#include <parameters.hpp>

Public Member Functions
	Parameters ()
	Constructor.

void	read (std::istream &)
	Read json-only variables from stream.

std::ostream &	write (std::ostream &) const
	Write json-only variables to stream.

Public Attributes
Global
int32_t	seed {0}
	RNG seed; 32-bit signed integer for R.

std::string	outdir {}
	Output directory.

int	years {80}
	Duration of simulation.

size_t	origin {0u}
	Initial number of juveniles at location 0 in season 0 in year 0. It falls back to \(\operatorname{med}(R)\) or \(K\) if 0.

Reproduction
double	med_recruitment {0.0}
	\(\operatorname{med}(R) = \exp(\mu_{R})\) for lognormal distribution

double	sigma_recruitment {1.0}
	\(\sigma_{R}\) for lognormal distribution

double	carrying_capacity {2e3}
	\(K\): carrying capacity used in Population::reproduce()

double	recruitment {2.0}
	\(r\): coefficient used in Population::reproduce()

double	overdispersion {-1.0}
	\(k \in (0, \infty)\) for overdispersion in Population::reproduce(). Equivalent to Poisson when \(k \to \infty\) (or \(k<0\) for convience).

Sampling
int	last {3}
	Sample last _ years.

std::vector< size_t >	sample_size_adult {10u, 10u}
	per location

std::vector< size_t >	sample_size_juvenile {10u, 10u}
	per location

Configurable only via JSON
using	RowMatrix = std::vector<std::vector<double>>
	Alias for readability.

std::vector< double >	natural_mortality {}
	Array of \(M\) for quarter age: instantaneous mortality due to natural causes.

std::vector< double >	fishing_mortality {}
	Array of \(F\) for quarter age: instantaneous mortality due to fishing activities.

std::vector< double >	fishing_coef {}
	Array of \(e\) by year: coefficient of fishing mortality. The last element is used for the last years if its length differs from years.

std::vector< double >	weight_for_age {}
	Weight in kg for quarter age.

std::vector< RowMatrix >	migration_matrices {}
	Transition matrix for Population::migrate()

Detailed Description

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

Public Member Functions