Class

An object containing all the parameters for a salmon operating model (SOM).

Slots

Name: Character. Identifying name
nsim: Integer. Number of simulations
nyears: Integer. The number of historical years
proyears: Integer. The number of projected years
seed: Integer. A random seed to ensure users can reproduce results exactly
Bio: Bio object informing biological parameters, natural production, and habitat effects. Provide a list of Bio objects for multi-population models.
Habitat: Habitat object containing management levers for habitat mitigation. Provide a list of Habitat objects for multi-population models.
Hatchery: Hatchery object containing management levers for hatchery production. Provide a list of Hatchery objects for multi-population models.
Harvest: Harvest object containing management levers for harvest. Provide a list of Harvest objects for multi-population models.
Historical: Historical object to inform historical reconstruction and informing starting abundance for the projection. Provide a list of Historical objects for multi-population models.
stray: Matrix [np, np] where np = length(Bio) and row p indicates the re-assignment of hatchery fish to each population when they mature (at the recruitment life stage). For example, SOM@stray <- matrix(c(0.75, 0.25, 0.25, 0.75), 2, 2) indicates that 75 percent of mature fish return to their natal river and 25 percent stray in both populations. By default, an identity matrix is used (no straying).

Objects can be created by calls of the form new("SOM", Bio, Habitat, Hatchery, Harvest, Historical).