build based on 6b14210

dev/.documenter-siteinfo.json

@@ -1 +1 @@
-{"documenter":{"julia_version":"1.10.4","generation_timestamp":"2024-07-03T13:28:21","documenter_version":"1.5.0"}}
+{"documenter":{"julia_version":"1.10.4","generation_timestamp":"2024-07-03T13:28:51","documenter_version":"1.5.0"}}

dev/tutorial-basic-example-f.html

@@ -50,6 +50,6 @@
 Number of equality constraint Jacobian evaluations   = 3
 Number of inequality constraint Jacobian evaluations = 0
 Number of Lagrangian Hessian evaluations             = 2
-Total seconds in IPOPT                               = 2.198
+Total seconds in IPOPT                               = 2.233
 
-EXIT: Optimal Solution Found.</code></pre><p>and plot the solution</p><pre><code class="language-julia hljs">plot(sol, size=(600, 450))</code></pre><img src="tutorial-basic-example-f-abff629d.svg" alt="Example block output"/></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="tutorial-basic-example.html">« Basic example</a><a class="docs-footer-nextpage" href="tutorial-double-integrator.html">Double integrator: time minimisation »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="catppuccin-latte">catppuccin-latte</option><option value="catppuccin-frappe">catppuccin-frappe</option><option value="catppuccin-macchiato">catppuccin-macchiato</option><option value="catppuccin-mocha">catppuccin-mocha</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.5.0 on <span class="colophon-date" title="Wednesday 3 July 2024 13:28">Wednesday 3 July 2024</span>. Using Julia version 1.10.4.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
+EXIT: Optimal Solution Found.</code></pre><p>and plot the solution</p><pre><code class="language-julia hljs">plot(sol, size=(600, 450))</code></pre><img src="tutorial-basic-example-f-7e301437.svg" alt="Example block output"/></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="tutorial-basic-example.html">« Basic example</a><a class="docs-footer-nextpage" href="tutorial-double-integrator.html">Double integrator: time minimisation »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="catppuccin-latte">catppuccin-latte</option><option value="catppuccin-frappe">catppuccin-frappe</option><option value="catppuccin-macchiato">catppuccin-macchiato</option><option value="catppuccin-mocha">catppuccin-mocha</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.5.0 on <span class="colophon-date" title="Wednesday 3 July 2024 13:28">Wednesday 3 July 2024</span>. Using Julia version 1.10.4.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>

dev/tutorial-basic-example.html

@@ -47,6 +47,6 @@
 Number of equality constraint Jacobian evaluations   = 3
 Number of inequality constraint Jacobian evaluations = 0
 Number of Lagrangian Hessian evaluations             = 2
-Total seconds in IPOPT                               = 0.023
+Total seconds in IPOPT                               = 0.030
 
-EXIT: Optimal Solution Found.</code></pre><p>and plot the solution</p><pre><code class="language-julia hljs">plot(sol, size=(600, 450))</code></pre><img src="tutorial-basic-example-715a87de.svg" alt="Example block output"/></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="index.html">« Introduction</a><a class="docs-footer-nextpage" href="tutorial-basic-example-f.html">Basic example (functional version) »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="catppuccin-latte">catppuccin-latte</option><option value="catppuccin-frappe">catppuccin-frappe</option><option value="catppuccin-macchiato">catppuccin-macchiato</option><option value="catppuccin-mocha">catppuccin-mocha</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.5.0 on <span class="colophon-date" title="Wednesday 3 July 2024 13:28">Wednesday 3 July 2024</span>. Using Julia version 1.10.4.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
+EXIT: Optimal Solution Found.</code></pre><p>and plot the solution</p><pre><code class="language-julia hljs">plot(sol, size=(600, 450))</code></pre><img src="tutorial-basic-example-08ce8cd4.svg" alt="Example block output"/></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="index.html">« Introduction</a><a class="docs-footer-nextpage" href="tutorial-basic-example-f.html">Basic example (functional version) »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="catppuccin-latte">catppuccin-latte</option><option value="catppuccin-frappe">catppuccin-frappe</option><option value="catppuccin-macchiato">catppuccin-macchiato</option><option value="catppuccin-mocha">catppuccin-mocha</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.5.0 on <span class="colophon-date" title="Wednesday 3 July 2024 13:28">Wednesday 3 July 2024</span>. Using Julia version 1.10.4.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>

dev/tutorial-batch.html

@@ -51,4 +51,4 @@
 Objective 0.0769994219213667 after 31 iterations</code></pre><pre><code class="language-julia hljs">sol2 = solve(batch; grid_size=1000, print_level=0, init=sol1)
 println(&quot;Objective &quot;, sol2.objective, &quot; after &quot;, sol2.iterations, &quot; iterations&quot;)</code></pre><pre class="documenter-example-output"><code class="nohighlight hljs ansi">Method = (:direct, :adnlp, :ipopt)
 Objective 0.07683200113876136 after 22 iterations</code></pre><h2 id="Plotting"><a class="docs-heading-anchor" href="#Plotting">Plotting</a><a id="Plotting-1"></a><a class="docs-heading-anchor-permalink" href="#Plotting" title="Permalink"></a></h2><p>We eventually plot the solutions (raw grid + finer grid) and observe that the control exhibits the expected structure with a Fuller-in arc followed by a singular one, then a Fuller-out arc:</p><pre><code class="language-julia hljs">plot(sol1, size=(800, 800))
-plot!(sol2)</code></pre><img src="tutorial-batch-1d775d26.svg" alt="Example block output"/><h2 id="References"><a class="docs-heading-anchor" href="#References">References</a><a id="References-1"></a><a class="docs-heading-anchor-permalink" href="#References" title="Permalink"></a></h2><section class="footnotes is-size-7"><ul><li class="footnote" id="footnote-1"><a class="tag is-link" href="#citeref-1">1</a>Giordano, N.; Mairet, F.; Gouzé, J.-L.; Geiselmann, J.; De Jong, H. Dynamical allocation of cellular resources as an optimal control problem: novel insights into microbial growth strategies. <em>PLoS comp. biol.</em> <strong>12</strong> (2016), e1004802. </li><li class="footnote" id="footnote-2"><a class="tag is-link" href="#citeref-2">2</a>Yabo, A. G.; Caillau, J.-B.; Gouzé, J.-L.; de Jong, H.; Mairet, F. Dynamical analysis and optimization of a generalized resource allocation model of microbial growth. <em>SIAM J. Appl. Dyn. Syst.</em> <strong>21</strong> (2022), no. 1, 137-165.</li><li class="footnote" id="footnote-3"><a class="tag is-link" href="#citeref-3">3</a>Yabo, A. G.; Caillau, J.-B.; Gouzé, J.-L. Optimal bacterial resource allocation strategies in batch processing. <em>SIAM J. Appl. Dyn. Syst.</em>, to appear.</li><li class="footnote" id="footnote-4"><a class="tag is-link" href="#citeref-4">4</a>Astruc, L.; Edery, N. Optimal allocation of bacterial resources in a bioreactor. Project report, Polytech Nice Sophia, Université Côte d&#39;Azur (2023).</li></ul></section></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="tutorial-iss.html">« Indirect simple shooting</a><a class="docs-footer-nextpage" href="tutorial-goddard.html">Goddard problem »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="catppuccin-latte">catppuccin-latte</option><option value="catppuccin-frappe">catppuccin-frappe</option><option value="catppuccin-macchiato">catppuccin-macchiato</option><option value="catppuccin-mocha">catppuccin-mocha</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.5.0 on <span class="colophon-date" title="Wednesday 3 July 2024 13:28">Wednesday 3 July 2024</span>. Using Julia version 1.10.4.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
+plot!(sol2)</code></pre><img src="tutorial-batch-9f75f139.svg" alt="Example block output"/><h2 id="References"><a class="docs-heading-anchor" href="#References">References</a><a id="References-1"></a><a class="docs-heading-anchor-permalink" href="#References" title="Permalink"></a></h2><section class="footnotes is-size-7"><ul><li class="footnote" id="footnote-1"><a class="tag is-link" href="#citeref-1">1</a>Giordano, N.; Mairet, F.; Gouzé, J.-L.; Geiselmann, J.; De Jong, H. Dynamical allocation of cellular resources as an optimal control problem: novel insights into microbial growth strategies. <em>PLoS comp. biol.</em> <strong>12</strong> (2016), e1004802. </li><li class="footnote" id="footnote-2"><a class="tag is-link" href="#citeref-2">2</a>Yabo, A. G.; Caillau, J.-B.; Gouzé, J.-L.; de Jong, H.; Mairet, F. Dynamical analysis and optimization of a generalized resource allocation model of microbial growth. <em>SIAM J. Appl. Dyn. Syst.</em> <strong>21</strong> (2022), no. 1, 137-165.</li><li class="footnote" id="footnote-3"><a class="tag is-link" href="#citeref-3">3</a>Yabo, A. G.; Caillau, J.-B.; Gouzé, J.-L. Optimal bacterial resource allocation strategies in batch processing. <em>SIAM J. Appl. Dyn. Syst.</em>, to appear.</li><li class="footnote" id="footnote-4"><a class="tag is-link" href="#citeref-4">4</a>Astruc, L.; Edery, N. Optimal allocation of bacterial resources in a bioreactor. Project report, Polytech Nice Sophia, Université Côte d&#39;Azur (2023).</li></ul></section></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="tutorial-iss.html">« Indirect simple shooting</a><a class="docs-footer-nextpage" href="tutorial-goddard.html">Goddard problem »</a><div class="flexbox-break"></div><p class="footer-message">Powered by <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> and the <a href="https://julialang.org/">Julia Programming Language</a>.</p></nav></div><div class="modal" id="documenter-settings"><div class="modal-background"></div><div class="modal-card"><header class="modal-card-head"><p class="modal-card-title">Settings</p><button class="delete"></button></header><section class="modal-card-body"><p><label class="label">Theme</label><div class="select"><select id="documenter-themepicker"><option value="auto">Automatic (OS)</option><option value="documenter-light">documenter-light</option><option value="documenter-dark">documenter-dark</option><option value="catppuccin-latte">catppuccin-latte</option><option value="catppuccin-frappe">catppuccin-frappe</option><option value="catppuccin-macchiato">catppuccin-macchiato</option><option value="catppuccin-mocha">catppuccin-mocha</option></select></div></p><hr/><p>This document was generated with <a href="https://github.com/JuliaDocs/Documenter.jl">Documenter.jl</a> version 1.5.0 on <span class="colophon-date" title="Wednesday 3 July 2024 13:28">Wednesday 3 July 2024</span>. Using Julia version 1.10.4.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>