#include <dataobject.h>

Public Member Functions
	dataobject (Rcpp::NumericMatrix _data, Rcpp::CharacterVector _parnames)
	constructor
	dataobject (Rcpp::NumericMatrix _data, Rcpp::CharacterVector _parnames, Rcpp::CharacterVector _initnames)
	constructor
	~dataobject ()
unsigned int	nrow () const
unsigned int	ncol () const
unsigned int	nid () const
unsigned int	idcol () const
int	start (int i) const
int	end (int i) const
int	inrow (int i)
void	increment_inrow (int i)
void	increment_inrow (int i, int n)
void	decrement_inrow (int i)
void	map_uid ()
double	get_uid (int i) const
uidtype	return_uid ()
void	copy_parameters (int this_row, odeproblem *prob)
void	copy_parameters_nocb (int id_n, const rec_ptr &this_rec, odeproblem *prob)
void	next_id (int id_n)
void	copy_inits (int this_row, odeproblem *prob)
void	reload_parameters (const Rcpp::NumericVector &param, odeproblem *prob)
void	idata_row ()
unsigned int	get_idata_row (const double ID)
void	locate_tran ()
void	get_records (recstack &a, int NID, int neq, unsigned int &obscount, unsigned int &evcount, bool obsonly, bool debug)
void	get_records_pred (recstack &a, int NID, int neq, unsigned int &obscount, unsigned int &evcount, bool obsonly, bool debug)
void	check_idcol (dataobject &data)
double	get_value (const int row, const int col) const
double	get_id_value (const int row) const
Rcpp::IntegerVector	get_col_n (const Rcpp::CharacterVector &what)
void	carry_out (const recstack &a, Rcpp::NumericMatrix &ans, dataobject &idat, const Rcpp::IntegerVector &data_carry, const unsigned int data_carry_start, const Rcpp::IntegerVector &idata_carry, const unsigned int idata_carry_start, const bool nocb)
arma::mat	get_etas (const int n, const bool strict, const std::string &value)

Public Attributes
Rcpp::NumericMatrix	Data
std::vector< unsigned int >	col
Rcpp::CharacterVector	Data_names
std::deque< double >	Uid
	unique IDs in the data set
std::deque< int >	Startrow
	start row for each ID
std::deque< int >	Endrow
	data set end row for each ID
std::vector< int >	Nrow
	output data row count for each ID
int	Idcol
	which column holds ID
std::map< double, int >	idmap
	map to get
std::vector< int >	par_from
	index for parameters in data set
std::vector< int >	par_to
	index for parameters in param list
Rcpp::CharacterVector	parnames
	names of model parameters
std::vector< int >	cmt_from
	index for compartments in data set
std::vector< int >	cmt_to
	index for compartments in init list
Rcpp::CharacterVector	cmtnames
	names of model compartments
bool	any_copy
	are there any parameter columns for copy / update?
bool	done_copying
	have we reached the last data record for this ID?
int	next_copy_row
	tracking current actual data row
int	last_copy_row
	tracking previous actual data row

Constructor & Destructor Documentation

◆ dataobject() [1/2]

dataobject::dataobject	(	Rcpp::NumericMatrix	_data,
		Rcpp::CharacterVector	_parnames )

constructor

◆ dataobject() [2/2]

dataobject::dataobject	(	Rcpp::NumericMatrix	_data,
		Rcpp::CharacterVector	_parnames,
		Rcpp::CharacterVector	_initnames )

constructor

◆ ~dataobject()

dataobject::~dataobject ( )

Member Function Documentation

◆ carry_out()

void dataobject::carry_out	(	const recstack &	a,
		Rcpp::NumericMatrix &	ans,
		dataobject &	idat,
		const Rcpp::IntegerVector &	data_carry,
		const unsigned int	data_carry_start,
		const Rcpp::IntegerVector &	idata_carry,
		const unsigned int	idata_carry_start,
		const bool	nocb )

◆ check_idcol()

void dataobject::check_idcol ( dataobject & data )

◆ copy_inits()

void dataobject::copy_inits	(	int	this_row,
		odeproblem *	prob )

◆ copy_parameters()

void dataobject::copy_parameters	(	int	this_row,
		odeproblem *	prob )

◆ copy_parameters_nocb()

void dataobject::copy_parameters_nocb	(	int	id_n,
		const rec_ptr &	this_rec,
		odeproblem *	prob )

Copies parameters from the data set under nocb

Parameters

id_n	The current ID number (zero to nid-1)
from_data	Is the record actually in the data or not
this_row	The data set record position (rec->pos())
odeproblem	The problem object

done_copying, next_copy_row, and last_copy_row are initialized for each id
If the record is from the data set, we copy the parameters from that row, then do some bookkeeping to figure out if we are done copying or to get the number of the next row to copy when we're advancing away from a data set record and toward a non-dataset record
The next_copy_row comparison against last_copy_row make sure that when we're processing the first inserted record after a data set record, we copy the next data set row just once; this is nocb behavior

◆ decrement_inrow()

void dataobject::decrement_inrow ( int i )

inline

◆ end()

int dataobject::end ( int i ) const

inline

◆ get_col_n()

Rcpp::IntegerVector dataobject::get_col_n ( const Rcpp::CharacterVector & what )

◆ get_etas()

arma::mat dataobject::get_etas	(	const int	n,
		const bool	strict,
		const std::string &	value )

◆ get_id_value()

double dataobject::get_id_value ( const int row ) const

inline

◆ get_idata_row()

unsigned int dataobject::get_idata_row ( const double ID )

◆ get_records()

void dataobject::get_records	(	recstack &	a,
		int	NID,
		int	neq,
		unsigned int &	obscount,
		unsigned int &	evcount,
		bool	obsonly,
		bool	debug )

◆ get_records_pred()

void dataobject::get_records_pred	(	recstack &	a,
		int	NID,
		int	neq,
		unsigned int &	obscount,
		unsigned int &	evcount,
		bool	obsonly,
		bool	debug )

◆ get_uid()

double dataobject::get_uid ( int i ) const

inline

◆ get_value()

double dataobject::get_value	(	const int	row,
		const int	col ) const

inline

◆ idata_row()

void dataobject::idata_row ( )

◆ idcol()

unsigned int dataobject::idcol ( ) const

inline

◆ increment_inrow() [1/2]

void dataobject::increment_inrow ( int i )

inline

◆ increment_inrow() [2/2]

void dataobject::increment_inrow	(	int	i,
		int	n )

inline

◆ inrow()

int dataobject::inrow ( int i )

inline

◆ locate_tran()

void dataobject::locate_tran ( )

◆ map_uid()

void dataobject::map_uid ( )

◆ ncol()

unsigned int dataobject::ncol ( ) const

inline

◆ next_id()

void dataobject::next_id ( int id_n )

◆ nid()

unsigned int dataobject::nid ( ) const

inline

◆ nrow()

unsigned int dataobject::nrow ( ) const

inline

◆ reload_parameters()

void dataobject::reload_parameters	(	const Rcpp::NumericVector &	param,
		odeproblem *	prob )

◆ return_uid()

uidtype dataobject::return_uid ( )

inline

◆ start()

int dataobject::start ( int i ) const

inline

Member Data Documentation

◆ any_copy

bool dataobject::any_copy

are there any parameter columns for copy / update?

◆ cmt_from

std::vector<int> dataobject::cmt_from

index for compartments in data set

◆ cmt_to

std::vector<int> dataobject::cmt_to

index for compartments in init list

◆ cmtnames

Rcpp::CharacterVector dataobject::cmtnames

names of model compartments

◆ col

std::vector<unsigned int> dataobject::col

◆ Data

Rcpp::NumericMatrix dataobject::Data

◆ Data_names

Rcpp::CharacterVector dataobject::Data_names

◆ done_copying

bool dataobject::done_copying

have we reached the last data record for this ID?

◆ Endrow

std::deque<int> dataobject::Endrow

data set end row for each ID

◆ Idcol

int dataobject::Idcol

which column holds ID

◆ idmap

std::map<double,int> dataobject::idmap

map to get

◆ last_copy_row

int dataobject::last_copy_row

tracking previous actual data row

◆ next_copy_row

int dataobject::next_copy_row

tracking current actual data row

◆ Nrow

std::vector<int> dataobject::Nrow

output data row count for each ID

◆ par_from

std::vector<int> dataobject::par_from

index for parameters in data set

◆ par_to

std::vector<int> dataobject::par_to

index for parameters in param list

◆ parnames

Rcpp::CharacterVector dataobject::parnames

names of model parameters

◆ Startrow

std::deque<int> dataobject::Startrow

start row for each ID

◆ Uid

std::deque<double> dataobject::Uid

unique IDs in the data set

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

inst/include/dataobject.h
src/dataobject.cpp

Public Member Functions

Public Attributes

Constructor & Destructor Documentation

◆ dataobject() [1/2]

◆ dataobject() [2/2]

◆ ~dataobject()

Member Function Documentation

◆ carry_out()

◆ check_idcol()

◆ copy_inits()

◆ copy_parameters()

◆ copy_parameters_nocb()

◆ decrement_inrow()

◆ end()

◆ get_col_n()

◆ get_etas()

◆ get_id_value()

◆ get_idata_row()

◆ get_records()

◆ get_records_pred()

◆ get_uid()

◆ get_value()

◆ idata_row()

◆ idcol()

◆ increment_inrow() [1/2]

◆ increment_inrow() [2/2]

◆ inrow()

◆ locate_tran()

◆ map_uid()

◆ ncol()

◆ next_id()

◆ nid()

◆ nrow()

◆ reload_parameters()

◆ return_uid()

◆ start()

Member Data Documentation

◆ any_copy

◆ cmt_from

◆ cmt_to

◆ cmtnames

◆ col

◆ Data

◆ Data_names

◆ done_copying

◆ Endrow

◆ Idcol

◆ idmap

◆ last_copy_row

◆ next_copy_row

◆ Nrow

◆ par_from

◆ par_to

◆ parnames

◆ Startrow

◆ Uid