MOM-class: Class "MOM"

Description Details Slots Objects from the Class Author(s)

Description

An object containing all the parameters needed to control a multi-stock, multi-fleet MSE which can be build from component Stock, Fleet, Obs, and Imp objects.

Details

Almost all of these inputs are a vector of length 2 which describes the upper and lower bounds of a uniform distribution from which to sample the parameter.

Slots

Name

Name of the operating model

Agency

Name of the agency responsible for the management of the fishery. Character string

Region

Name of the general geographic region of the fishery. Character string

Sponsor

Name of the organization who sponsored the OM. Character string

Latitude

Latitude (decimal degrees). Negative values represent the South of the Equator. Numeric. Single value

Longitude

Longitude (decimal degrees). Negative values represent the West of the Prime Meridian. Numeric. Single value

nsim

The number of simulations

proyears

The number of projected years

interval

The assessment interval - how often would you like to update the management system?

pstar

The percentile of the sample of the management recommendation for each method

maxF

Maximum instantaneous fishing mortality rate that may be simulated for any given age class

reps

Number of samples of the management recommendation for each method. Note that when this is set to 1, the mean value of the data inputs is used.

cpars

A hierarcical list nstock then nfleet long of custom parameters. Time series are a matrix nsim rows by nyears columns. Single parameters are a vector nsim long

seed

A random seed to ensure users can reproduce results exactly

Source

A reference to a website or article from which parameters were taken to define the operating model

Stocks

List of stock objects

Fleets

List of Fleet objects

Obs

Hierarchical List of Observation model objects Level 1 is stock, level 2 is fleet

Imps

Hierarchical List of Implementation model objects Level 1 is stock, level 2 is fleet

CatchFrac

A list nstock long, of matrices nsim x nfleet representing the fraction of current catches of the various fleets to each stock (each matrix is nsim by nfleet long and rows sum to 1 for each stock)

Allocation

A list nstock long, of matrices nsim x nfleet representing the fraction of future TACs of the various fleets to each stock (each matrix is nsim by nfleet long and rows sum to 1 for each stock).

Efactor

A list nstock long, of current effort factors by fleet (default is 1 - same as current effort)

Complexes

A list of stock complexes. Each position is a vector of stock numbers (as they appear in StockPars) for which data should be aggregated and TAC recommendations split among stocks according to vulnerable biomass

SexPars

A list of slots that control sex-specific dynamics

Rel

A list of biological / ecological relationships among stocks over-ridden if an MP of class 'MP_F" is supplied that is a multi-fleet MP.

Objects from the Class

Objects can be created by calls of the form new('MOM', Stock_list, Fleet_list, Obs_list, Imp_list).

Author(s)

T. Carruthers and A. Hordyk


tcarruth/MSEtool documentation built on Sept. 16, 2020, 5:59 a.m.