route_and_rear_deltas.RdDetermines if juveniles stay in the delta or out migrate to golden gate during a simulated month. Then the remaining juveniles in the delta rear (growth and survival rates applied) and survival rates are applied to out migrating juveniles
route_and_rear_deltas(
year,
month,
migrants,
north_delta_fish,
south_delta_fish,
north_delta_habitat,
south_delta_habitat,
freeport_flows,
cc_gates_days_closed,
rearing_survival_delta,
migratory_survival_delta,
migratory_survival_bay_delta,
juveniles_at_chipps,
growth_rates,
location_index = c(rep(1, 24), 3, rep(2, 2), rep(4, 4)),
territory_size,
stochastic
)IP-117068
The current simulation year, 1-20
The current simulation month
An n by 4 matrix of juvenile fish by watershed and size class
An n by 4 matrix of juvenile fish by watershed and size class
An n by 4 matrix of juvenile fish by watershed and size class
A vector of available habitat in square meters
A vector of available habitat in square meters
Monthly mean flow at freeport in cubic feet per second
Number of days the Cross Channel gates are closed during the month
The rearing survival rate for North and South Delta
The outmigration survival rate for North and South Delta
The outmigration survival rate in the Bay Delta
The accumulated juveniles at Chipps Island for the current year
The delta growth rate
Migratory survival probability location index for fish coming from 4 areas (1-4) representing "northern_fish", "cosumnes_mokelumne_fish", "calaveras_fish", or "southern_fish" respectively
Array of juvenile fish territory requirements for fill_natal
TRUE FALSE value indicating if model is being run stochastically