create_execution_plan

Consolidates all parameters needed for FB4 execution into a single plan object.
Handles method auto-detection, backend selection, and parameter validation.

internal

An implementation of the 'Fish Bioenergetics 4.0' framework
described in Deslauriers et al. (2017)
<doi:10.1080/03632415.2017.1377558>. Provides automated parameter
optimization, multi-prey diet modeling, and comprehensive energy budget
simulations for fisheries research and aquaculture applications. An
optional 'TMB' (Template Model Builder) backend delivers 10-50x speedup
in maximum likelihood estimation while maintaining full backward
compatibility. Includes species-specific parameter databases and tools
for modeling fish growth, consumption, and metabolism under varying
environmental conditions.

Hans Ttito

fb4package

'Fish Bioenergetics 4.0' Model Implementation with
High-Performance 'TMB' Backend

create_execution_plan function

<dl><dt>bio_obj</dt>
<dd>Bioenergetic object</dd>
<dt>fit_to</dt>
<dd>Target type for fitting</dd>
<dt>fit_value</dt>
<dd>Target value for fitting</dd>
<dt>observed_weights</dt>
<dd>Vector of observed weights (for MLE/bootstrap)</dd>
<dt>strategy</dt>
<dd>Execution method ("binary_search", "optim", "mle", "bootstrap", "hierarchical")</dd>
<dt>backend</dt>
<dd>Backend selection ("r", "tmb")</dd>
<dt>first_day</dt>
<dd>First simulation day</dd>
<dt>last_day</dt>
<dd>Last simulation day</dd>
<dt>...</dt>
<dd>Additional parameters</dd></dl>

Arguments

Create execution plan for FB4 strategies — create_execution_plan

<dl>

<dt>bio_obj</dt>
<dd>Bioenergetic object</dd>


<dt>fit_to</dt>
<dd>Target type for fitting</dd>


<dt>fit_value</dt>
<dd>Target value for fitting</dd>


<dt>observed_weights</dt>
<dd>Vector of observed weights (for MLE/bootstrap)</dd>


<dt>strategy</dt>
<dd>Execution method ("binary_search", "optim", "mle", "bootstrap", "hierarchical")</dd>


<dt>backend</dt>
<dd>Backend selection ("r", "tmb")</dd>


<dt>first_day</dt>
<dd>First simulation day</dd>


<dt>last_day</dt>
<dd>Last simulation day</dd>


<dt>...</dt>
<dd>Additional parameters</dd>

</dl>

create_execution_plan: Create execution plan for FB4 strategies

Description

Usage

Value

Arguments