src/mcmc_gettersetter.h File Reference

#include "mcmc.h"

Go to the source code of this file.

Functions
const char **	get_params_descr (const mcmc *m)
unsigned long	get_params_accepts_global (const mcmc *m)
unsigned long	get_params_rejects_global (const mcmc *m)
unsigned long	get_params_accepts_sum (const mcmc *m)
unsigned long	get_params_rejects_sum (const mcmc *m)
gsl_vector *	get_accept_rate (const mcmc *m)
double	get_accept_rate_for (const mcmc *m, const unsigned int i)
double	get_accept_rate_global (const mcmc *m)
unsigned long	get_params_accepts_for (const mcmc *m, const unsigned int i)
unsigned long	get_params_rejects_for (const mcmc *m, const unsigned int i)
gsl_vector *	get_params (const mcmc *m)
double	get_params_for (const mcmc *m, const unsigned int i)
gsl_vector *	get_params_min (const mcmc *m)
double	get_params_min_for (const mcmc *m, const unsigned int i)
gsl_vector *	get_params_max (const mcmc *m)
double	get_params_max_for (const mcmc *m, const unsigned int i)
gsl_vector *	get_params_best (const mcmc *m)
double	get_params_best_for (const mcmc *m, const unsigned int i)
unsigned int	get_n_par (const mcmc *m)
gsl_rng *	get_random (const mcmc *m)
double	get_prob (const mcmc *m)
double	get_prior (const mcmc *m)
double	get_prob_best (const mcmc *m)
gsl_vector *	get_steps (const mcmc *m)
double	get_steps_for (const mcmc *m, const unsigned int i)
double	get_steps_for_normalized (const mcmc *m, const unsigned int i)
void	set_prob (mcmc *m, const double new_prob)
void	set_prob_best (mcmc *m, const double new_prob_best)
void	set_minmax_for (mcmc *m, const double new_min, const double new_max, const unsigned int i)
void	set_model (mcmc *m, gsl_vector *new_model)
void	set_n_par (mcmc *m, const int new_n_par)
void	set_params_best (mcmc *m, const gsl_vector *new_params_best)
void	set_params_for (mcmc *m, const double new_param, const unsigned int i)
void	set_params (mcmc *m, gsl_vector *new_params)
void	set_params_descr_all (mcmc *m, const char **new_par_descr)
void	set_params_descr_for (mcmc *m, const char *new_par_descr, const unsigned int i)
void	set_random (mcmc *m, gsl_rng *newrandom)
void	set_prior (mcmc *m, const double new_prior)
void	set_data (mcmc *m, const gsl_matrix *new_data)
void	set_steps_for (mcmc *m, const double new_steps, const unsigned int i)
void	set_steps_for_normalized (mcmc *m, const double new_step, const unsigned int i)
void	set_steps_all (mcmc *m, const double *new_steps)
void	set_params_accepts_for (mcmc *m, const long new_params_accept, const unsigned int i)
void	set_params_rejects_for (mcmc *m, const long new_params_reject, const unsigned int i)
void	inc_params_accepts_for (mcmc *m, const unsigned int i)
void	inc_params_rejects_for (mcmc *m, const unsigned int i)
void	inc_params_accepts (mcmc *m)
void	inc_params_rejects (mcmc *m)
void	reset_accept_rejects (mcmc *m)
double	get_next_uniform_random (const mcmc *m)
double	get_next_uniform_plusminus_random (const mcmc *m)
double	get_next_alog_urandom (const mcmc *m)
double	get_next_random_jump (const mcmc *m, const double sigma)

---

Function Documentation

gsl_vector* get_accept_rate

(

const mcmc *

m

)

References get_n_par, get_vector_from_array(), mcmc::params_accepts, mcmc::params_rejects, and r.

Referenced by markov_chain_calibrate_orig().

double get_accept_rate_for	(	const mcmc *	m,
		const unsigned int	i
	)

References get_params_accepts_for(), and get_params_rejects_for().

double get_accept_rate_global

(

const mcmc *

m

)

References get_params_accepts_global(), and get_params_rejects_global().

Referenced by markov_chain_calibrate_orig().

unsigned int get_n_par

(

const mcmc *

m

)

Referenced by analyse_marginal_distributions(), assess_acceptance_rate(), calc_model(), calibrate_rest(), dump_mcmc(), main(), markov_chain_calibrate_alt(), markov_chain_calibrate_linear_regression(), markov_chain_calibrate_multilinear_regression(), markov_chain_calibrate_orig(), markov_chain_calibrate_quadratic(), mcmc_dump_close(), mcmc_dump_current(), mcmc_dump_flush(), mcmc_free(), mcmc_open_dump_files(), read_calibration_file(), rmw_adapt_stepwidth(), write_calibration_summary(), write_calibrations_file(), and write_params_file().

double get_next_alog_urandom

(

const mcmc *

m

)

get next random number (logarithmic uniformly distributed between -inf and 0)

References get_next_uniform_random().

Referenced by test_random().

double get_next_random_jump	(	const mcmc *	m,
		const double	sigma
	)

get next random number (distributed by the proposal distribution)

You can choose a proposal distribution. The default is a gaussian distribution.

Set PROPOSAL_LOGISTIC, PROPOSAL_UNIFORM if you want to use a different proposal distribution.

References get_random().

Referenced by do_step_for().

double get_next_uniform_plusminus_random

(

const mcmc *

m

)

get next random number (uniformly distributed between -1 and 1)

References get_next_uniform_random().

double get_next_uniform_random

(

const mcmc *

m

)

get next random number (uniformly distributed between 0 and 1)

References get_random().

Referenced by get_next_alog_urandom(), get_next_uniform_plusminus_random(), parallel_tempering_decide_swap_now(), parallel_tempering_decide_swap_random(), rmw_adapt_stepwidth(), and test_random().

gsl_vector* get_params

(

const mcmc *

m

)

References mcmc::params.

Referenced by burn_in(), dump(), main(), markov_chain_calibrate_alt(), markov_chain_calibrate_orig(), print_current_positions(), and read_calibration_file().

unsigned long get_params_accepts_for	(	const mcmc *	m,
		const unsigned int	i
	)

References mcmc::params_accepts.

Referenced by assess_acceptance_rate(), and get_accept_rate_for().

unsigned long get_params_accepts_global

(

const mcmc *

m

)

References mcmc::accept.

Referenced by assess_acceptance_rate(), dump(), and get_accept_rate_global().

unsigned long get_params_accepts_sum

(

const mcmc *

m

)

References get_n_par, and mcmc::params_accepts.

Referenced by adapt().

gsl_vector* get_params_best

(

const mcmc *

m

)

References mcmc::params_best.

Referenced by calibrate_rest(), print_current_positions(), restart_from_best(), and write_params_file().

double get_params_best_for	(	const mcmc *	m,
		const unsigned int	i
	)

References mcmc::params_best.

const char** get_params_descr

(

const mcmc *

m

)

References mcmc::params_descr.

Referenced by analyse_marginal_distributions(), calc_marginal_distribution(), markov_chain_calibrate_orig(), and write_params_file().

double get_params_for	(	const mcmc *	m,
		const unsigned int	i
	)

References mcmc::params.

Referenced by calc_model(), and write_calibrations_file().

gsl_vector* get_params_max

(

const mcmc *

m

)

References mcmc::params_max.

Referenced by calc_beta_0(), and write_params_file().

double get_params_max_for	(	const mcmc *	m,
		const unsigned int	i
	)

References mcmc::params_max.

Referenced by calc_marginal_distribution(), get_steps_for_normalized(), main(), and set_steps_for_normalized().

gsl_vector* get_params_min

(

const mcmc *

m

)

References mcmc::params_min.

Referenced by calc_beta_0(), and write_params_file().

double get_params_min_for	(	const mcmc *	m,
		const unsigned int	i
	)

References mcmc::params_min.

Referenced by calc_marginal_distribution(), get_steps_for_normalized(), main(), and set_steps_for_normalized().

unsigned long get_params_rejects_for	(	const mcmc *	m,
		const unsigned int	i
	)

References mcmc::params_rejects.

Referenced by get_accept_rate_for().

unsigned long get_params_rejects_global

(

const mcmc *

m

)

References mcmc::reject.

Referenced by dump(), and get_accept_rate_global().

unsigned long get_params_rejects_sum

(

const mcmc *

m

)

References get_n_par, and mcmc::params_rejects.

Referenced by adapt().

double get_prior

(

const mcmc *

m

)

References mcmc::prior.

Referenced by calc_model(), main(), and run_sampler().

double get_prob

(

const mcmc *

m

)

References mcmc::prob.

Referenced by adapt(), main(), markov_chain_step(), markov_chain_step_for(), print_current_positions(), rmw_adapt_stepwidth(), and run_sampler().

double get_prob_best

(

const mcmc *

m

)

References mcmc::prob_best.

Referenced by print_current_positions(), and restart_from_best().

gsl_rng* get_random

(

const mcmc *

m

)

References mcmc::random.

Referenced by get_next_random_jump(), get_next_uniform_random(), and markov_chain_calibrate_multilinear_regression().

gsl_vector* get_steps

(

const mcmc *

m

)

References mcmc::params_step.

Referenced by adapt(), burn_in(), calc_beta_0(), calibrate_rest(), markov_chain_calibrate_multilinear_regression(), markov_chain_calibrate_orig(), rmw_adapt_stepwidth(), write_calibration_summary(), and write_params_file().

double get_steps_for	(	const mcmc *	m,
		const unsigned int	i
	)

References mcmc::params_step.

Referenced by get_steps_for_normalized(), markov_chain_calibrate_alt(), markov_chain_calibrate_orig(), write_calibration_summary(), and write_calibrations_file().

double get_steps_for_normalized	(	const mcmc *	m,
		const unsigned int	i
	)

References get_params_max_for(), get_params_min_for(), and get_steps_for().

Referenced by markov_chain_calibrate_alt(), markov_chain_calibrate_multilinear_regression(), markov_chain_calibrate_orig(), and markov_chain_calibrate_quadratic().

void inc_params_accepts

(

mcmc *

m

)

References mcmc::accept, get_n_par, and inc_params_accepts_for().

Referenced by markov_chain_step().

void inc_params_accepts_for	(	mcmc *	m,
		const unsigned int	i
	)

References mcmc::params_accepts.

Referenced by inc_params_accepts(), and markov_chain_step_for().

void inc_params_rejects

(

mcmc *

m

)

References get_n_par, inc_params_rejects_for(), and mcmc::reject.

Referenced by markov_chain_step().

void inc_params_rejects_for	(	mcmc *	m,
		const unsigned int	i
	)

References mcmc::params_rejects.

Referenced by inc_params_rejects(), and markov_chain_step_for().

void reset_accept_rejects

(

mcmc *

m

)

restart counting

References mcmc::accept, get_n_par, mcmc::reject, set_params_accepts_for(), and set_params_rejects_for().

Referenced by adapt(), assess_acceptance_rate(), and markov_chain_calibrate_orig().

void set_data	(	mcmc *	m,
		const gsl_matrix *	new_data
	)

References mcmc::data.

Referenced by prepare_and_run_sampler().

void set_minmax_for	(	mcmc *	m,
		const double	new_min,
		const double	new_max,
		const unsigned int	i
	)

References mcmc::params_max, and mcmc::params_min.

void set_model	(	mcmc *	m,
		gsl_vector *	new_model
	)

void set_n_par	(	mcmc *	m,
		const int	new_n_par
	)

void set_params	(	mcmc *	m,
		gsl_vector *	new_params
	)

References assert, mcmc::n_par, and mcmc::params.

Referenced by calibrate_rest(), markov_chain_step(), and restart_from_best().

void set_params_accepts_for	(	mcmc *	m,
		const long	new_params_accept,
		const unsigned int	i
	)

References mcmc::params_accepts.

Referenced by reset_accept_rejects().

void set_params_best	(	mcmc *	m,
		const gsl_vector *	new_params_best
	)

References mcmc::params_best.

Referenced by mcmc_check_best(), and read_calibration_file().

void set_params_descr_all	(	mcmc *	m,
		const char **	new_par_descr
	)

References mcmc::params_descr.

void set_params_descr_for	(	mcmc *	m,
		const char *	new_par_descr,
		const unsigned int	i
	)

References mcmc::params_descr.

void set_params_for	(	mcmc *	m,
		const double	new_param,
		const unsigned int	i
	)

References assert, and mcmc::params.

Referenced by do_step_for(), main(), markov_chain_step_for(), and read_calibration_file().

void set_params_rejects_for	(	mcmc *	m,
		const long	new_params_reject,
		const unsigned int	i
	)

References mcmc::params_rejects.

Referenced by reset_accept_rejects().

void set_prior	(	mcmc *	m,
		const double	new_prior
	)

References mcmc::prior.

Referenced by calc_model().

void set_prob	(	mcmc *	m,
		const double	new_prob
	)

References mcmc::prob.

Referenced by calc_model(), and restart_from_best().

void set_prob_best	(	mcmc *	m,
		const double	new_prob_best
	)

References mcmc::prob_best.

void set_random	(	mcmc *	m,
		gsl_rng *	newrandom
	)

References mcmc::random.

void set_steps_all	(	mcmc *	m,
		const double *	new_steps
	)

References get_n_par, and set_steps_for().

void set_steps_for	(	mcmc *	m,
		const double	new_steps,
		const unsigned int	i
	)

References mcmc::params_step.

Referenced by markov_chain_calibrate_alt(), markov_chain_calibrate_orig(), read_calibration_file(), and set_steps_all().

void set_steps_for_normalized	(	mcmc *	m,
		const double	new_step,
		const unsigned int	i
	)

References get_params_max_for(), get_params_min_for(), and mcmc::params_step.

Referenced by markov_chain_calibrate_linear_regression(), markov_chain_calibrate_multilinear_regression(), markov_chain_calibrate_orig(), and markov_chain_calibrate_quadratic().