rcpp_simulate: rcpp_simulate

In Allgeier-Lab/arrR: Individual-Based Simulation Model of Artifical Reefs in R

rcpp_simulate

Description

Rcpp run simulation.

Usage

rcpp_simulate(
  seafloor,
  fishpop,
  nutrients_input,
  seafloor_track,
  fishpop_track,
  parameters,
  movement,
  extent,
  dimensions,
  torus_diffusion,
  max_i,
  min_per_i,
  save_each,
  seagrass_each,
  burn_in,
  to_disk,
  path_disk,
  verbose
)

Arguments

seafloor, fishpop	Matrix with seafloor and fishpop data.
nutrients_input	Vector with amount of nutrient input each time step.
seafloor_track, fishpop_track	List with entry for each saving time step.
parameters	List with parameters.
movement	String specifing movement algorithm.
extent	Vector with extent (xmin,xmax,ymin,ymax).
dimensions	Vector with dimensions (nrow, ncol).
torus_diffusion	Logical if diffusion uses torus.
max_i	Integer with maximum number of simulation time steps.
min_per_i	Integer to specify minutes per i.
save_each	Numeric how often data should be saved to return.
seagrass_each	Integer how often (each i * x) seagrass dynamics will be simulated.
burn_in	Numeric with time steps used to burn in.
to_disk	Logical if TRUE, results are written into a text file.
path_disk	String with path to result text files.
verbose	Logical if TRUE, progress reports are printed.

Details

The functions is a 'wrapper' around the following sub-processes: (i) nutrient input, (ii) seagrass growth, (iii) detritus mineralization, (iv) movement of individuals, (v) respiration of individuals, (vi) growth of individuals, (vii) mortality of individuals, (viii) diffusion of nutrients/detritus, and ix) nutrient output.

Value

void

References

For a detailed model description, please see Esquivel, K.E., Hesselbarth, M.H.K., Allgeier, J.E., 2022. Mechanistic support for increased primary production around artificial reefs. Ecological Applications e2617. <https://doi.org/10.1002/eap.2617>

Allgeier-Lab/arrR documentation built on Feb. 13, 2025, 7:44 a.m.