Flr an open source framework for the evaluation and development of management strategies
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L.T. Kell, I. Mosqueira, P. Grosjean, J-M. Fromentin, D. Garcia, R. Hillary,  E. Jardim, S. Mardle, M. Pastoors, J. J. Poos, F. Scott and R. Scott. FLR: An Open-Source Framework for the Evaluation and Development of Management Strategies. What is FLR?. Fisheries Library in R

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Flr an open source framework for the evaluation and development of management strategies

L.T. Kell, I. Mosqueira, P. Grosjean, J-M. Fromentin, D. Garcia, R. Hillary,  E. Jardim, S. Mardle, M. Pastoors, J. J. Poos, F. Scott and R. Scott

FLR: An Open-Source Framework for the Evaluation and Development of Management Strategies


What is flr

What is FLR?

  • Fisheries Library in R

  • Provides extensible toolbox for simulating fisheries systems.

  • R – Open Source implementation of S

  • Uses R inbuilt graphical and statistical routines

  • Many user developed packages


What can be flr used for

What can be FLR used for?

  • Many different things:

    • development of plausible biological models

    • simulate management procedures (harvest control rules)

    • development of fleet dynamic models

    • include economics (indicators)

    • new additions include compliance model

    • not just stock assessments (XSA, ICA etc.)


Philosophy of flr

Philosophy of FLR

  • Open source license (GPL): you can modify a copy of the code, but you must distribute it under the same license.

  • Collaborative: Discussions are open (mailing list), website is editable, external review is encouraged

  • Breaking the barrier between user and developer

  • Improves inter-disciplinary dialogue


Design principles

Design principles

  • Object Oriented Programming

  • Different elements of system are treated as “objects”, e.g. stocks, fleets

  • Each object stores data and has functions that act on that data

  • Data stored in five dimensions:

    • User defined (e.g. age or length)

    • Year

    • Unit (e.g. male / female)

    • Season

    • Area

  • Sixth dimension - iteration


Basic classes

Basic classes

  • Include:

    • FLBiol – biological operating model

    • FLSR – stock-recruitment model

    • FLFleet – fleet and catch data

    • FLAssess – basic assessment class

  • Objects can be linked together to create simulations – “Lego blocks”

  • Learning curve: trade-off between flexibility and simplicity


Analysis with fleda

Analysis with FLEDA


Evaluating management strategies

Evaluating Management Strategies

  • Many sources of uncertainty: data, models, fleet behaviour, stock dynamics, environment etc.

  • Approach developed to simulate each aspect separately, e.g. simulate stock; assessment.

  • Combine simulated components within framework with feedback.

  • Allows for evaluation of robustness of alternative management strategies to underlying uncertainties.

  • Termed “Management Strategy Evaluation”.

  • Accepted approach (IWC, NOAA, NZ, ICES)


Flr an open source framework for the evaluation and development of management strategies

Management Strategy Evaluation

Hypotheses

Biological

Economic

Fleet behaviour

Stock/Fleet

Dynamics

The “Fishery”

The “Fishery”

The “Fishery”

Alternatives

Measures

Data

Management

Measures

Management


Flr an open source framework for the evaluation and development of management strategies

OPERATING MODEL

Represents the “true” dynamics of the system against which performance will be measured

MANAGEMENT PROCEDURE

Assess status of stock and set management options depending upon perceived status of fishery stock(s)

MODEL CONDITIONING

Management decision stage

Fleet dynamics

FLFleet

Management procedure

FLHCR

Biological reference points (e.g. MSY)

FLBRP

IMPLEMENTATION MODEL

FLEcon

INITIAL CONDITIONS

SUMMARY STATISTICS

Used to evaluate performance of management procedures against objectives.

Population biology

Assessment procedure

Stock dynamics

FLBiol

OBSERVATION ERROR MODEL

Generation of data on fishery and stocks.

FLOEM

Perceived stock

FLStock

Stock assessment (e.g. VPA)

FLAssess

Stock processes

e.g. Recruitment

FLSR

Auxiliary information

(e.g. tuning indices)

FLIndices

Assessment assumptions


North sea flatfish

North Sea Flatfish

  • Under COMMIT and EFIMAS

  • Evaluated EU Management Strategy

  • Two stocks – plaice and sole

  • Three fleets – Dutch, UK, Other

  • Aim of HCR is to reduce F to FMSY

  • Fleets either TAC or effort limited – depending on outcome of HCR

  • Economics also included - indicators


The flr wiki

The FLR Wiki

http://flr-project.org


The flr wiki1

The FLR Wiki

  • News and developments

  • Documentation

  • Tutorials and course material

  • Examples

  • Download packages

  • Users and developers can edit content


The flr packages

The FLR packages

  • Main package: FLCore

    • Main classes and functions

  • Collection of secondary packages

    • FLAssess

    • FLEDA

  • What’s in a package?

    • R code for all classes, methods and functions

    • Help pages for each of them

    • Examples and datasets

    • Test scripts

  • CVS


The flr initiative

The FLR initiative

  • Work funded by a number of EU projects (FEMS, COMMIT, EFIMAS, Fisboat, …)

  • Core team

    • Maintenance & development of main packages

    • 6 month release of official versions

    • Testing of submitted packages


Flr an open source framework for the evaluation and development of management strategies

COBECOS requirements

  • Requirement for development of generic code

  • Implement COBECOS theoretical approach on a case-study basis

  • Each case-study has individual requirements

  • Guidance can be provided

  • Use simple relationships versus complex (MSE) – depends on resources, data, linkages to other projects.


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