Built site for gh-pages

.nojekyll

@@ -1 +1 @@
-9a97719b
+d3978c01

evaluation/badges.html

@@ -266,7 +266,7 @@ <h1 class="title">Journal badges</h1>
 <p><em>Caveat: Please note that these criteria are based on available information about each badge online, and that we have likely differences in our procedure (e.g.&nbsp;allowed troubleshooting for execution and reproduction, not under tight time pressure to complete). Moreover, we focus only on reproduction of the discrete-event simulation, and not on other aspects of the article. We cannot guarantee that the badges below would have been awarded in practice by these journals.</em></p>
 <section id="criteria" class="level2">
 <h2 class="anchored" data-anchor-id="criteria">Criteria</h2>
-<div id="dbd649ca" class="cell" data-execution_count="1">
+<div id="a63b8b06" class="cell" data-execution_count="1">
 <details class="code-fold">
 <summary>Code</summary>
 <div class="sourceCode cell-code" id="cb1"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb1-1"><a href="#cb1-1" aria-hidden="true" tabindex="-1"></a><span class="im">from</span> IPython.display <span class="im">import</span> display, Markdown</span>
@@ -398,7 +398,7 @@ <h2 class="anchored" data-anchor-id="criteria">Criteria</h2>
 </section>
 <section id="badges" class="level2">
 <h2 class="anchored" data-anchor-id="badges">Badges</h2>
-<div id="fbf914e0" class="cell" data-execution_count="2">
+<div id="cdddb6cb" class="cell" data-execution_count="2">
 <details class="code-fold">
 <summary>Code</summary>
 <div class="sourceCode cell-code" id="cb2"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb2-1"><a href="#cb2-1" aria-hidden="true" tabindex="-1"></a><span class="co"># Full badge names</span></span>

evaluation/reporting.html

@@ -1064,7 +1064,7 @@ <h2 class="anchored" data-anchor-id="des-checklist-derived-from-ispor-sdm">DES c
     </div>
   </div>
 </footer>
-<script>var lightboxQuarto = GLightbox({"closeEffect":"zoom","descPosition":"bottom","selector":".lightbox","loop":false,"openEffect":"zoom"});
+<script>var lightboxQuarto = GLightbox({"openEffect":"zoom","selector":".lightbox","closeEffect":"zoom","descPosition":"bottom","loop":false});
 window.onload = () => {
   lightboxQuarto.on('slide_before_load', (data) => {
     const { slideIndex, slideNode, slideConfig, player, trigger } = data;

evaluation/scope.html

@@ -899,7 +899,7 @@ <h2 class="anchored" data-anchor-id="outside-scope">Outside scope</h2>
     </div>
   </div>
 </footer>
-<script>var lightboxQuarto = GLightbox({"openEffect":"zoom","closeEffect":"zoom","descPosition":"bottom","selector":".lightbox","loop":false});
+<script>var lightboxQuarto = GLightbox({"selector":".lightbox","loop":false,"closeEffect":"zoom","descPosition":"bottom","openEffect":"zoom"});
 window.onload = () => {
   lightboxQuarto.on('slide_before_load', (data) => {
     const { slideIndex, slideNode, slideConfig, player, trigger } = data;

listings.json

@@ -2,6 +2,7 @@
   {
     "listing": "/logbook/logbook.html",
     "items": [
+      "/logbook/posts/2024_07_22/index.html",
       "/logbook/posts/2024_07_19/index.html",
       "/logbook/posts/2024_07_18/index.html",
       "/logbook/posts/2024_07_16/index.html",

logbook/logbook.html

@@ -253,7 +253,7 @@ <h1 class="title">Logbook</h1>
 <!-- margin-sidebar -->
     <div id="quarto-margin-sidebar" class="sidebar margin-sidebar">
 
-    <h5 class="quarto-listing-category-title">Categories</h5><div class="quarto-listing-category category-default"><div class="category" data-category="">All <span class="quarto-category-count">(12)</span></div><div class="category" data-category="compendium">compendium <span class="quarto-category-count">(5)</span></div><div class="category" data-category="guidelines">guidelines <span class="quarto-category-count">(2)</span></div><div class="category" data-category="reproduce">reproduce <span class="quarto-category-count">(7)</span></div><div class="category" data-category="scope">scope <span class="quarto-category-count">(1)</span></div><div class="category" data-category="setup">setup <span class="quarto-category-count">(3)</span></div></div></div>
+    <h5 class="quarto-listing-category-title">Categories</h5><div class="quarto-listing-category category-default"><div class="category" data-category="">All <span class="quarto-category-count">(13)</span></div><div class="category" data-category="compendium">compendium <span class="quarto-category-count">(6)</span></div><div class="category" data-category="guidelines">guidelines <span class="quarto-category-count">(2)</span></div><div class="category" data-category="reproduce">reproduce <span class="quarto-category-count">(7)</span></div><div class="category" data-category="scope">scope <span class="quarto-category-count">(1)</span></div><div class="category" data-category="setup">setup <span class="quarto-category-count">(3)</span></div></div></div>
 <!-- main -->
 <main class="content quarto-banner-title-block column-page-left" id="quarto-document-content">
 
@@ -268,7 +268,40 @@ <h5 class="quarto-listing-category-title">Categories</h5><div class="quarto-list
 
 <div class="quarto-listing quarto-listing-container-default" id="listing-listing">
 <div class="list quarto-listing-default">
-<div class="quarto-post image-right" data-index="0" data-categories="compendium" data-listing-date-sort="1721343600000" data-listing-file-modified-sort="1721392361341" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="6" data-listing-word-count-sort="1073">
+<div class="quarto-post image-right" data-index="0" data-categories="compendium" data-listing-date-sort="1721602800000" data-listing-file-modified-sort="1721722906142" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="1" data-listing-word-count-sort="105">
+<div class="thumbnail">
+<p><a href="../logbook/posts/2024_07_22/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_07_22/index.html" class="no-external">
+<div class="listing-item-img-placeholder card-img-top" >&nbsp;</div>
+</a><p><a href="../logbook/posts/2024_07_22/index.html" class="no-external"></a></p>
+</div>
+<div class="body">
+<h3 class="no-anchor listing-title">
+<a href="../logbook/posts/2024_07_22/index.html" class="no-external">Day 13</a>
+</h3>
+<div class="listing-subtitle">
+<a href="../logbook/posts/2024_07_22/index.html" class="no-external"></a>
+</div>
+<div class="listing-categories">
+<div class="listing-category" onclick="window.quartoListingCategory('compendium'); return false;">
+compendium
+</div>
+</div>
+<div class="listing-description">
+<a href="../logbook/posts/2024_07_22/index.html" class="no-external">Tom’s test run of the model.</a>
+</div>
+</div>
+<div class="metadata">
+<a href="../logbook/posts/2024_07_22/index.html" class="no-external">
+<div class="listing-date">
+Jul 22, 2024
+</div>
+<div class="listing-author">
+Amy Heather
+</div>
+</a>
+</div>
+</div>
+<div class="quarto-post image-right" data-index="1" data-categories="compendium" data-listing-date-sort="1721343600000" data-listing-file-modified-sort="1721392361341" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="6" data-listing-word-count-sort="1073">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_07_19/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_07_19/index.html" class="no-external">
 <div class="listing-item-img-placeholder card-img-top" >&nbsp;</div>
@@ -301,7 +334,7 @@ <h3 class="no-anchor listing-title">
 </a>
 </div>
 </div>
-<div class="quarto-post image-right" data-index="1" data-categories="compendium" data-listing-date-sort="1721257200000" data-listing-file-modified-sort="1721372787664" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="10" data-listing-word-count-sort="1838">
+<div class="quarto-post image-right" data-index="2" data-categories="compendium" data-listing-date-sort="1721257200000" data-listing-file-modified-sort="1721372787664" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="10" data-listing-word-count-sort="1838">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_07_18/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_07_18/index.html" class="no-external">
 <div class="listing-item-img-placeholder card-img-top" >&nbsp;</div>
@@ -334,7 +367,7 @@ <h3 class="no-anchor listing-title">
 </a>
 </div>
 </div>
-<div class="quarto-post image-right" data-index="2" data-categories="compendium" data-listing-date-sort="1721084400000" data-listing-file-modified-sort="1721288927402" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="4" data-listing-word-count-sort="678">
+<div class="quarto-post image-right" data-index="3" data-categories="compendium" data-listing-date-sort="1721084400000" data-listing-file-modified-sort="1721288927402" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="4" data-listing-word-count-sort="678">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_07_16/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_07_16/index.html" class="no-external">
 <div class="listing-item-img-placeholder card-img-top" >&nbsp;</div>
@@ -367,7 +400,7 @@ <h3 class="no-anchor listing-title">
 </a>
 </div>
 </div>
-<div class="quarto-post image-right" data-index="3" data-categories="guidelines,compendium" data-listing-date-sort="1720998000000" data-listing-file-modified-sort="1721054781129" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="5" data-listing-word-count-sort="854">
+<div class="quarto-post image-right" data-index="4" data-categories="guidelines,compendium" data-listing-date-sort="1720998000000" data-listing-file-modified-sort="1721054781129" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="5" data-listing-word-count-sort="854">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_07_15/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_07_15/index.html" class="no-external">
 <div class="listing-item-img-placeholder card-img-top" >&nbsp;</div>
@@ -403,7 +436,7 @@ <h3 class="no-anchor listing-title">
 </a>
 </div>
 </div>
-<div class="quarto-post image-right" data-index="4" data-categories="reproduce,guidelines,compendium" data-listing-date-sort="1720738800000" data-listing-file-modified-sort="1721050527345" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="5" data-listing-word-count-sort="927">
+<div class="quarto-post image-right" data-index="5" data-categories="reproduce,guidelines,compendium" data-listing-date-sort="1720738800000" data-listing-file-modified-sort="1721050527345" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="5" data-listing-word-count-sort="927">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_07_12/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_07_12/index.html" class="no-external">
 <p class="card-img-top"><img src="posts/2024_07_12/supplementary_figure.png"  class="thumbnail-image card-img"/></p>
@@ -442,7 +475,7 @@ <h3 class="no-anchor listing-title">
 </a>
 </div>
 </div>
-<div class="quarto-post image-right" data-index="5" data-categories="reproduce" data-listing-date-sort="1720652400000" data-listing-file-modified-sort="1721045035259" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="5" data-listing-word-count-sort="879">
+<div class="quarto-post image-right" data-index="6" data-categories="reproduce" data-listing-date-sort="1720652400000" data-listing-file-modified-sort="1721045035259" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="5" data-listing-word-count-sort="879">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_07_11/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_07_11/index.html" class="no-external">
 <p class="card-img-top"><img src="posts/2024_07_11/fig2a_seeds.png"  class="thumbnail-image card-img"/></p>
@@ -475,7 +508,7 @@ <h3 class="no-anchor listing-title">
 </a>
 </div>
 </div>
-<div class="quarto-post image-right" data-index="6" data-categories="reproduce" data-listing-date-sort="1720566000000" data-listing-file-modified-sort="1720689215304" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="14" data-listing-word-count-sort="2767">
+<div class="quarto-post image-right" data-index="7" data-categories="reproduce" data-listing-date-sort="1720566000000" data-listing-file-modified-sort="1720689215304" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="14" data-listing-word-count-sort="2767">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_07_10/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_07_10/index.html" class="no-external">
 <p class="card-img-top"><img src="posts/2024_07_10/fig2a_codeparam.png"  class="thumbnail-image card-img"/></p>
@@ -508,7 +541,7 @@ <h3 class="no-anchor listing-title">
 </a>
 </div>
 </div>
-<div class="quarto-post image-right" data-index="7" data-categories="setup,reproduce" data-listing-date-sort="1720479600000" data-listing-file-modified-sort="1720603189877" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="8" data-listing-word-count-sort="1442">
+<div class="quarto-post image-right" data-index="8" data-categories="setup,reproduce" data-listing-date-sort="1720479600000" data-listing-file-modified-sort="1720603189877" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="8" data-listing-word-count-sort="1442">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_07_09/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_07_09/index.html" class="no-external">
 <p class="card-img-top"><img src="posts/2024_07_09/fig2a_example1.png"  class="thumbnail-image card-img"/></p>
@@ -544,7 +577,7 @@ <h3 class="no-anchor listing-title">
 </a>
 </div>
 </div>
-<div class="quarto-post image-right" data-index="8" data-categories="reproduce" data-listing-date-sort="1720393200000" data-listing-file-modified-sort="1720522056269" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="13" data-listing-word-count-sort="2459">
+<div class="quarto-post image-right" data-index="9" data-categories="reproduce" data-listing-date-sort="1720393200000" data-listing-file-modified-sort="1720522056269" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="13" data-listing-word-count-sort="2459">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_07_08/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_07_08/index.html" class="no-external">
 <p class="card-img-top"><img src="posts/2024_07_08/fig2a_example1.png"  class="thumbnail-image card-img"/></p>
@@ -577,7 +610,7 @@ <h3 class="no-anchor listing-title">
 </a>
 </div>
 </div>
-<div class="quarto-post image-right" data-index="9" data-categories="reproduce" data-listing-date-sort="1720134000000" data-listing-file-modified-sort="1720521771717" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="12" data-listing-word-count-sort="2306">
+<div class="quarto-post image-right" data-index="10" data-categories="reproduce" data-listing-date-sort="1720134000000" data-listing-file-modified-sort="1720521771717" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="12" data-listing-word-count-sort="2306">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_07_05/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_07_05/index.html" class="no-external">
 <div class="listing-item-img-placeholder card-img-top" >&nbsp;</div>
@@ -610,7 +643,7 @@ <h3 class="no-anchor listing-title">
 </a>
 </div>
 </div>
-<div class="quarto-post image-right" data-index="10" data-categories="setup,scope,reproduce" data-listing-date-sort="1720047600000" data-listing-file-modified-sort="1720433346737" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="11" data-listing-word-count-sort="2150">
+<div class="quarto-post image-right" data-index="11" data-categories="setup,scope,reproduce" data-listing-date-sort="1720047600000" data-listing-file-modified-sort="1720433346737" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="11" data-listing-word-count-sort="2150">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_07_04/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_07_04/index.html" class="no-external">
 <div class="listing-item-img-placeholder card-img-top" >&nbsp;</div>
@@ -649,7 +682,7 @@ <h3 class="no-anchor listing-title">
 </a>
 </div>
 </div>
-<div class="quarto-post image-right" data-index="11" data-categories="setup" data-listing-date-sort="1719961200000" data-listing-file-modified-sort="1720098219658" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="355">
+<div class="quarto-post image-right" data-index="12" data-categories="setup" data-listing-date-sort="1719961200000" data-listing-file-modified-sort="1720098219658" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="355">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_07_03/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_07_03/index.html" class="no-external">
 <div class="listing-item-img-placeholder card-img-top" >&nbsp;</div>

logbook/posts/2024_07_03/index.html

@@ -310,7 +310,7 @@ <h2 class="anchored" data-anchor-id="check-journal-article-license-and-upload">1
 </section>
 <section id="timings" class="level2">
 <h2 class="anchored" data-anchor-id="timings">Timings</h2>
-<div id="e5d7e386" class="cell" data-execution_count="1">
+<div id="938c2b13" class="cell" data-execution_count="1">
 <div class="sourceCode cell-code" id="cb1"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb1-1"><a href="#cb1-1" aria-hidden="true" tabindex="-1"></a><span class="im">import</span> sys</span>
 <span id="cb1-2"><a href="#cb1-2" aria-hidden="true" tabindex="-1"></a>sys.path.append(<span class="st">'../'</span>)</span>
 <span id="cb1-3"><a href="#cb1-3" aria-hidden="true" tabindex="-1"></a><span class="im">from</span> timings <span class="im">import</span> calculate_times</span>

logbook/posts/2024_07_04/index.html

@@ -553,7 +553,7 @@ <h2 class="anchored" data-anchor-id="look-over-code-and-set-up-environment">16.0
 </section>
 <section id="timings" class="level2">
 <h2 class="anchored" data-anchor-id="timings">Timings</h2>
-<div id="9038e2a1" class="cell" data-execution_count="1">
+<div id="46b4ee05" class="cell" data-execution_count="1">
 <div class="sourceCode cell-code" id="cb8"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb8-1"><a href="#cb8-1" aria-hidden="true" tabindex="-1"></a><span class="im">import</span> sys</span>
 <span id="cb8-2"><a href="#cb8-2" aria-hidden="true" tabindex="-1"></a>sys.path.append(<span class="st">'../'</span>)</span>
 <span id="cb8-3"><a href="#cb8-3" aria-hidden="true" tabindex="-1"></a><span class="im">from</span> timings <span class="im">import</span> calculate_times</span>

logbook/posts/2024_07_05/index.html

@@ -629,7 +629,7 @@ <h2 class="anchored" data-anchor-id="continuing-to-troubleshoot-in-text-results-
 </section>
 <section id="timings" class="level2">
 <h2 class="anchored" data-anchor-id="timings">Timings</h2>
-<div id="617db9de" class="cell" data-execution_count="1">
+<div id="03bb7e8f" class="cell" data-execution_count="1">
 <div class="sourceCode cell-code" id="cb10"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb10-1"><a href="#cb10-1" aria-hidden="true" tabindex="-1"></a><span class="im">import</span> sys</span>
 <span id="cb10-2"><a href="#cb10-2" aria-hidden="true" tabindex="-1"></a>sys.path.append(<span class="st">'../'</span>)</span>
 <span id="cb10-3"><a href="#cb10-3" aria-hidden="true" tabindex="-1"></a><span class="im">from</span> timings <span class="im">import</span> calculate_times</span>