Shared scripts page

This page is a collection of ISIS-Fish users’ application specific scripts that the authors have been willing to share with the community.

When submitting a script, please supply * the author’s name; * the version of ISIS-Fish; * the region; * for simulation plans, the purpose – exploration of a parameter space, sensitivity analysis, etc.; * description of the function of the script.

Simulation plans

P_As_planFactFractV-12param for the Bay of Biscay anchovy fishery

Sigrid – V3.1.3 – Simulation plan for sensitivity analysis of the model of the Bay of Biscay anchovy fishery

Group screening for 12 groups of parameters (standardization factors, adult natural death rates, juvenile natural death rates, accessibility, migration, length class limits, selectivity, target factors, inactivity, total authorized catch (French and Spanish fleets), MPA parameters) with a fractional factorial design at resolution V (256 runs).

Simulation plan, experimental design matrix and parameter files

Accessibility calibration

Sigrid – V3.3.0.8 – Simulation plan for calibrating accessibility

Using a simplex method (Walters, F.H., Parker, L.R., Morgan, S.L. and Deming, S.N. 1991. Sequential Simplex optimization: a technique for improving quality and productivity in research, development, and manufacturing (Chemometrics series). B.R. CRC Press LLC. 402 pp.) Five initial values are specified at equal intervals and the algorithm finds the value that minimizes the objective function using smaller and smaller steps.

Simulation plan

Simulation plan modifying fishery management rules

Sigrid – V3.3.0.8 – Simulation plan exploring the effect of changes in fishery management rules for the Bay of Biscay anchovy fishery

All files required for this plan

Simulation plan modifying fishery management rules and parameters

Sigrid – V3.3.0.8 – Simulation plan exploring the effect of changes in fishery management rules and inactivity parameters for the Bay of Biscay anchovy fishery

All files required for this plan

Rules

Sigrid – V3.3.0.4 – Rule

Modification of the total authorized catch script to apply from July to June, to apply to only one strategy and to close the fishery if the biomass falls below a threshold.

Modified TAC script

Sigrid – V3.3.0.8 – Rule

Reducing the fishing effort by changing the inactivity

Fishing effort reduction

Sigrid – V3.3.0.8 – Rule

The % of fishing effort for each metier for each month is defined by a file

Effort %

Coming soon :

  • A rule based on a Random Utility Model (RUM)
  • A rule based on a RUM and TAC
  • A Harvest Control Rule setting the TAC as a function of the biomass

Exports

Sensitivity analysis

Sensitivity analysis exports

Simulators

Equations

Some tricky equations to give an idea of what is possible (Sigrid – anchovy fishery)

Scripts