MSE Options

The run_mse() function, and its associated wrapper functions, rely on an “options” list object to customize behavior. A default “options” list object can be created with the setup_mse_options() function. Required options, and their default values, are described below:

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run_estimation: whether the estimation model should be run and reference points/recommended TACs calculated from population estimates. If FALSE, reference points and TACs (from the HCR) will be calculated using OM values of selectivity and recruitment. DEFAULT: TRUE.

ref_points$spr_target: the target SPR used for reference points. The reference point function returns both an F that yields the target SPR and the spawning biomass associated with that target SPR level. DEFAULT: 0.40.

management$abc_tac_reduction: a reduction factor for calculating TACs based on an ABC calculated from the HCR recommendation. This option is 0-1 bounded. DEFAULT: 1.0.

management$tac_land_reduction: a reduction factor for calculating what percentage of the recommended TAC is actually landed. This option is 0-1 bounded. DEFAULT: 1.0.

management$max_stability: whether or not stability constraints should be applied to the TAC to regulate interannual changes in established TACs. Values represent a maximum allowable percentage change between the current year’s TAC and next year’s TAC. If not stability constraints should be applied, set to NA. DEFAULT: NA.

management$harvest_cap: whether or not a harvest cap should be applied. Values represent a maximum allowable TAC. The tac_land_reduction is applied after this cap has been applied. If no cap should be applied, set to NA. DEFAULT: NA.