Diagnose biological feasibility of an Opal model

Checks the initial-equilibrium and harvest penalties, population states, biological inputs, catch reconstruction, and derived depletion. A numerical optimum alone does not imply that these checks pass.

Usage

opal_diagnose(x, penalty_tolerance = 1e-10, catch_tolerance = 1e-06)

Arguments

x

A configured or fitted opal_obj.

penalty_tolerance

Maximum allowed positive continuation penalty.

catch_tolerance

Maximum catch error divided by pmax(1, observed).

Value

A list with passes, named logical checks, and numerical metrics.

Details

Zero abundance is allowed, but unfished spawning output must be positive. Catch is conditioned on, so its difference is a reconstruction check, not an observation residual. Checks use the reported, draw-specific biology. They do not assess identifiability or scientific model adequacy.

See also

Other assessment diagnostics: opal_osa(), plot_composition(), plot_osa_residuals(), plot_osa_sdnr(), plot_prior_posterior()