Class

Optional component of the operating model that specifies the historical dynamics.

Details

Several approaches are possible:

No set up. Default option sets 1000 natural-origin juveniles (age 1), and 1000 hatchery-origin juveniles (age 1) if there is hatchery production (otherwise, zero).
Recommended option: specify the initial spawning abundance in the terminal age class.
Detailed setup that reconstructs a historical population by specifying the juvenile abundance (at the beginning of the year), annual fishing mortality rates, and spawner abundance. Typically used if there an estimation/conditioning model is used to inform parameters of the operating model.

Slots

Name: Character. Identifying name
HistSpawner_NOS: Natural origin spawners at age. Either a numeric to specify the total natural spawners (in the oldest age class) at the beginning of the projection, otherwise, an array by [nsim, maxage, nyears, n_g]. Default is 1,000 spawners.
HistSpawner_HOS: Hatchery origin spawners at age. Either a numeric to specify the total hatchery spawners (in the oldest age class) at the beginning of the projection, otherwise, an array by [nsim, maxage, nyears, n_r]. Default is 1,000 spawners if there is hatchery production or zero otherwise.
HistNjuv_NOS: Array by [nsim, maxage, nyears+1, n_g]. The abundance of immature natural origin fish at the beginning of the annual time step. Default assumes 1000 smolts (age-1) fish annually.
HistNjuv_HOS: Array by [nsim, maxage, nyears+1, n_r]. The abundance of immature hatchery origin fish at the beginning of the annual time step. Default assumes 1000 smolts (age-1) fish annually.
HistFPT: Vector by historical years (nyears) or an array by dimension [nsim, nyears, 2]. The instantaneous fishing mortality in the preterminal fishery. The first array slice corresponds to F for natural origin fish and the second array slice corresponds to hatchery origin fish. Default is zero.
HistFT: Vector by historical years (nyears) or an array by dimension [nsim, nyears, 2]. The instantaneous fishing mortality in the terminal fishery. The first array slice corresponds to F for natural origin fish and the second array slice corresponds to hatchery origin fish. Default is zero.

Creating Object

Objects can be created by calls of the form new("Historical")

Examples

showClass("Historical")
#> Class "Historical" [package "salmonMSE"]
#> 
#> Slots:
#>                                                                       
#> Name:             Name HistSpawner_NOS HistSpawner_HOS    HistNjuv_NOS
#> Class:       character       num.array       num.array           array
#>                                                       
#> Name:     HistNjuv_HOS         HistFPT          HistFT
#> Class:           array       num.array       num.array
#> 
#> Extends: "Historical.list"