From 0a1a199a77d7c90ac545a4f869834b9078af6b21 Mon Sep 17 00:00:00 2001 From: sschwindt <sebastian.schwindt@alumni.epfl.ch> Date: Fri, 20 Dec 2024 10:05:15 +0100 Subject: [PATCH] merged zotero sections --- _sources/scilife/latex.md | 80 +++++++++++++++++- datascience/dimensional-analysis.html | 3 +- datascience/kernelized-supervised-models.html | 3 +- datascience/linear-classification.html | 3 +- datascience/linear-models.html | 3 +- datascience/linear-regression.html | 3 +- datascience/machinelearning.html | 3 +- datascience/morphology-predictor-svm.html | 3 +- datascience/neural-networks.html | 3 +- datascience/non-linear-models.html | 3 +- datascience/supervised-learning.html | 3 +- datascience/three-based-methods.html | 3 +- datascience/unsupervised-learning.html | 3 +- documentation/bibliography.html | 3 +- documentation/contributors.html | 3 +- documentation/glossary.html | 3 +- documentation/how-to-document.html | 3 +- documentation/notation.html | 3 +- exercises/docs-exercises.html | 3 +- exercises/ex-floods.html | 3 +- exercises/ex-geco.html | 3 +- exercises/ex-git.html | 3 +- exercises/ex-gui.html | 3 +- exercises/ex-ms.html | 3 +- exercises/ex-sediment.html | 3 +- exercises/ex-sp.html | 3 +- exercises/geo-exercises.html | 3 +- exercises/python-exercises.html | 3 +- genindex.html | 3 +- geopy/drone-processing.html | 3 +- geopy/geo-pckg.html | 3 +- geopy/geo-python.html | 3 +- geopy/geospatial-data.html | 3 +- geopy/use-qgis.html | 3 +- get-started/geo.html | 3 +- get-started/git.html | 3 +- get-started/ide.html | 3 +- get-started/install-openfoam.html | 3 +- get-started/install-telemac.html | 3 +- get-started/others.html | 3 +- get-started/software.html | 3 +- get-started/vm.html | 3 +- index.html | 3 +- jupyter/classes.html | 3 +- jupyter/geo-arcpy.html | 3 +- jupyter/geo-convert.html | 3 +- jupyter/geo-raster.html | 3 +- jupyter/geo-shp.html | 3 +- jupyter/german-schwimmstabilitaet.html | 3 +- jupyter/gui.html | 3 +- jupyter/pybase.html | 3 +- jupyter/pyerror.html | 3 +- jupyter/pyfun.html | 3 +- jupyter/pyloop.html | 3 +- jupyter/pynum.html | 3 +- jupyter/pypckg.html | 3 +- jupyter/pyplot.html | 3 +- jupyter/pystyle.html | 3 +- jupyter/xml.html | 3 +- lectures/classroom.html | 3 +- lectures/overview.html | 3 +- lectures/principles.html | 3 +- lectures/take-seat.html | 3 +- numerics/basement/basement.html | 3 +- numerics/basement/basement2d.html | 3 +- numerics/numerical-modeling.html | 3 +- numerics/openfoam/of-intro.html | 3 +- .../openfoam/of-tutorial-multiphase-mesh.html | 3 +- .../openfoam/of-tutorial-multiphase-post.html | 3 +- .../openfoam/of-tutorial-multiphase-run.html | 3 +- .../of-tutorial-multiphase-setup.html | 3 +- numerics/openfoam/of-tutorial-multiphase.html | 3 +- numerics/pre-qgis-bm.html | 3 +- numerics/pre-slf-tm.html | 3 +- numerics/telemac/boundaries.html | 3 +- numerics/telemac/convergence.html | 7 +- numerics/telemac/gaia-basics.html | 3 +- numerics/telemac/gaia-bedload.html | 3 +- numerics/telemac/gaia-coupling.html | 3 +- numerics/telemac/gaia-run.html | 3 +- numerics/telemac/gaia-suspended.html | 3 +- numerics/telemac/mass-balance-bc.html | 3 +- numerics/telemac/mass-optimization.html | 3 +- numerics/telemac/optimization.html | 3 +- numerics/telemac/roughness.html | 3 +- numerics/telemac/telemac-gaia.html | 3 +- numerics/telemac/telemac.html | 3 +- numerics/telemac/telemac2d-steady.html | 3 +- numerics/telemac/telemac2d-unsteady.html | 3 +- numerics/telemac/telemac2d.html | 3 +- numerics/telemac/telemac3d-med.html | 3 +- numerics/telemac/telemac3d-slf.html | 3 +- numerics/telemac/telemac3d.html | 3 +- objects.inv | Bin 20974 -> 20965 bytes python-basics/data-handling.html | 3 +- python-basics/modularize.html | 3 +- python-basics/pyinstall.html | 3 +- python-basics/python.html | 3 +- scilife/gpt-tools.html | 7 +- scilife/hack-gis.html | 3 +- scilife/latex.html | 67 ++++++++++++--- search.html | 3 +- searchindex.js | 2 +- sitemap.xml | 2 +- terms/disclaimer.html | 3 +- terms/license.html | 9 +- troubleshoot/dbg-anaconda.html | 3 +- troubleshoot/dbg-basement.html | 3 +- troubleshoot/dbg-jupyter.html | 3 +- troubleshoot/dbg-linux.html | 3 +- troubleshoot/dbg-numerical-models.html | 3 +- troubleshoot/dbg-os.html | 3 +- troubleshoot/dbg-programming.html | 3 +- troubleshoot/dbg-python.html | 3 +- troubleshoot/dbg-telemac.html | 3 +- troubleshoot/dbg-vm.html | 3 +- 116 files changed, 252 insertions(+), 246 deletions(-) diff --git a/_sources/scilife/latex.md b/_sources/scilife/latex.md index 981ed164..c504a6ba 100644 --- a/_sources/scilife/latex.md +++ b/_sources/scilife/latex.md @@ -1,5 +1,5 @@ (debug-tex)= -# LaTeX & Manuscript Writing +# LaTeX & Citation Management (Zotero) Online LaTeX editors, such as Overleaf, offer convenient, real-time collaboration and cloud-based compilation, but advanced features like handling larger documents or extensive team collaboration often require a paid subscription. In contrast, working locally with a dedicated editor like TeXstudio (see {ref}`LaTeX installation <install-tex>`) allows you to edit and compile documents without depending on an internet connection while writing/compiling and without incurring subscription costs. This page is intended to provide guidance on effectively using LaTeX in a local environment. @@ -8,6 +8,84 @@ Online LaTeX editors, such as Overleaf, offer convenient, real-time collaboratio To estimate the number of words in a LaTeX manuscript using TeXstudio, begin by creating a plain text version of your document. Under the **Tools** menu, select **Convert to Abridged Plaintext**, which opens a new untitled tab containing your text without LaTeX commands. This stripped-down file is also suitable for sharing with collaborators who prefer (richtext) word processors. Next, choose **Analyse Text...** from the Tools menu and click the Count button. TeXstudio will display the number of paragraphs (that is, words) in your text and even provide a frequency analysis of specific terms. This functionality can be valuable for refining the manuscript writing style, for instance by identifying an overuse of transitional words like "however". +## Citation management with Zotero and the Better BibTeX Plugin + +### Get and set up Zotero and Better BibTeX + +Better BibTeX is a plugin for Zotero that enhances its reference management capabilities for LaTeX users. It provides tools for generating, managing, and customizing BibTeX and BibLaTeX entries, making it a valuable citation tool within LaTeX environments. Better BibTeX offers several functionalities that make it a preferred choice: + +- Citation key management allows custom citation key generation, offering more control over key formatting. +- Automatic export and continuously updated BibTeX and BibLaTeX exports ensure that the bibliography is always in sync with the Zotero library. +- Handling of special characters prevents BibTeX / BibLaTeX errors. +- Cite-as-you-write support for TeX (e.g., TeXstudio) and even Markdown editors. + + +To install Better BibTeX for Zotero, follow these steps: + +1. Ensure you have the latest version of Zotero installed on your system. You can download it from the [Zotero website](https://www.zotero.org). + +2. Download Better BibTeX: + - Go to the official [Better BibTeX GitHub repository](https://github.com/retorquere/zotero-better-bibtex). + - Download the latest release of the plugin -- make sure to choose the `.xpi` file of the lates release. + +3. Install the plugin in Zotero: + - Open Zotero + - In Zotero, navigate to *Tools* in the top menu and select *Add-ons* + - In the Add-ons Manager, click the gear icon in the top-right corner and choose *Install Add-on From File* + - Locate the downloaded `.xpi` file and click *Open* - Zotero will install the plugin. + - Restart Zotero to activate the plugin. + +4. Configure Better BibTeX: + - After installation, you will find Better BibTeX settings in the Zotero Preferences (Windows) or Settings (Linux) menu under the *Better BibTeX* tab. + - Set up your citation key format and export preferences according to your workflow; our recommendation: + ``` + auth.lower + year + shorttitle(1,1).lower + ``` + +5. Export and use: + - To export a bibliography, select the desired references in Zotero, right-click, and choose *Export Items* + - Select *Better BibTeX* as the export format; note that the *Better BibLaTeX* may not produce the desired functionality and cause untraceable error messages when compiling a `.tex` file. + - Optionally, check the *keep updated* box in the next window + +For the domains of water resources reasearch and hydraulic engineering, you may want to work with our hydro-informatics.com library: [https://www.zotero.org/groups/4917569/hydro-informatics/library](https://www.zotero.org/groups/4917569/hydro-informatics/library). + +(debug-zotero)= +### Auto-merge multiple duplicates + +Merging duplicates in Zotero can be done by a mouse click, but only by a mouse click and item-by-item. This can take a lot of time when merging large libraries. Here is a workaround to auto-merge multiple duplicates in Zotero. + +```{admonition} Make sure all duplicates have the same Item Type +:class: important + +To make the following auto-merge code work smoothly, go over your duplicate items and look for any marked duplicates that have different item types. Next, harmonize the item types of duplicate pairs (i.e., change the Item Type of one of the concerned entries). This is a bit tedious, but does not take too long and much faster than merging each duplicate additionally by mouse click. +``` + +* Open the Zotero application on your computer (not in the browser) +* Go to the **Duplicate Items** entry of your library +* Highlight all (press `CTRL` and `A` keys) +* Go to **Tools** (top menu) > **Developer** > **Run JavaScript**, copy-paste the following code block into the **Code** field, and click **Run** + + +``` +var DupPane = Zotero.getZoteroPanes(); + +for(var i = 0; i < 999; i++) { + try { + await new Promise(r => setTimeout(r, 50)); + DupPane[0].mergeSelectedItems(); + Zotero_Duplicates_Pane.merge(); + } catch (e) { + console.log(e); + } +} +``` + +The code block makes at maximum 999 iterations, which can be increased by increasing the iteration number in the for loop of the JavaScript code. + + +This response is inspired by discussions in the [Zotero Forum](https://forums.zotero.org/discussion/40457/merge-all-duplicates). + + ## Report writing template diff --git a/datascience/dimensional-analysis.html b/datascience/dimensional-analysis.html index 87fc333e..08379f54 100644 --- a/datascience/dimensional-analysis.html +++ b/datascience/dimensional-analysis.html @@ -371,8 +371,7 @@ <ul class="nav bd-sidenav"> <li class="toctree-l1"><a class="reference internal" href="../scilife/hack-gis.html">GIS, CRS and Projections</a></li> <li class="toctree-l1"><a class="reference internal" href="../scilife/gpt-tools.html">Generative AI Tools</a></li> -<li class="toctree-l1"><a class="reference internal" href="../scilife/latex.html">LaTeX & Manuscript Writing</a></li> -<li class="toctree-l1"><a class="reference internal" href="../scilife/hack-zotero.html">Zotero Utilities</a></li> +<li class="toctree-l1"><a class="reference internal" href="../scilife/latex.html">LaTeX & Citation Management (Zotero)</a></li> </ul> <p aria-level="2" class="caption" role="heading"><span class="caption-text">About</span></p> <ul class="nav bd-sidenav"> 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a/datascience/machinelearning.html b/datascience/machinelearning.html index 489aee0d..3f1f7d38 100644 --- a/datascience/machinelearning.html +++ b/datascience/machinelearning.html @@ -369,8 +369,7 @@ <ul class="nav bd-sidenav"> <li class="toctree-l1"><a class="reference internal" href="../scilife/hack-gis.html">GIS, CRS and Projections</a></li> <li class="toctree-l1"><a class="reference internal" href="../scilife/gpt-tools.html">Generative AI Tools</a></li> -<li class="toctree-l1"><a class="reference internal" href="../scilife/latex.html">LaTeX & Manuscript Writing</a></li> -<li class="toctree-l1"><a class="reference internal" href="../scilife/hack-zotero.html">Zotero Utilities</a></li> +<li class="toctree-l1"><a class="reference internal" href="../scilife/latex.html">LaTeX & Citation Management (Zotero)</a></li> </ul> <p aria-level="2" class="caption" role="heading"><span class="caption-text">About</span></p> <ul class="nav bd-sidenav"> diff --git 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b/datascience/non-linear-models.html index deb90ad0..21b16219 100644 --- a/datascience/non-linear-models.html +++ b/datascience/non-linear-models.html @@ -371,8 +371,7 @@ <ul class="nav bd-sidenav"> <li class="toctree-l1"><a class="reference internal" href="../scilife/hack-gis.html">GIS, CRS and Projections</a></li> <li class="toctree-l1"><a class="reference internal" href="../scilife/gpt-tools.html">Generative AI Tools</a></li> -<li class="toctree-l1"><a class="reference internal" href="../scilife/latex.html">LaTeX & Manuscript Writing</a></li> -<li class="toctree-l1"><a class="reference internal" href="../scilife/hack-zotero.html">Zotero Utilities</a></li> +<li class="toctree-l1"><a class="reference internal" href="../scilife/latex.html">LaTeX & Citation Management (Zotero)</a></li> </ul> <p aria-level="2" class="caption" role="heading"><span class="caption-text">About</span></p> <ul class="nav bd-sidenav"> diff --git a/datascience/supervised-learning.html b/datascience/supervised-learning.html index f2d79040..95886fd2 100644 --- a/datascience/supervised-learning.html +++ b/datascience/supervised-learning.html @@ -371,8 +371,7 @@ <ul class="nav bd-sidenav"> <li class="toctree-l1"><a class="reference internal" href="../scilife/hack-gis.html">GIS, CRS and Projections</a></li> <li class="toctree-l1"><a class="reference internal" href="../scilife/gpt-tools.html">Generative AI Tools</a></li> -<li class="toctree-l1"><a class="reference internal" href="../scilife/latex.html">LaTeX & Manuscript Writing</a></li> -<li class="toctree-l1"><a class="reference internal" href="../scilife/hack-zotero.html">Zotero Utilities</a></li> +<li class="toctree-l1"><a class="reference internal" href="../scilife/latex.html">LaTeX & Citation Management (Zotero)</a></li> </ul> <p aria-level="2" class="caption" role="heading"><span class="caption-text">About</span></p> <ul class="nav bd-sidenav"> diff --git a/datascience/three-based-methods.html 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have reached a stable state, we want to observe when <span class="math notranslate nohighlight">\(\iota\)</span> = 1 and <span class="math notranslate nohighlight">\(c_{\varepsilon}\)</span> = 1 indicate sublinear convergence. That is, we look for the timestep <span class="math notranslate nohighlight">\(t\)</span> above which each additional timestep <span class="math notranslate nohighlight">\(t+1\)</span> only insignificantly improves the model precision (read more on the term <em>insignificant</em> in the <a class="reference internal" href="#tm-target-conv"><span class="std std-ref">below section</span></a>). Thus, assuming that the model convergences in any form, we can set <span class="math notranslate nohighlight">\(c_{\varepsilon}\)</span> = 1 to compute <span class="math notranslate nohighlight">\(\iota (t)\)</span> as a function of <span class="math notranslate nohighlight">\(\varepsilon_{t}\)</span> and <span class="math notranslate nohighlight">\(\varepsilon_{t+1}\)</span>:</p> -<div class="amsmath math notranslate nohighlight" id="equation-01d40258-9a9b-4c41-b55d-2edc0a0041fe"> -<span class="eqno">(20)<a class="headerlink" href="#equation-01d40258-9a9b-4c41-b55d-2edc0a0041fe" title="Permalink to this equation">#</a></span>\[\begin{align} +<div class="amsmath math notranslate nohighlight" id="equation-c71734c6-eac1-4a61-9d51-29f24bbcd745"> +<span class="eqno">(20)<a class="headerlink" href="#equation-c71734c6-eac1-4a61-9d51-29f24bbcd745" title="Permalink to this equation">#</a></span>\[\begin{align} \label{estimate_convergence} \frac{\varepsilon_{t+1}}{\varepsilon^{\iota(t)}_{t}} 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role="heading"><span class="caption-text">About</span></p> <ul class="nav bd-sidenav"> diff --git a/objects.inv b/objects.inv index 5b34077aa6a0134dd17f1dc9b1400db410c6a4e9..3ae00fda7882a82481b2f5dcaffa7c55feb4cc99 100644 GIT binary patch delta 14699 zcmV-xIh4lkqXFfk0kHNMf1I;Gl*?PV-Ii?LAO9R93hG1%{ziXwpm_?K7aSzSeKOEC zKE~S4(b@piTD+5V7nKI0a|ILUkrD@*?HtVkjbI!owj}eXW!X-@eB;faEofYHZ3lHN zw--DH>D5Nih%g>$7N@kJY2abdCpn@KEhd@^?ttzZHpYe>2*;J-f54Q+>mg(M8QX#I z&vqb!IOO;m8UqKwX-$6>_&$ud93@BgH;rtbcL~5aXOA<wgAkf4^guMKNz(`cmAxsS zmQD39BR}lqc)4a10l8a%jb`q1@D%K|2(02~7xth2(M0@WJ0g*%l*7@*v2ku*A5}Y< z1+y?<+^ube#kao2f4u#{#5;}J?HKI@cdQ*%TSs#kM?1MnpoeoMe~tFeXFIi~iFZE5 z&$uOTz4VD<QV1ME-l%mH#rdwp+W3Z+F>;Yiflp@c$=i3|4+x;ZD-qEQOj6G!)h|#k z+_(8(|C=+WzZG0+MarRY*%~(_1&|y|%#~yVz`dPdQgFt3f5B;yNNynd`GG0<WUTSM zbynUaCj1B1HdDVA+N6U>QK?5!E9)3O9R42^Fde-^tuV`$<a6j6t}^)FWg0(YP<R+? zpp!C-QOErwddwOw%#h$yKwDvy0Jye7LNFpDF*;U*H6hBNMJvm7$PdMT0lgwSDzgbp zTo4Qe{p<+Wf9K6Pbd-=3FhKzZ8W7f4ZMxuETL(B#<0K$&OdB-S_Y>ez2n~QnEqBhI 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href="hack-gis.html" /> <meta name="viewport" content="width=device-width, initial-scale=1"/> <meta name="docsearch:language" content="en"/> @@ -369,8 +369,7 @@ <ul class="current nav bd-sidenav"> <li class="toctree-l1"><a class="reference internal" href="hack-gis.html">GIS, CRS and Projections</a></li> <li class="toctree-l1 current active"><a class="current reference internal" href="#">Generative AI Tools</a></li> -<li class="toctree-l1"><a class="reference internal" href="latex.html">LaTeX & Manuscript Writing</a></li> -<li class="toctree-l1"><a class="reference internal" href="hack-zotero.html">Zotero Utilities</a></li> +<li class="toctree-l1"><a class="reference internal" href="latex.html">LaTeX & Citation Management (Zotero)</a></li> </ul> <p aria-level="2" class="caption" role="heading"><span class="caption-text">About</span></p> <ul class="nav bd-sidenav"> @@ -672,7 +671,7 @@ <h1>Generative AI Tools<a class="headerlink" href="#generative-ai-tools" title=" title="next page"> <div class="prev-next-info"> <p class="prev-next-subtitle">next</p> - <p class="prev-next-title">LaTeX & Manuscript Writing</p> + <p class="prev-next-title">LaTeX & Citation Management (Zotero)</p> </div> <i class="fa-solid fa-angle-right"></i> </a> diff --git a/scilife/hack-gis.html b/scilife/hack-gis.html index dc69df50..0cc192b8 100644 --- a/scilife/hack-gis.html +++ b/scilife/hack-gis.html @@ -369,8 +369,7 @@ <ul class="current nav bd-sidenav"> <li class="toctree-l1 current active"><a class="current reference internal" href="#">GIS, CRS and Projections</a></li> <li class="toctree-l1"><a class="reference internal" href="gpt-tools.html">Generative AI Tools</a></li> -<li class="toctree-l1"><a class="reference internal" href="latex.html">LaTeX & Manuscript Writing</a></li> -<li class="toctree-l1"><a class="reference internal" href="hack-zotero.html">Zotero Utilities</a></li> +<li class="toctree-l1"><a class="reference internal" href="latex.html">LaTeX & Citation Management (Zotero)</a></li> </ul> <p aria-level="2" class="caption" role="heading"><span class="caption-text">About</span></p> <ul class="nav bd-sidenav"> diff --git a/scilife/latex.html b/scilife/latex.html index 430e0f6c..4c80637d 100644 --- a/scilife/latex.html +++ b/scilife/latex.html @@ -8,7 +8,7 @@ <meta charset="utf-8" /> <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="viewport" content="width=device-width, initial-scale=1" /> - <title>LaTeX & Manuscript Writing — Hydro-Informatics</title> + <title>LaTeX & Citation Management (Zotero) — Hydro-Informatics</title> @@ -67,7 +67,7 @@ <link rel="icon" href="../_static/favicon.ico"/> <link rel="index" title="Index" href="../genindex.html" /> <link rel="search" title="Search" href="../search.html" /> - <link rel="next" title="Zotero Utilities" href="hack-zotero.html" /> + <link rel="next" title="License" href="../terms/license.html" /> <link rel="prev" title="Generative AI Tools" href="gpt-tools.html" /> <meta name="viewport" content="width=device-width, initial-scale=1"/> <meta name="docsearch:language" content="en"/> @@ -369,8 +369,7 @@ <ul class="current nav bd-sidenav"> <li class="toctree-l1"><a class="reference internal" href="hack-gis.html">GIS, CRS and Projections</a></li> <li class="toctree-l1"><a class="reference internal" href="gpt-tools.html">Generative AI Tools</a></li> -<li class="toctree-l1 current active"><a class="current reference internal" href="#">LaTeX & Manuscript Writing</a></li> -<li class="toctree-l1"><a class="reference internal" href="hack-zotero.html">Zotero Utilities</a></li> +<li class="toctree-l1 current active"><a class="current reference internal" href="#">LaTeX & Citation Management (Zotero)</a></li> </ul> <p aria-level="2" class="caption" role="heading"><span class="caption-text">About</span></p> <ul class="nav bd-sidenav"> @@ -522,7 +521,7 @@ <div id="jb-print-docs-body" class="onlyprint"> - <h1>LaTeX & Manuscript Writing</h1> + <h1>LaTeX & Citation Management (Zotero)</h1> <!-- Table of contents --> <div id="print-main-content"> <div id="jb-print-toc"> @@ -533,7 +532,11 @@ <h2> Contents </h2> <nav aria-label="Page"> <ul class="visible nav section-nav flex-column"> <li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#plaintext-and-word-counting">Plaintext and word counting</a></li> -<li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#zotero-and-the-better-bibtex-plugin">Zotero and the Better BibTeX Plugin</a></li> +<li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#citation-management-with-zotero-and-the-better-bibtex-plugin">Citation management with Zotero and the Better BibTeX Plugin</a><ul class="nav section-nav flex-column"> +<li class="toc-h3 nav-item toc-entry"><a class="reference internal nav-link" href="#get-and-set-up-zotero-and-better-bibtex">Get and set up Zotero and Better BibTeX</a></li> +<li class="toc-h3 nav-item toc-entry"><a class="reference internal nav-link" href="#auto-merge-multiple-duplicates">Auto-merge multiple duplicates</a></li> +</ul> +</li> <li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#report-writing-template">Report writing template</a></li> <li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#bibliography">Bibliography</a></li> </ul> @@ -547,15 +550,17 @@ <h2> Contents </h2> <div id="searchbox"></div> <article class="bd-article"> - <section class="tex2jax_ignore mathjax_ignore" id="latex-manuscript-writing"> -<span id="debug-tex"></span><h1>LaTeX & Manuscript Writing<a class="headerlink" href="#latex-manuscript-writing" title="Link to this heading">#</a></h1> + <section class="tex2jax_ignore mathjax_ignore" id="latex-citation-management-zotero"> +<span id="debug-tex"></span><h1>LaTeX & Citation Management (Zotero)<a class="headerlink" href="#latex-citation-management-zotero" title="Link to this heading">#</a></h1> <p>Online LaTeX editors, such as Overleaf, offer convenient, real-time collaboration and cloud-based compilation, but advanced features like handling larger documents or extensive team collaboration often require a paid subscription. In contrast, working locally with a dedicated editor like TeXstudio (see <a class="reference internal" href="../get-started/others.html#install-tex"><span class="std std-ref">LaTeX installation</span></a>) allows you to edit and compile documents without depending on an internet connection while writing/compiling and without incurring subscription costs. This page is intended to provide guidance on effectively using LaTeX in a local environment.</p> <section id="plaintext-and-word-counting"> <h2>Plaintext and word counting<a class="headerlink" href="#plaintext-and-word-counting" title="Link to this heading">#</a></h2> <p>To estimate the number of words in a LaTeX manuscript using TeXstudio, begin by creating a plain text version of your document. Under the <strong>Tools</strong> menu, select <strong>Convert to Abridged Plaintext</strong>, which opens a new untitled tab containing your text without LaTeX commands. This stripped-down file is also suitable for sharing with collaborators who prefer (richtext) word processors. Next, choose <strong>Analyse Text…</strong> from the Tools menu and click the Count button. TeXstudio will display the number of paragraphs (that is, words) in your text and even provide a frequency analysis of specific terms. This functionality can be valuable for refining the manuscript writing style, for instance by identifying an overuse of transitional words like “however”.</p> </section> -<section id="zotero-and-the-better-bibtex-plugin"> -<h2>Zotero and the Better BibTeX Plugin<a class="headerlink" href="#zotero-and-the-better-bibtex-plugin" title="Link to this heading">#</a></h2> +<section id="citation-management-with-zotero-and-the-better-bibtex-plugin"> +<h2>Citation management with Zotero and the Better BibTeX Plugin<a class="headerlink" href="#citation-management-with-zotero-and-the-better-bibtex-plugin" title="Link to this heading">#</a></h2> +<section id="get-and-set-up-zotero-and-better-bibtex"> +<h3>Get and set up Zotero and Better BibTeX<a class="headerlink" href="#get-and-set-up-zotero-and-better-bibtex" title="Link to this heading">#</a></h3> <p>Better BibTeX is a plugin for Zotero that enhances its reference management capabilities for LaTeX users. It provides tools for generating, managing, and customizing BibTeX and BibLaTeX entries, making it a valuable citation tool within LaTeX environments. Better BibTeX offers several functionalities that make it a preferred choice:</p> <ul class="simple"> <li><p>Citation key management allows custom citation key generation, offering more control over key formatting.</p></li> @@ -601,6 +606,36 @@ <h2>Zotero and the Better BibTeX Plugin<a class="headerlink" href="#zotero-and-t </ol> <p>For the domains of water resources reasearch and hydraulic engineering, you may want to work with our <a class="reference external" href="http://hydro-informatics.com">hydro-informatics.com</a> library: <a class="reference external" href="https://www.zotero.org/groups/4917569/hydro-informatics/library">https://www.zotero.org/groups/4917569/hydro-informatics/library</a>.</p> </section> +<section id="auto-merge-multiple-duplicates"> +<span id="debug-zotero"></span><h3>Auto-merge multiple duplicates<a class="headerlink" href="#auto-merge-multiple-duplicates" title="Link to this heading">#</a></h3> +<p>Merging duplicates in Zotero can be done by a mouse click, but only by a mouse click and item-by-item. This can take a lot of time when merging large libraries. Here is a workaround to auto-merge multiple duplicates in Zotero.</p> +<div class="important admonition"> +<p class="admonition-title">Make sure all duplicates have the same Item Type</p> +<p>To make the following auto-merge code work smoothly, go over your duplicate items and look for any marked duplicates that have different item types. Next, harmonize the item types of duplicate pairs (i.e., change the Item Type of one of the concerned entries). This is a bit tedious, but does not take too long and much faster than merging each duplicate additionally by mouse click.</p> +</div> +<ul class="simple"> +<li><p>Open the Zotero application on your computer (not in the browser)</p></li> +<li><p>Go to the <strong>Duplicate Items</strong> entry of your library</p></li> +<li><p>Highlight all (press <code class="docutils literal notranslate"><span class="pre">CTRL</span></code> and <code class="docutils literal notranslate"><span class="pre">A</span></code> keys)</p></li> +<li><p>Go to <strong>Tools</strong> (top menu) > <strong>Developer</strong> > <strong>Run JavaScript</strong>, copy-paste the following code block into the <strong>Code</strong> field, and click <strong>Run</strong></p></li> +</ul> +<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">var</span> <span class="n">DupPane</span> <span class="o">=</span> <span class="n">Zotero</span><span class="o">.</span><span class="n">getZoteroPanes</span><span class="p">();</span> + +<span class="k">for</span><span class="p">(</span><span class="n">var</span> <span class="n">i</span> <span class="o">=</span> <span class="mi">0</span><span class="p">;</span> <span class="n">i</span> <span class="o"><</span> <span class="mi">999</span><span class="p">;</span> <span class="n">i</span><span class="o">++</span><span class="p">)</span> <span class="p">{</span> + <span class="k">try</span> <span class="p">{</span> + <span class="k">await</span> <span class="n">new</span> <span class="n">Promise</span><span class="p">(</span><span class="n">r</span> <span class="o">=></span> <span class="n">setTimeout</span><span class="p">(</span><span class="n">r</span><span class="p">,</span> <span class="mi">50</span><span class="p">));</span> + <span class="n">DupPane</span><span class="p">[</span><span class="mi">0</span><span class="p">]</span><span class="o">.</span><span class="n">mergeSelectedItems</span><span class="p">();</span> + <span class="n">Zotero_Duplicates_Pane</span><span class="o">.</span><span class="n">merge</span><span class="p">();</span> + <span class="p">}</span> <span class="n">catch</span> <span class="p">(</span><span class="n">e</span><span class="p">)</span> <span class="p">{</span> + <span class="n">console</span><span class="o">.</span><span class="n">log</span><span class="p">(</span><span class="n">e</span><span class="p">);</span> + <span class="p">}</span> +<span class="p">}</span> +</pre></div> +</div> +<p>The code block makes at maximum 999 iterations, which can be increased by increasing the iteration number in the for loop of the JavaScript code.</p> +<p>This response is inspired by discussions in the <a class="reference external" href="https://forums.zotero.org/discussion/40457/merge-all-duplicates">Zotero Forum</a>.</p> +</section> +</section> <section id="report-writing-template"> <h2>Report writing template<a class="headerlink" href="#report-writing-template" title="Link to this heading">#</a></h2> <p>For detailed installation instructions, working with TexStudio, and setting up LaTeX documents, please have a look at our LaTeX thesis template at <a class="github reference external" href="https://github.com/Ecohydraulics/latex-thesis-template">Ecohydraulics/latex-thesis-template</a>.</p> @@ -609,7 +644,7 @@ <h2>Report writing template<a class="headerlink" href="#report-writing-template" <h2>Bibliography<a class="headerlink" href="#bibliography" title="Link to this heading">#</a></h2> <p>When working with LaTeX, bibliography management typically involves using a .bib file that contains all your references, which you cite within the <code class="docutils literal notranslate"><span class="pre">.tex</span></code> document using <code class="docutils literal notranslate"><span class="pre">\cite{...}</span></code> (or similar) commands. To transform these citations and references into a properly formatted bibliography, you iteratively run a tool like BibTeX after compiling your LaTeX document. <strong>Note that TexStudio does these iterations automatically during compiling</strong>, so these descriptions only explain why you may see the compiling process restart several times even though you only pressed the “Compile” button once.</p> <p>BibTeX reads the <code class="docutils literal notranslate"><span class="pre">.aux</span></code> file of a previous compiling of the <code class="docutils literal notranslate"><span class="pre">.tex</span></code> document, locates the relevant entries in the <code class="docutils literal notranslate"><span class="pre">.bib</span></code> file, and then creates a <code class="docutils literal notranslate"><span class="pre">.bbl</span></code> file containing only the cited references, now formatted according to the style rules defined by a bibliography style file ( for instance, a <code class="docutils literal notranslate"><span class="pre">.bst</span></code> file when using BibTeX). These style files control the appearance and arrangement of citations and references, including how authors, titles, and journal names are displayed. Once the <code class="docutils literal notranslate"><span class="pre">.bbl</span></code> file is generated, LaTeX incorporates it into the final PDF document during the next compilation run. The <code class="docutils literal notranslate"><span class="pre">.bbl</span></code> file thus is a fully formatted subset of the <code class="docutils literal notranslate"><span class="pre">.bib</span></code> database, ensuring that the PDF document displays only the actually cited references, arranged and styled according to the chosen formatting guidelines.</p> -<p>To manage your reference database and generate a <code class="docutils literal notranslate"><span class="pre">.bib</span></code> file, we recommend using tools like <a class="reference external" href="https://www.zotero.org/">Zotero</a> (with additional tips in the <a class="reference internal" href="hack-zotero.html#debug-zotero"><span class="std std-ref">Zotero Tips</span></a> section). Our <a class="reference external" href="https://github.com/Ecohydraulics/latex-thesis-template">LaTeX thesis template</a> provides more guidance on working with Zotero and managing the <code class="docutils literal notranslate"><span class="pre">.bib</span></code> file.</p> +<p>To manage your reference database and generate a <code class="docutils literal notranslate"><span class="pre">.bib</span></code> file, we recommend using tools like <a class="reference external" href="https://www.zotero.org/">Zotero</a> (with additional tips in the <a class="reference internal" href="#debug-zotero"><span class="std std-ref">Zotero Tips</span></a> section). Our <a class="reference external" href="https://github.com/Ecohydraulics/latex-thesis-template">LaTeX thesis template</a> provides more guidance on working with Zotero and managing the <code class="docutils literal notranslate"><span class="pre">.bib</span></code> file.</p> </section> </section> @@ -653,11 +688,11 @@ <h2>Bibliography<a class="headerlink" href="#bibliography" title="Link to this h </div> </a> <a class="right-next" - href="hack-zotero.html" + href="../terms/license.html" title="next page"> <div class="prev-next-info"> <p class="prev-next-subtitle">next</p> - <p class="prev-next-title">Zotero Utilities</p> + <p class="prev-next-title">License</p> </div> <i class="fa-solid fa-angle-right"></i> </a> @@ -679,7 +714,11 @@ <h2>Bibliography<a class="headerlink" href="#bibliography" title="Link to this h <nav class="bd-toc-nav page-toc"> <ul class="visible nav section-nav flex-column"> <li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#plaintext-and-word-counting">Plaintext and word counting</a></li> -<li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#zotero-and-the-better-bibtex-plugin">Zotero and the Better BibTeX Plugin</a></li> +<li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#citation-management-with-zotero-and-the-better-bibtex-plugin">Citation management with Zotero and the Better BibTeX Plugin</a><ul class="nav section-nav flex-column"> +<li class="toc-h3 nav-item toc-entry"><a class="reference internal nav-link" href="#get-and-set-up-zotero-and-better-bibtex">Get and set up Zotero and Better BibTeX</a></li> +<li class="toc-h3 nav-item toc-entry"><a class="reference internal nav-link" href="#auto-merge-multiple-duplicates">Auto-merge multiple duplicates</a></li> +</ul> +</li> <li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#report-writing-template">Report writing template</a></li> <li class="toc-h2 nav-item toc-entry"><a class="reference internal nav-link" href="#bibliography">Bibliography</a></li> </ul> diff --git a/search.html b/search.html index e43ef0e6..efdc0395 100644 --- a/search.html +++ b/search.html @@ -370,8 +370,7 @@ <ul class="nav bd-sidenav"> <li class="toctree-l1"><a class="reference internal" href="scilife/hack-gis.html">GIS, CRS and Projections</a></li> <li class="toctree-l1"><a class="reference internal" href="scilife/gpt-tools.html">Generative AI Tools</a></li> -<li class="toctree-l1"><a class="reference internal" href="scilife/latex.html">LaTeX & Manuscript Writing</a></li> -<li class="toctree-l1"><a class="reference internal" href="scilife/hack-zotero.html">Zotero Utilities</a></li> +<li class="toctree-l1"><a class="reference internal" href="scilife/latex.html">LaTeX & Citation Management (Zotero)</a></li> </ul> <p aria-level="2" class="caption" role="heading"><span class="caption-text">About</span></p> <ul class="nav bd-sidenav"> diff --git a/searchindex.js b/searchindex.js index 88945d8d..a9f196e2 100644 --- a/searchindex.js +++ b/searchindex.js @@ -1 +1 @@ -Search.setIndex({"alltitles": {"": [[36, null]], "(Un)merge Cells": [[56, "un-merge-cells"]], "0. Definitions": [[100, "definitions"]], "1. Source Code": [[100, "source-code"]], "10. Automatic Licensing of Downstream Recipients": [[100, "automatic-licensing-of-downstream-recipients"]], "11. Patents": [[100, "patents"]], "12. No Surrender of Others\u2019 Freedom": [[100, "no-surrender-of-others-freedom"]], "13. Use with the GNU Affero General Public License": [[100, "use-with-the-gnu-affero-general-public-license"]], "14. Revised Versions of this License": [[100, "revised-versions-of-this-license"]], "15. Disclaimer of Warranty": [[100, "disclaimer-of-warranty"]], "16. Limitation of Liability": [[100, "limitation-of-liability"]], "17. Interpretation of Sections 15 and 16": [[100, "interpretation-of-sections-15-and-16"]], "1d Cross-section Averaged Hydrodynamics": [[23, "d-cross-section-averaged-hydrodynamics"]], "1d Hydraulics (Manning-Strickler Formula)": [[22, null]], "1d Sediment Transport": [[23, null]], "2. Basic Permissions": [[100, "basic-permissions"]], "3. 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work?": [[86, "refresher-how-does-calibration-work"]], "Region Markers": [[70, "region-markers"]], "Region Point Markers": [[71, "region-point-markers"]], "Region names and their max_area, MATID, and type field values.": [[70, "region-defs"], [71, "tab-tm-region-defs"]], "Regularization: Ridge regression": [[4, "regularization-ridge-regression"]], "Reload (Re-import) a Package or Module": [[53, "reload-re-import-a-package-or-module"]], "Remove (Delete) Environment": [[93, "remove-delete-environment"]], "Remove Features to Reduce VIF": [[6, "remove-features-to-reduce-vif"]], "Remove NaN Values": [[6, "remove-nan-values"]], "Remove Outliers": [[6, "remove-outliers"]], "Remove a package": [[93, "remove-a-package"]], "Report writing template": [[98, "report-writing-template"]], "Reproject a Raster": [[44, "reproject-a-raster"]], "Requirements": [[2, null], [4, null], [6, null], [15, "requirements"], [18, null], [19, null], [20, null], [21, null], [22, null], [23, null], [29, null], [31, null], [39, null], [42, null], [43, null], [44, null], [45, null], [49, null], [50, null], [51, null], [53, null], [58, "requirements"], [58, "id2"], [61, null], [70, null], [71, null], [72, null], [73, null], [76, null], [81, null], [82, null], [86, null], [87, null], [89, null], [90, null]], "Requirements for Local Usage": [[48, null]], "Requirements for this tutorial": [[64, null]], "Requires TELEMAC v8p2 or more recent": [[78, null]], "Reservoir Volume (Sequent Peak Algorithm)": [[24, null]], "Reshape Data Frames": [[52, "reshape-data-frames"]], "Residual Mass Errors": [[81, "residual-mass-errors"]], "Resolve persisting GDAL installation errors": [[93, null]], "Resolve volume balance issues in unsteady simulations": [[87, null]], "Result Interpretation": [[19, "result-interpretation"], [19, "id8"]], "Retrieve simulation data": [[67, "retrieve-simulation-data"]], "Riverbed Composition": [[74, "riverbed-composition"]], "Root Drive Is Running Out of Disk Space": [[104, "root-drive-is-running-out-of-disk-space"]], "Roughness versus friction": [[82, null]], "Roughness zone interpolation.": [[71, null]], "Roughness.XYZ with QGIS (recommended)": [[82, "roughness-xyz-with-qgis-recommended"]], "Run Friction Zone Simulation": [[82, "run-friction-zone-simulation"]], "Run Gaia": [[77, "run-gaia"]], "Run Meshing (blockMesh)": [[66, "run-meshing-blockmesh"]], "Run OpenFOAM": [[68, "run-openfoam"]], "Run Simulation (Compute)": [[89, "run-simulation-compute"]], "Run Simulation (Steady 2d)": [[62, "run-simulation-steady-2d"]], "Run Telemac with Friction IDs": [[82, "run-telemac-with-friction-ids"]], "Run Telemac2d": [[86, "run-telemac2d"]], "Run Telemac2d Unsteady": [[87, "run-telemac2d-unsteady"]], "Run Telemac3d": [[90, "run-telemac3d"]], "Run and Analyze": [[77, null]], "Run and Check a Steady 2d Simulation": [[62, null]], "Run the HSI and cHSI Code": [[19, "run-the-hsi-and-chsi-code"]], "Run the Usable Habitat Area Calculation Code": [[19, "run-the-usable-habitat-area-calculation-code"]], "SALOME": [[35, "salome"]], "SALOME-HYDRO": [[89, "salome-hydro"], [109, "salome-hydro"]], "SALOME-HYDRO & HydroSolver": [[89, "salome-hydro-hydrosolver"]], "SALOME-HYDRO not starting (Kernel/Session)": [[109, "salome-hydro-not-starting-kernel-session"]], "SELAFIN": [[71, "selafin"]], "Save Project Pipeline": [[62, "save-project-pipeline"]], "Save the project": [[89, null], [89, null], [89, null], [89, null], [89, null]], "Save the project\u2026": [[62, null], [70, null], [71, null]], "Schedule (Winter 2021/22)": [[58, "schedule-winter-2021-22"]], "Schwimmstabilit\u00e4t": [[46, "schwimmstabilitat"]], "Schwimmstabilit\u00e4t von K\u00f6rpern": [[46, null]], "Script a Habitat Suitability Map": [[19, null]], "Search Outliers": [[6, "search-outliers"]], "Secondary Currents": [[75, "secondary-currents"]], "Sediment Classes": [[74, "sediment-classes"]], "Sediment Transport": [[23, "sediment-transport"]], "Sediment Transport Modes": [[76, "sediment-transport-modes"]], "Sediment replenishment, gravel augmentation, bedload addition (etc.)": [[75, null]], "Select Optimum Parameters": [[6, "select-optimum-parameters"]], "Sequent Peak Algorithm": [[24, "sequent-peak-algorithm"]], "Set Spatial Extents": [[42, "set-spatial-extents"]], "Set Window Geometry": [[21, "set-window-geometry"]], "Set the Frame": [[23, "set-the-frame"]], "Sets": [[48, "sets"]], "Setup Interfaces and IDEs": [[93, "setup-interfaces-and-ides"]], "Setup Interpreter": [[42, "setup-interpreter"]], "Setup Linux": [[39, "setup-linux"]], "Setup Python Source File": [[36, "setup-python-source-file"]], "Setup Simulation File": [[62, "setup-simulation-file"]], "Setup User Configuration": [[35, "setup-user-configuration"]], "Setup arcpy Workspace": [[42, "setup-arcpy-workspace"]], "Shapefile": [[30, "shapefile"]], "Shapefile (Vector) Handling": [[45, null]], "Shapefile Operations": [[42, "shapefile-operations"]], "Shapefile to XYZ": [[31, null]], "Shapefile versus Geodatabase": [[30, "shapefile-versus-geodatabase"]], "Similitude Concepts": [[0, "similitude-concepts"]], "Simulation Steering Case File (CAS)": [[89, "simulation-steering-case-file-cas"]], "Single and double precision": [[83, null]], "Skip this section if you created a .2dm quality mesh with BASEMESH": [[71, null]], "Slope / Aspect Maps and Built-in Command Line Scripts": [[44, "slope-aspect-maps-and-built-in-command-line-scripts"]], "Snapping": [[66, "snapping"]], "SnappyHexMesh": [[66, "snappyhexmesh"]], "Soft Alternatives": [[49, "soft-alternatives"]], "Software Management": [[39, "software-management"]], "Software Resources": [[38, null]], "Software minimalism: Less is better than more": [[39, null]], "Solution": [[1, null], [2, null], [2, null], [2, null], [4, null], [4, null], [4, null]], "Solution to the Machine Learning Exercise 1.": [[2, "tab-ml-ex1-solution"]], "Solution to the Machine Learning Exercise 3.": [[2, "tab-ml-ex1-solution3"], [4, "tab-ml-ex1-solutionx"]], "Solutions to the probability function Pr(T, \\Delta t) for selected observation periods \\Delta t.": [[18, "tab-pr-floods"]], "Some Terms and Definitions": [[54, "some-terms-and-definitions"]], "Some string explanations": [[24, null]], "Spatial Analyst & Raster Operations": [[42, "spatial-analyst-raster-operations"]], "Special characters in directory/folder names": [[62, null]], "Special feature: The Mint Hyfo VM": [[39, "special-feature-the-mint-hyfo-vm"]], "Speed up": [[77, null], [87, null]], "Split Test and Training Datasets": [[6, "split-test-and-training-datasets"]], "Stability & Physical Correctness": [[81, "stability-physical-correctness"]], "Stage-discharge (or WSE-Q) File (txt - ASCII)": [[83, "stage-discharge-or-wse-q-file-txt-ascii"]], "Stand-alone TELEMAC installation": [[89, "stand-alone-telemac-installation"]], "Standalone Scripts with Input Parameters": [[53, "standalone-scripts-with-input-parameters"]], "Start a Telemac2d simulation": [[86, "start-a-telemac2d-simulation"]], "Start and Manage the Mint Hyfo VM": [[39, "start-and-manage-the-mint-hyfo-vm"]], "Statistics": [[52, "statistics"]], "Steady 2d": [[86, null]], "Steady 3d (MED and Salome)": [[89, null]], "Steady 3d (SLF - Selafin)": [[90, null]], "Steering (CAS) Files": [[109, "steering-cas-files"]], "Steering File": [[90, "steering-file"]], "Steering File (CAS)": [[86, "steering-file-cas"]], "Step-by-step Recipe for 1d/2d (line) Plots": [[54, "step-by-step-recipe-for-1d-2d-line-plots"]], "Storage Volume and Difference (SD-line) Curves": [[24, "storage-volume-and-difference-sd-line-curves"]], "Strickler values for HYDRAULIC FRICTION regions.": [[62, "region-kst"]], "Structural vs. estimation error": [[4, "structural-vs-estimation-error"]], "Structured Data (XML, xlsx & JSON)": [[56, null]], "Students of the University of Stuttgart": [[33, null]], "Sublime": [[34, "sublime"]], "Summary for updating a repository": [[33, null]], "Supervised Learning": [[9, 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Metashapes Python bindings": [[27, null]], "TclError: bitmap \u201cgraphs/icon.ico\u201d not defined": [[21, null]], "Telemac Bindings": [[82, "telemac-bindings"]], "Telemac Implementation": [[14, null]], "Telemac2d": [[85, null]], "Telemac3d": [[88, null]], "Terminology": [[18, "terminology"], [76, "terminology"]], "Test TELEMAC": [[36, "test-telemac"]], "Test if the code works": [[19, null]], "Test-run": [[35, "test-run"]], "Text": [[48, "text"]], "The .xyz file is not an XYZ tile": [[71, null]], "The 0 Directory": [[69, "the-0-directory"]], "The Class of Classes": [[41, "the-class-of-classes"]], "The Commercial arcpy Library": [[42, null]], "The Concept": [[33, "the-concept"]], "The Constant Subdirectory": [[69, "the-constant-subdirectory"]], "The Difference between Calibration and Validation": [[63, null]], "The Difference between a Module and a Package": [[53, null]], "The Donau zonal friction ID example": [[82, null]], "The First GUI": [[47, "the-first-gui"]], "The First Lines of Code": [[48, "the-first-lines-of-code"]], "The Meyer-Peter and M\u00fcller (1948) Formula": [[23, "the-meyer-peter-and-muller-1948-formula"]], "The Nature of Data": [[0, "the-nature-of-data"]], "The PostTelemac Plugin": [[86, null]], "The Probability of a 100-year Flood Occurring in 100 Years is 63%": [[18, "the-probability-of-a-100-year-flood-occurring-in-100-years-is-63"]], "The Results/Restart file (SLF or MED)": [[83, "the-results-restart-file-slf-or-med"]], "The Steering File (CAS)": [[83, "the-steering-file-cas"]], "The Structure of Boundaries.Cli": [[72, "the-structure-of-boundaries-cli"]], "The Surface group in earlier versions of SALOME-HYDRO": [[89, null]], "The System Directory": [[69, "the-system-directory"]], "The TELEMAC File Structure": [[83, "the-telemac-file-structure"]], "The Virtual Classroom": [[57, null]], "The Zen of Python": [[55, "the-zen-of-python"]], "The difference between Open Access and Open Source": [[38, null]], "The difference between machine learning and data science": [[5, "the-difference-between-machine-learning-and-data-science"]], "The goal of machine learning": [[5, "the-goal-of-machine-learning"]], "The pass Statement": [[49, "the-pass-statement"]], "The resulting video export may look like this:": [[62, null]], "Theoretical background": [[22, "theoretical-background"]], "Theory": [[6, "theory"], [23, "theory"], [24, "theory"]], "Theory chapter under development": [[63, null]], "There are many (experimental) branches of TELEMAC available": [[36, null]], "Third-party Plugins": [[71, "third-party-plugins"]], "This section is under construction": [[81, null]], "This tutorial exceptionally requires proprietary software": [[27, null]], "Three-based methods (Coming soon)": [[10, "three-based-methods-coming-soon"]], "Tidal Flats": [[81, "tidal-flats"], [86, "tidal-flats"]], "Time Directories": [[64, "time-directories"]], "Tips": [[43, null]], "Tips for modeling rivers": [[72, null], [80, null]], "Tools (Packages) for Plotting with Python": [[54, "tools-packages-for-plotting-with-python"]], "Top-level Custom Pop-ups": [[47, "top-level-custom-pop-ups"]], "Traceback errors": [[109, "traceback-errors"]], "Track Errors": [[42, "track-errors"]], "Train Optimum Hypothesis SVM Model": [[6, "train-optimum-hypothesis-svm-model"]], "Training and testing": [[9, "training-and-testing"]], "Transform (Re-project) a Shapefile": [[45, "transform-re-project-a-shapefile"]], "Transformation errors": [[44, null]], "Triangulated Irregular Network (TIN)": [[30, "triangulated-irregular-network-tin"]], "Troubles with creating and defining the liquid boundaries?": [[71, null]], "Troubles with creating the Selafin mesh and or the height interpolation?": [[71, null]], "Troubles with creating the channel mesh?": [[71, null]], "Troubles with creating the compound mesh?": [[71, null]], "Troubles with drawing boundaries and breaklines?": [[70, null], [71, null]], "Troubles with drawing the liquid boundary lines?": [[70, null], [71, null]], "Troubles with drawing the model outline?": [[71, null]], "Troubles with drawing the open lines of the channel banks?": [[71, null]], "Troubles with drawing the region marker points?": [[70, null], [71, null]], "Troubles with running the quality mesh generator?": [[71, null]], "Troubleshoot Instabilities & Divergence": [[73, "troubleshoot-instabilities-divergence"]], "Troubleshoot No such file or directory": [[36, null]], "Troubleshoot errors in the compiling process": [[36, null]], "Troubleshoot typical VIM issues": [[36, null]], "Troubleshooting": [[15, "troubleshooting"]], "Tuple": [[48, "tuple"]], "Turbulence": [[86, "turbulence"], [89, "turbulence"], [90, "turbulence"]], "Tutorial under construction": [[90, null]], "Two-dimensional (2d) Hydrodynamic Modelling (Folder: BASEMENT)": [[19, "two-dimensional-2d-hydrodynamic-modelling-folder-basement"]], "Two-dimensional (2d) Mesh of the Flume": [[89, "two-dimensional-2d-mesh-of-the-flume"]], "Types of machine learning": [[5, "types-of-machine-learning"]], "U field Dictionary": [[69, "u-field-dictionary"]], "UNKNOWN BOUNDARY CONDITIONS": [[109, "unknown-boundary-conditions"]], "Ubuntu (incl. Mint and Lubuntu)": [[35, "ubuntu-incl-mint-and-lubuntu"]], "Under construction - incomplete instructions": [[0, null]], "Unfold QR Code": [[41, null], [47, null], [48, null], [49, null], [50, null], [51, null], [52, null], [53, null], [54, null], [55, null], [56, null]], "Unfold to read this non-recommended alternative": [[82, "bk-closed-fric-lines"]], "Unfold to see the correct Terminal output": [[82, null]], "Unique elements only": [[89, null]], "Unsteady (quasi-steady) simulations": [[90, null]], "Unsteady 2d": [[87, null]], "Unsteady simulation file repository": [[87, null]], "Unsupervised Learning (Coming soon)": [[11, "unsupervised-learning-coming-soon"]], "Untested workflow!": [[36, null], [36, null]], "Update (upgrade) packages and environments": [[93, "update-upgrade-packages-and-environments"]], "Update OpenFOAM": [[35, "update-openfoam"]], "Update Software": [[39, "update-software"]], "Update a Remote Repository (Push Local Changes)": [[33, "update-a-remote-repository-push-local-changes"]], "Usage": [[15, "usage"], [52, "usage"], [52, "id5"]], "Usage (Simple Plots)": [[54, "usage-simple-plots"]], "Usage with BASEMENT": [[70, "usage-with-basement"]], "Use Descriptive Variable Names": [[49, "use-descriptive-variable-names"]], "Use EPSG:3857": [[30, null]], "Use Exceptions Precisely": [[49, "use-exceptions-precisely"]], "Use SCHEME FOR ADVECTION in lieu of TYPE OF ADVECTION": [[86, null]], "Use arcpy with External IDEs": [[42, "use-arcpy-with-external-ides"]], "Use conda on Windows": [[93, null]], "Use finite volumes only with v8p2 or later": [[86, null]], "Use flusstools": [[45, null]], "Use pip and venv on Linux": [[93, null]], "Use the DURATION keyword": [[81, null]], "Useful Software": [[39, "useful-software"]], "User Fortran Files": [[75, null]], "User Rights": [[39, "user-rights"]], "User-defined Bedload transport formulae in a specific Fortran file": [[75, null]], "Usual Launch Procedure": [[35, 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work?": [[86, "refresher-how-does-calibration-work"]], "Region Markers": [[70, "region-markers"]], "Region Point Markers": [[71, "region-point-markers"]], "Region names and their max_area, MATID, and type field values.": [[70, "region-defs"], [71, "tab-tm-region-defs"]], "Regularization: Ridge regression": [[4, "regularization-ridge-regression"]], "Reload (Re-import) a Package or Module": [[53, "reload-re-import-a-package-or-module"]], "Remove (Delete) Environment": [[93, "remove-delete-environment"]], "Remove Features to Reduce VIF": [[6, "remove-features-to-reduce-vif"]], "Remove NaN Values": [[6, "remove-nan-values"]], "Remove Outliers": [[6, "remove-outliers"]], "Remove a package": [[93, "remove-a-package"]], "Report writing template": [[97, "report-writing-template"]], "Reproject a Raster": [[44, "reproject-a-raster"]], "Requirements": [[2, null], [4, null], [6, null], [15, "requirements"], [18, null], [19, null], [20, null], [21, null], [22, null], [23, null], [29, null], [31, null], [39, null], [42, null], [43, null], [44, null], [45, null], [49, null], [50, null], [51, null], [53, null], [58, "requirements"], [58, "id2"], [61, null], [70, null], [71, null], [72, null], [73, null], [76, null], [81, null], [82, null], [86, null], [87, null], [89, null], [90, null]], "Requirements for Local Usage": [[48, null]], "Requirements for this tutorial": [[64, null]], "Requires TELEMAC v8p2 or more recent": [[78, null]], "Reservoir Volume (Sequent Peak Algorithm)": [[24, null]], "Reshape Data Frames": [[52, "reshape-data-frames"]], "Residual Mass Errors": [[81, "residual-mass-errors"]], "Resolve persisting GDAL installation errors": [[93, null]], "Resolve volume balance issues in unsteady simulations": [[87, null]], "Result Interpretation": [[19, "result-interpretation"], [19, "id8"]], "Retrieve simulation data": [[67, "retrieve-simulation-data"]], "Riverbed Composition": [[74, "riverbed-composition"]], "Root Drive Is Running Out of Disk Space": [[103, 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"run-the-usable-habitat-area-calculation-code"]], "SALOME": [[35, "salome"]], "SALOME-HYDRO": [[89, "salome-hydro"], [108, "salome-hydro"]], "SALOME-HYDRO & HydroSolver": [[89, "salome-hydro-hydrosolver"]], "SALOME-HYDRO not starting (Kernel/Session)": [[108, "salome-hydro-not-starting-kernel-session"]], "SELAFIN": [[71, "selafin"]], "Save Project Pipeline": [[62, "save-project-pipeline"]], "Save the project": [[89, null], [89, null], [89, null], [89, null], [89, null]], "Save the project\u2026": [[62, null], [70, null], [71, null]], "Schedule (Winter 2021/22)": [[58, "schedule-winter-2021-22"]], "Schwimmstabilit\u00e4t": [[46, "schwimmstabilitat"]], "Schwimmstabilit\u00e4t von K\u00f6rpern": [[46, null]], "Script a Habitat Suitability Map": [[19, null]], "Search Outliers": [[6, "search-outliers"]], "Secondary Currents": [[75, "secondary-currents"]], "Sediment Classes": [[74, "sediment-classes"]], "Sediment Transport": [[23, "sediment-transport"]], "Sediment Transport Modes": [[76, "sediment-transport-modes"]], "Sediment replenishment, gravel augmentation, bedload addition (etc.)": [[75, null]], "Select Optimum Parameters": [[6, "select-optimum-parameters"]], "Sequent Peak Algorithm": [[24, "sequent-peak-algorithm"]], "Set Spatial Extents": [[42, "set-spatial-extents"]], "Set Window Geometry": [[21, "set-window-geometry"]], "Set the Frame": [[23, "set-the-frame"]], "Sets": [[48, "sets"]], "Setup Interfaces and IDEs": [[93, "setup-interfaces-and-ides"]], "Setup Interpreter": [[42, "setup-interpreter"]], "Setup Linux": [[39, "setup-linux"]], "Setup Python Source File": [[36, "setup-python-source-file"]], "Setup Simulation File": [[62, "setup-simulation-file"]], "Setup User Configuration": [[35, "setup-user-configuration"]], "Setup arcpy Workspace": [[42, "setup-arcpy-workspace"]], "Shapefile": [[30, "shapefile"]], "Shapefile (Vector) Handling": [[45, null]], "Shapefile Operations": [[42, "shapefile-operations"]], "Shapefile to XYZ": [[31, null]], "Shapefile versus Geodatabase": [[30, "shapefile-versus-geodatabase"]], "Similitude Concepts": [[0, "similitude-concepts"]], "Simulation Steering Case File (CAS)": [[89, "simulation-steering-case-file-cas"]], "Single and double precision": [[83, null]], "Skip this section if you created a .2dm quality mesh with BASEMESH": [[71, null]], "Slope / Aspect Maps and Built-in Command Line Scripts": [[44, "slope-aspect-maps-and-built-in-command-line-scripts"]], "Snapping": [[66, "snapping"]], "SnappyHexMesh": [[66, "snappyhexmesh"]], "Soft Alternatives": [[49, "soft-alternatives"]], "Software Management": [[39, "software-management"]], "Software Resources": [[38, null]], "Software minimalism: Less is better than more": [[39, null]], "Solution": [[1, null], [2, null], [2, null], [2, null], [4, null], [4, null], [4, null]], "Solution to the Machine Learning Exercise 1.": [[2, "tab-ml-ex1-solution"]], "Solution to the Machine Learning Exercise 3.": [[2, "tab-ml-ex1-solution3"], [4, "tab-ml-ex1-solutionx"]], "Solutions to the probability function Pr(T, \\Delta t) for selected observation periods \\Delta t.": [[18, "tab-pr-floods"]], "Some Terms and Definitions": [[54, "some-terms-and-definitions"]], "Some string explanations": [[24, null]], "Spatial Analyst & Raster Operations": [[42, "spatial-analyst-raster-operations"]], "Special characters in directory/folder names": [[62, null]], "Special feature: The Mint Hyfo VM": [[39, "special-feature-the-mint-hyfo-vm"]], "Speed up": [[77, null], [87, null]], "Split Test and Training Datasets": [[6, "split-test-and-training-datasets"]], "Stability & Physical Correctness": [[81, "stability-physical-correctness"]], "Stage-discharge (or WSE-Q) File (txt - ASCII)": [[83, "stage-discharge-or-wse-q-file-txt-ascii"]], "Stand-alone TELEMAC installation": [[89, "stand-alone-telemac-installation"]], "Standalone Scripts with Input Parameters": [[53, "standalone-scripts-with-input-parameters"]], "Start a Telemac2d simulation": [[86, "start-a-telemac2d-simulation"]], "Start and Manage the Mint Hyfo VM": [[39, "start-and-manage-the-mint-hyfo-vm"]], "Statistics": [[52, "statistics"]], "Steady 2d": [[86, null]], "Steady 3d (MED and Salome)": [[89, null]], "Steady 3d (SLF - Selafin)": [[90, null]], "Steering (CAS) Files": [[108, "steering-cas-files"]], "Steering File": [[90, "steering-file"]], "Steering File (CAS)": [[86, "steering-file-cas"]], "Step-by-step Recipe for 1d/2d (line) Plots": [[54, "step-by-step-recipe-for-1d-2d-line-plots"]], "Storage Volume and Difference (SD-line) Curves": [[24, "storage-volume-and-difference-sd-line-curves"]], "Strickler values for HYDRAULIC FRICTION regions.": [[62, "region-kst"]], "Structural vs. estimation error": [[4, "structural-vs-estimation-error"]], "Structured Data (XML, xlsx & JSON)": [[56, null]], "Students of the University of Stuttgart": [[33, null]], "Sublime": [[34, "sublime"]], "Summary for updating a repository": [[33, null]], "Supervised Learning": [[9, 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Metashapes Python bindings": [[27, null]], "TclError: bitmap \u201cgraphs/icon.ico\u201d not defined": [[21, null]], "Telemac Bindings": [[82, "telemac-bindings"]], "Telemac Implementation": [[14, null]], "Telemac2d": [[85, null]], "Telemac3d": [[88, null]], "Terminology": [[18, "terminology"], [76, "terminology"]], "Test TELEMAC": [[36, "test-telemac"]], "Test if the code works": [[19, null]], "Test-run": [[35, "test-run"]], "Text": [[48, "text"]], "The .xyz file is not an XYZ tile": [[71, null]], "The 0 Directory": [[69, "the-0-directory"]], "The Class of Classes": [[41, "the-class-of-classes"]], "The Commercial arcpy Library": [[42, null]], "The Concept": [[33, "the-concept"]], "The Constant Subdirectory": [[69, "the-constant-subdirectory"]], "The Difference between Calibration and Validation": [[63, null]], "The Difference between a Module and a Package": [[53, null]], "The Donau zonal friction ID example": [[82, null]], "The First GUI": [[47, "the-first-gui"]], "The First Lines of Code": [[48, "the-first-lines-of-code"]], "The Meyer-Peter and M\u00fcller (1948) Formula": [[23, "the-meyer-peter-and-muller-1948-formula"]], "The Nature of Data": [[0, "the-nature-of-data"]], "The PostTelemac Plugin": [[86, null]], "The Probability of a 100-year Flood Occurring in 100 Years is 63%": [[18, "the-probability-of-a-100-year-flood-occurring-in-100-years-is-63"]], "The Results/Restart file (SLF or MED)": [[83, "the-results-restart-file-slf-or-med"]], "The Steering File (CAS)": [[83, "the-steering-file-cas"]], "The Structure of Boundaries.Cli": [[72, "the-structure-of-boundaries-cli"]], "The Surface group in earlier versions of SALOME-HYDRO": [[89, null]], "The System Directory": [[69, "the-system-directory"]], "The TELEMAC File Structure": [[83, "the-telemac-file-structure"]], "The Virtual Classroom": [[57, null]], "The Zen of Python": [[55, "the-zen-of-python"]], "The difference between Open Access and Open Source": [[38, null]], "The difference between machine learning and data science": [[5, "the-difference-between-machine-learning-and-data-science"]], "The goal of machine learning": [[5, "the-goal-of-machine-learning"]], "The pass Statement": [[49, "the-pass-statement"]], "The resulting video export may look like this:": [[62, null]], "Theoretical background": [[22, "theoretical-background"]], "Theory": [[6, "theory"], [23, "theory"], [24, "theory"]], "Theory chapter under development": [[63, null]], "There are many (experimental) branches of TELEMAC available": [[36, null]], "Third-party Plugins": [[71, "third-party-plugins"]], "This section is under construction": [[81, null]], "This tutorial exceptionally requires proprietary software": [[27, null]], "Three-based methods (Coming soon)": [[10, "three-based-methods-coming-soon"]], "Tidal Flats": [[81, "tidal-flats"], [86, "tidal-flats"]], "Time Directories": [[64, "time-directories"]], "Tips": [[43, null]], "Tips for modeling rivers": [[72, null], [80, null]], "Tools (Packages) for Plotting with Python": [[54, "tools-packages-for-plotting-with-python"]], "Top-level Custom Pop-ups": [[47, "top-level-custom-pop-ups"]], "Traceback errors": [[108, "traceback-errors"]], "Track Errors": [[42, "track-errors"]], "Train Optimum Hypothesis SVM Model": [[6, "train-optimum-hypothesis-svm-model"]], "Training and testing": [[9, "training-and-testing"]], "Transform (Re-project) a Shapefile": [[45, "transform-re-project-a-shapefile"]], "Transformation errors": [[44, null]], "Triangulated Irregular Network (TIN)": [[30, "triangulated-irregular-network-tin"]], "Troubles with creating and defining the liquid boundaries?": [[71, null]], "Troubles with creating the Selafin mesh and or the height interpolation?": [[71, null]], "Troubles with creating the channel mesh?": [[71, null]], "Troubles with creating the compound mesh?": [[71, null]], "Troubles with drawing boundaries and breaklines?": [[70, null], [71, null]], "Troubles with drawing the liquid boundary lines?": [[70, null], [71, null]], "Troubles with drawing the model outline?": [[71, null]], "Troubles with drawing the open lines of the channel banks?": [[71, null]], "Troubles with drawing the region marker points?": [[70, null], [71, null]], "Troubles with running the quality mesh generator?": [[71, null]], "Troubleshoot Instabilities & Divergence": [[73, "troubleshoot-instabilities-divergence"]], "Troubleshoot No such file or directory": [[36, null]], "Troubleshoot errors in the compiling process": [[36, null]], "Troubleshoot typical VIM issues": [[36, null]], "Troubleshooting": [[15, "troubleshooting"]], "Tuple": [[48, "tuple"]], "Turbulence": [[86, "turbulence"], [89, "turbulence"], [90, "turbulence"]], "Tutorial under construction": [[90, null]], "Two-dimensional (2d) Hydrodynamic Modelling (Folder: BASEMENT)": [[19, "two-dimensional-2d-hydrodynamic-modelling-folder-basement"]], "Two-dimensional (2d) Mesh of the Flume": [[89, "two-dimensional-2d-mesh-of-the-flume"]], "Types of machine learning": [[5, "types-of-machine-learning"]], "U field Dictionary": [[69, "u-field-dictionary"]], "UNKNOWN BOUNDARY CONDITIONS": [[108, "unknown-boundary-conditions"]], "Ubuntu (incl. Mint and Lubuntu)": [[35, "ubuntu-incl-mint-and-lubuntu"]], "Under construction - incomplete instructions": [[0, null]], "Unfold QR Code": [[41, null], [47, null], [48, null], [49, null], [50, null], [51, null], [52, null], [53, null], [54, null], [55, null], [56, null]], "Unfold to read this non-recommended alternative": [[82, "bk-closed-fric-lines"]], "Unfold to see the correct Terminal output": [[82, null]], "Unique elements only": [[89, null]], "Unsteady (quasi-steady) simulations": [[90, null]], "Unsteady 2d": [[87, null]], "Unsteady simulation file repository": [[87, null]], "Unsupervised Learning (Coming soon)": [[11, "unsupervised-learning-coming-soon"]], "Untested workflow!": [[36, null], [36, null]], "Update (upgrade) packages and environments": [[93, "update-upgrade-packages-and-environments"]], "Update OpenFOAM": [[35, "update-openfoam"]], "Update Software": [[39, "update-software"]], "Update a Remote Repository (Push Local Changes)": [[33, "update-a-remote-repository-push-local-changes"]], "Usage": [[15, "usage"], [52, "usage"], [52, "id5"]], "Usage (Simple Plots)": [[54, "usage-simple-plots"]], "Usage with BASEMENT": [[70, "usage-with-basement"]], "Use Descriptive Variable Names": [[49, "use-descriptive-variable-names"]], "Use EPSG:3857": [[30, null]], "Use Exceptions Precisely": [[49, "use-exceptions-precisely"]], "Use SCHEME FOR ADVECTION in lieu of TYPE OF ADVECTION": [[86, null]], "Use arcpy with External IDEs": [[42, "use-arcpy-with-external-ides"]], "Use conda on Windows": [[93, null]], "Use finite volumes only with v8p2 or later": [[86, null]], "Use flusstools": [[45, null]], "Use pip and venv on Linux": [[93, null]], "Use the DURATION keyword": [[81, null]], "Useful Software": [[39, "useful-software"]], "User Fortran Files": [[75, null]], "User Rights": [[39, "user-rights"]], "User-defined Bedload transport formulae in a specific Fortran file": [[75, null]], "Usual Launch Procedure": [[35, 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36, 39, 42, 44, 47, 48, 62, 67, 70, 71, 73, 77, 82, 86, 87, 89, 90, 93, 94, 96, 97, 103, 108], "client": 60, "climat": [12, 24, 30, 86], "climatolog": 30, "clip": [67, 80, 81], "clipboard": 86, "clock": [39, 89], "clocktim": 68, "clog": [12, 14], "clone": [18, 19, 20, 21, 22, 23, 24, 36, 37, 39, 73, 76, 89, 94], "close": [2, 4, 6, 12, 14, 19, 31, 34, 35, 36, 39, 44, 45, 47, 52, 56, 62, 63, 66, 69, 70, 72, 74, 75, 77, 80, 81, 82, 86, 87, 89, 93, 99, 100, 101, 103, 104, 108], "closest": [19, 36, 39, 77, 82, 86], "closur": [14, 63, 64, 76, 86], "cloth": 60, "cloud": [14, 30, 31, 37, 45, 58, 70, 71, 97], "cloudant": 44, "clt": 35, "club": 15, "clupea": 14, "cluster": [5, 9], "cm": [18, 24, 27, 54, 56, 73, 76, 82, 87], "cma": 12, "cmake": 36, "cmap": 54, "cmd_create_aspect": 44, "cmd_create_slop": 44, "cmd_ex": 36, "cmd_lib": 36, "cmd_obj": 36, "co": [12, 14, 15, 44, 52, 54, 74, 75, 77, 81, 82, 108], "coars": [0, 12, 14, 23, 27, 74, 75, 76, 82, 86], "coarser": [14, 23, 31, 62, 71, 74, 75, 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97, 99, 102, 103, 108, 109], "comment": [21, 47, 76, 81, 82, 87, 89, 90, 103], "commerci": [28, 29, 30, 34, 37, 50, 59, 63, 83, 95, 98, 99, 104], "commit": [33, 99], "committe": 40, "common": [4, 6, 12, 14, 23, 30, 31, 35, 38, 39, 41, 49, 63, 72, 99, 100, 103, 105], "commonli": [6, 14, 19, 27, 31, 37], "commun": [12, 14, 21, 26, 33, 36, 37, 39, 52, 55, 56, 58, 62, 89, 94, 99], "compani": [14, 42, 54], "companion": 39, "compar": [4, 12, 14, 19, 44, 48, 62, 63, 77, 82, 86, 87, 108], "comparison": [0, 12, 14, 19, 42, 48, 56, 73, 74, 77, 86], "compass": 15, "compat": [12, 15, 27, 30, 31, 36, 37, 39, 55, 67, 76, 81, 86, 87, 89, 90, 93], "compens": [14, 24, 72], "compet": [72, 74, 75], "competitor": 42, "compil": [35, 37, 39, 64, 77, 82, 86, 87, 89, 90, 97, 99], "compile_telemac": 36, "complement": [19, 51], "complementari": 57, "complet": [6, 23, 31, 32, 36, 37, 39, 45, 49, 54, 55, 61, 62, 66, 67, 69, 71, 73, 75, 76, 79, 82, 87, 90, 93, 95, 98], "complex": [1, 4, 5, 6, 9, 12, 13, 14, 15, 18, 19, 22, 32, 34, 41, 44, 47, 48, 49, 52, 53, 54, 55, 56, 61, 62, 63, 64, 67, 74, 75, 77, 82, 86, 89], "complex32": 52, "compli": [6, 62, 72, 99], "complianc": 99, "compliant": 44, "complic": [47, 55, 82], "compon": [12, 14, 31, 36, 99], "compos": [6, 14, 51, 65, 66, 69, 74], "composit": [76, 77], "compound": [12, 18, 32], "comprehens": [5, 14, 15, 29, 32, 39, 41, 49, 52, 66, 95, 103, 107], "compress": [12, 14], "compris": 14, "compromis": 27, "compt": 12, "comput": [0, 2, 4, 5, 6, 9, 12, 13, 14, 15, 19, 21, 23, 27, 30, 31, 33, 34, 36, 39, 40, 41, 49, 50, 52, 56, 58, 61, 63, 64, 65, 66, 67, 68, 70, 71, 73, 74, 75, 76, 77, 78, 79, 80, 82, 83, 86, 87, 88, 93, 94, 97, 98, 99, 104, 108, 109], "computation": [3, 5, 14, 19, 70, 71, 74, 81, 83, 86], "computation_environ": 89, "compute_edg": 44, "compute_phi": 23, "compute_tau_x": 23, "comt\u00e9": 75, "con": [42, 47], "concat": 52, "concaten": [36, 41, 48, 52], "concav": 66, "concavehul": 45, "concentr": [12, 14, 16, 72, 74, 76, 78, 108], 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