build based on c613d27

docs/.documenter-siteinfo.json

@@ -1 +1 @@
-{"documenter":{"julia_version":"1.7.3","generation_timestamp":"2024-11-26T15:10:52","documenter_version":"1.8.0"}}
+{"documenter":{"julia_version":"1.7.3","generation_timestamp":"2024-11-26T15:25:12","documenter_version":"1.8.0"}}

docs/examples/anderson-model/index.html

@@ -266,4 +266,4 @@
 end
 
 # Display the plots
-plot(p2, p3, p4, p5, p1, layout = (3, 2), size = (1400, 1200))</code></pre><p><img src="../interleaved_output.svg" alt="Output of this program"/></p><p>________________</p><h2 id="Bibliography"><a class="docs-heading-anchor" href="#Bibliography">Bibliography</a><a id="Bibliography-1"></a><a class="docs-heading-anchor-permalink" href="#Bibliography" title="Permalink"></a></h2><section class="footnotes is-size-7"><ul><li class="footnote" id="footnote-khon_efficient_2021"><a class="tag is-link" href="#citeref-khon_efficient_2021">khon_efficient_2021</a><blockquote><p>Kohn, L.; Santoro, G. E. Efficient mapping for anderson impurity problems with matrix product states. Phys. Rev. B 2021, 104 (1), 014303. https://doi.org/10.1103/PhysRevB.104.014303.</p></blockquote></li><li class="footnote" id="footnote-devega_thermo_2015"><a class="tag is-link" href="#citeref-devega_thermo_2015">devega_thermo_2015</a><blockquote><p>de Vega, I.; Banuls, M-.C. Thermofield-based chain-mapping approach for open quantum systems. Phys. Rev. A 2015, 92 (5), 052116. https://doi.org/10.1103/PhysRevA.92.052116.</p></blockquote></li><li class="footnote" id="footnote-khon_eff_2022"><a class="tag is-link" href="#citeref-khon_eff_2022">khon_eff_2022</a><blockquote><p>Kohn L.; Santoro G. E. J. Stat. Mech. (2022) 063102 DOI 10.1088/1742-5468/ac729b.</p></blockquote></li></ul></section></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../timedep/">« Time-dependent Hamiltonian</a><a class="docs-footer-nextpage" href="../bath-observables/">Inspecting the bath by undoing the chain mapping »</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 1.8.0 on <span class="colophon-date" title="Tuesday 26 November 2024 15:10">Tuesday 26 November 2024</span>. Using Julia version 1.7.3.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
+plot(p2, p3, p4, p5, p1, layout = (3, 2), size = (1400, 1200))</code></pre><p><img src="../interleaved_output.svg" alt="Output of this program"/></p><p>________________</p><h2 id="Bibliography"><a class="docs-heading-anchor" href="#Bibliography">Bibliography</a><a id="Bibliography-1"></a><a class="docs-heading-anchor-permalink" href="#Bibliography" title="Permalink"></a></h2><section class="footnotes is-size-7"><ul><li class="footnote" id="footnote-khon_efficient_2021"><a class="tag is-link" href="#citeref-khon_efficient_2021">khon_efficient_2021</a><blockquote><p>Kohn, L.; Santoro, G. E. Efficient mapping for anderson impurity problems with matrix product states. Phys. Rev. B 2021, 104 (1), 014303. https://doi.org/10.1103/PhysRevB.104.014303.</p></blockquote></li><li class="footnote" id="footnote-devega_thermo_2015"><a class="tag is-link" href="#citeref-devega_thermo_2015">devega_thermo_2015</a><blockquote><p>de Vega, I.; Banuls, M-.C. Thermofield-based chain-mapping approach for open quantum systems. Phys. Rev. A 2015, 92 (5), 052116. https://doi.org/10.1103/PhysRevA.92.052116.</p></blockquote></li><li class="footnote" id="footnote-khon_eff_2022"><a class="tag is-link" href="#citeref-khon_eff_2022">khon_eff_2022</a><blockquote><p>Kohn L.; Santoro G. E. J. Stat. Mech. (2022) 063102 DOI 10.1088/1742-5468/ac729b.</p></blockquote></li></ul></section></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../timedep/">« Time-dependent Hamiltonian</a><a class="docs-footer-nextpage" href="../bath-observables/">Inspecting the bath by undoing the chain mapping »</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 1.8.0 on <span class="colophon-date" title="Tuesday 26 November 2024 15:25">Tuesday 26 November 2024</span>. Using Julia version 1.7.3.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>

docs/examples/bath-observables/index.html

@@ -104,4 +104,4 @@
             xlabel=L"\omega", ylabel=L"\langle n^b_\omega \rangle",
             title="Mode occupation in the physical bath")
 
-plot(p1, p2, p3, p4, layout = (2, 2), size = (1400, 1200))</code></pre><p><img src="../bath_obs_output.svg" alt="Output of this program"/></p><p>___________________</p><h2 id="Bibliography"><a class="docs-heading-anchor" href="#Bibliography">Bibliography</a><a id="Bibliography-1"></a><a class="docs-heading-anchor-permalink" href="#Bibliography" title="Permalink"></a></h2><section class="footnotes is-size-7"><ul><li class="footnote" id="footnote-chin_exact_2010"><a class="tag is-link" href="#citeref-chin_exact_2010">chin_exact_2010</a><blockquote><p>Chin, A. W.; Rivas, Á.; Huelga, S. F.; Plenio, M. B. Exact Mapping between System-Reservoir Quantum Models and Semi-Infinite Discrete Chains Using Orthogonal Polynomials. Journal of Mathematical Physics 2010, 51 (9), 092109. https://doi.org/10.1063/1.3490188.</p></blockquote></li><li class="footnote" id="footnote-tamascelli_efficient_2019"><a class="tag is-link" href="#citeref-tamascelli_efficient_2019">tamascelli_efficient_2019</a><blockquote><p>Tamascelli, D.; Smirne, A.; Lim, J.; Huelga, S. F.; Plenio, M. B. Efficient Simulation of Finite-Temperature Open Quantum Systems. Phys. Rev. Lett. 2019, 123 (9), 090402. https://doi.org/10.1103/PhysRevLett.123.090402.</p></blockquote></li><li class="footnote" id="footnote-devega_thermo_2015"><a class="tag is-link" href="#citeref-devega_thermo_2015">devega_thermo_2015</a><blockquote><p>de Vega, I.; Banuls, M-.C. Thermofield-based chain-mapping approach for open quantum systems. Phys. Rev. A 2015, 92 (5), 052116. https://doi.org/10.1103/PhysRevA.92.052116.</p></blockquote></li><li class="footnote" id="footnote-riva_thermal_2023"><a class="tag is-link" href="#citeref-riva_thermal_2023">riva_thermal_2023</a><blockquote><p>Riva, A.; Tamascelli, D.; Dunnett, A. J.; Chin, A. W. Thermal cycle and polaron formation in structured bosonic environments. Phys. Rev. B 2023, 108, 195138, https://doi.org/10.1103/PhysRevB.108.195138.</p></blockquote></li></ul></section></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../anderson-model/">« The Anderson Impurity Model</a><a class="docs-footer-nextpage" href="../protontransfer/">Proton Transfer Model »</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 1.8.0 on <span class="colophon-date" title="Tuesday 26 November 2024 15:10">Tuesday 26 November 2024</span>. Using Julia version 1.7.3.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
+plot(p1, p2, p3, p4, layout = (2, 2), size = (1400, 1200))</code></pre><p><img src="../bath_obs_output.svg" alt="Output of this program"/></p><p>___________________</p><h2 id="Bibliography"><a class="docs-heading-anchor" href="#Bibliography">Bibliography</a><a id="Bibliography-1"></a><a class="docs-heading-anchor-permalink" href="#Bibliography" title="Permalink"></a></h2><section class="footnotes is-size-7"><ul><li class="footnote" id="footnote-chin_exact_2010"><a class="tag is-link" href="#citeref-chin_exact_2010">chin_exact_2010</a><blockquote><p>Chin, A. W.; Rivas, Á.; Huelga, S. F.; Plenio, M. B. Exact Mapping between System-Reservoir Quantum Models and Semi-Infinite Discrete Chains Using Orthogonal Polynomials. Journal of Mathematical Physics 2010, 51 (9), 092109. https://doi.org/10.1063/1.3490188.</p></blockquote></li><li class="footnote" id="footnote-tamascelli_efficient_2019"><a class="tag is-link" href="#citeref-tamascelli_efficient_2019">tamascelli_efficient_2019</a><blockquote><p>Tamascelli, D.; Smirne, A.; Lim, J.; Huelga, S. F.; Plenio, M. B. Efficient Simulation of Finite-Temperature Open Quantum Systems. Phys. Rev. Lett. 2019, 123 (9), 090402. https://doi.org/10.1103/PhysRevLett.123.090402.</p></blockquote></li><li class="footnote" id="footnote-devega_thermo_2015"><a class="tag is-link" href="#citeref-devega_thermo_2015">devega_thermo_2015</a><blockquote><p>de Vega, I.; Banuls, M-.C. Thermofield-based chain-mapping approach for open quantum systems. Phys. Rev. A 2015, 92 (5), 052116. https://doi.org/10.1103/PhysRevA.92.052116.</p></blockquote></li><li class="footnote" id="footnote-riva_thermal_2023"><a class="tag is-link" href="#citeref-riva_thermal_2023">riva_thermal_2023</a><blockquote><p>Riva, A.; Tamascelli, D.; Dunnett, A. J.; Chin, A. W. Thermal cycle and polaron formation in structured bosonic environments. Phys. Rev. B 2023, 108, 195138, https://doi.org/10.1103/PhysRevB.108.195138.</p></blockquote></li></ul></section></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../anderson-model/">« The Anderson Impurity Model</a><a class="docs-footer-nextpage" href="../protontransfer/">Proton Transfer Model »</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 1.8.0 on <span class="colophon-date" title="Tuesday 26 November 2024 15:25">Tuesday 26 November 2024</span>. Using Julia version 1.7.3.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>

docs/examples/protontransfer/index.html

@@ -232,4 +232,4 @@
     print("\n k = ", k)
     (plot(heatmap(xlist_rho, xlist_rho, abs.(ρx[:,:,t]), c=:Blues ), title="Time = $k (arb. units)", xlabel=L"$x$ (arb. units)",ylabel=L"$x$ (arb. units)", tickfontsize=(12),colorbar_title = L"||\rho_{RC}(x,x)||", legend=:none, xlims=(-0.5, 0.5), ylims=(-0.5,0.5), clims=(0,0.18),aspect_ratio=:equal))
 end
-display(gif(anim, &quot;gif_reducedrho.gif&quot;, fps = 2.5))</code></pre><p>________________</p><h2 id="Bibliography"><a class="docs-heading-anchor" href="#Bibliography">Bibliography</a><a id="Bibliography-1"></a><a class="docs-heading-anchor-permalink" href="#Bibliography" title="Permalink"></a></h2><section class="footnotes is-size-7"><ul><li class="footnote" id="footnote-lede_ESIPT_2024"><a class="tag is-link" href="#citeref-lede_ESIPT_2024">lede_ESIPT_2024</a><blockquote><p>Le Dé, B.; Huppert, S.; Spezia, R.; Chin, A.W Extending Non-Perturbative Simulation Techniques for Open-Quantum Systems to Excited-State Proton Transfer and Ultrafast Non-Adiabatic Dynamics https://arxiv.org/abs/2405.08693</p></blockquote></li></ul></section></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../bath-observables/">« Inspecting the bath by undoing the chain mapping</a><a class="docs-footer-nextpage" href="../../convergence/">Convergence checks »</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 1.8.0 on <span class="colophon-date" title="Tuesday 26 November 2024 15:10">Tuesday 26 November 2024</span>. Using Julia version 1.7.3.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>
+display(gif(anim, &quot;gif_reducedrho.gif&quot;, fps = 2.5))</code></pre><p>________________</p><h2 id="Bibliography"><a class="docs-heading-anchor" href="#Bibliography">Bibliography</a><a id="Bibliography-1"></a><a class="docs-heading-anchor-permalink" href="#Bibliography" title="Permalink"></a></h2><section class="footnotes is-size-7"><ul><li class="footnote" id="footnote-lede_ESIPT_2024"><a class="tag is-link" href="#citeref-lede_ESIPT_2024">lede_ESIPT_2024</a><blockquote><p>Le Dé, B.; Huppert, S.; Spezia, R.; Chin, A.W Extending Non-Perturbative Simulation Techniques for Open-Quantum Systems to Excited-State Proton Transfer and Ultrafast Non-Adiabatic Dynamics https://arxiv.org/abs/2405.08693</p></blockquote></li></ul></section></article><nav class="docs-footer"><a class="docs-footer-prevpage" href="../bath-observables/">« Inspecting the bath by undoing the chain mapping</a><a class="docs-footer-nextpage" href="../../convergence/">Convergence checks »</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 1.8.0 on <span class="colophon-date" title="Tuesday 26 November 2024 15:25">Tuesday 26 November 2024</span>. Using Julia version 1.7.3.</p></section><footer class="modal-card-foot"></footer></div></div></div></body></html>