case_fishing: Write a case file for fishing data to the disk.

In ss3sim: Fisheries Stock Assessment Simulation Testing with Stock Synthesis

Description

Use R code to write arguments to the disk, which will later be used in a ss3sim simulation.

Usage

case_fishing(years = 1, years_alter = NULL, fvals = 2, case, spp)

Arguments

years	Vector of years for which F values are specified, if there is more than one fleet or season the catches must be ordered by season:year:fishery (e.g., season1year1fishery1, season2year1fishery1, season1year2fishery1). The actual vector does not have to correspond to true years but must be the correct length (e.g., instead of 2000:2004 you can use 1:5). Use this argument to create an index to old values. years_alter will use values in this vector. For example, with two seasons and one fishery that operates for 4 years you could use the following: 1:8.
years_alter	Vector of years for the which F values will be altered. If there is more than one fishery or season, use the mapping system created in years because actual year values cannot be recycled. For example, to change the second season of the second year in the example above, use: 4.
fvals	Vector of F values to be entered into ss.par file, where length(fvals) == length(years_alter) must be true.
case	The case number you want to write to. If case = 1, then the result will be 'F1'.
spp	A vector of character values argument specifying the species.

Examples

case_fishing(1:100, 1:100, seq(0, 0.4, length.out = 100), 2, "cod")
done <- file.remove("F2-cod.txt")

ss3sim documentation built on Nov. 9, 2019, 1:06 a.m.