generate_ss3: Generate frequently used input data for Stock Synthesis 3

In Bai-Li-NOAA/IFA4EBFM: Interdisciplinary Projections for Ecosystem-Based Fisheries Management

Generate frequently used input data for Stock Synthesis 3

Description

Generate frequently used input data for Stock Synthesis 3

Usage

generate_ss3(
  file_path,
  r0,
  r0_phase = 1,
  steepness,
  sigmar,
  projection_f,
  projection_catch = NULL,
  sa_data,
  model_year,
  projection_year,
  use_depletion = FALSE,
  depletion_ratio = NULL,
  initial_equilibrium_catch = TRUE,
  settlement_age = 0
)

Arguments

file_path	A file path to a directory where the assessment input and output files will be saved.
r0	Unexploited recruitment from Beverton-Holt stock-recruitment model.
r0_phase	Phase for Unexploited recruitment from Beverton-Holt stock-recruitment model. Default value is 1.
steepness	Steepness from Beverton-Holt stock-recruitment model. Recruitment relative to unfished recruitment at 20% of unfished spawning biomass.
sigmar	Standard deviation of log recruitment.
projection_f	Fishing mortality inputs for projections.
projection_catch	Catch inputs for projections.
sa_data	Simulated stock assessment input data from Rscript/simulation.R.
model_year	A vector of years for model fitting.
projection_year	A vector of years for projection.
use_depletion	A logical value.
depletion_ratio	Ratio of depletion.
initial_equilibrium_catch	TRUE or FALSE.
settlement_age	Settlement age. Default value is age 0.

Value

Outputs from Stock Synthesis 3

Examples

## Not run: 
generate_ss3(
  file_path  = here::here("data", "data_rich"),
  r0 = 12, steepness = 0.5, sigmar =0.25,
  projection_f = 0.75, projection_catch = NULL,
  sa_data = sa_data, model_year = 1985:2012,
  projection_year = 2013:2017,
  use_depletion = FALSE, depletion_ratio = NULL
)

## End(Not run)

Bai-Li-NOAA/IFA4EBFM documentation built on July 1, 2024, 4:53 p.m.