribution-specific log-likelihood contribution.

Returns

Total log-likelihood contribution for the active inputs.

Implemented in fims_distributions::LogNormalLPDF< Type >, fims_distributions::MultinomialLPMF< Type >, and fims_distributions::NormalLPDF< Type >.

get_expected()

template<typename Type >

Type & fims_distributions::DensityComponentBase< Type >::get_expected ( size_t  i )

inline

Retrieve one expected value based on input_type and use_mean.

Parameters

i	Index into the active expected source, e.g., vector or pointer.

Returns

Reference to the selected expected value.

If use_mean == "yes", expected_mean overrides other expected vectors and is accessed via scalar/vector semantics.

get_n_expected()

template<typename Type >

size_t fims_distributions::DensityComponentBase< Type >::get_n_expected ( )

inline

Get length of the active expected input vector.

Returns

Size of the expected input under the current input_type.

get_n_x()

template<typename Type >

size_t fims_distributions::DensityComponentBase< Type >::get_n_x ( )

inline

Get length of the active observed input vector.

Returns

Size of the observed input under the current input_type.

get_observed() [1/2]

template<typename Type >

Type & fims_distributions::DensityComponentBase< Type >::get_observed ( size_t  i )

inline

Retrieve one observed value based on input_type.

Parameters

i	Index into the active observed source, e.g., vector or pointer.

Returns

Reference to the selected observed value.

Exceptions

std::runtime_error

If input_type is "prior" and priors is empty.

get_observed() [2/2]

template<typename Type >

Type & fims_distributions::DensityComponentBase< Type >::get_observed ( size_t  i, size_t  j  )

inline

Retrieve one observed matrix-like value based on input_type.

Parameters

i	Row index.
j	Column index.

Returns

Reference to the selected observed value.

Member Data Documentation

id_g

template<typename Type >

uint32_t fims_distributions::DensityComponentBase< Type >::id_g = 0

static

Global unique identifier for distribution modules.

Default id of the singleton distribution class.

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The documentation for this struct was generated from the following file:

• inst/include/distributions/functors/density_components_base.hpp