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CHANGELOG.html

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CONTRIBUTING.html

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evaluation/artefacts.html

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evaluation/badges.html

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@@ -243,7 +243,7 @@ <h1 class="title">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="81cfdca7" class="cell" data-execution_count="1">
+<div id="1c46c72f" 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>
@@ -375,7 +375,7 @@ <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="239fed4a" class="cell" data-execution_count="2">
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 <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/logbook.html

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@@ -245,7 +245,7 @@ <h5 class="quarto-listing-category-title">Categories</h5><div class="quarto-list
 
 <div class="quarto-listing quarto-listing-container-default" id="listing-listing">
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-<div class="quarto-post image-right" data-index="0" data-categories="guidelines" data-listing-date-sort="1717545600000" data-listing-file-modified-sort="1717768382759" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="8" data-listing-word-count-sort="1439">
+<div class="quarto-post image-right" data-index="0" data-categories="guidelines" data-listing-date-sort="1717545600000" data-listing-file-modified-sort="1717768914815" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="8" data-listing-word-count-sort="1439">
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 </a>
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-<div class="quarto-post image-right" data-index="1" data-categories="guidelines" data-listing-date-sort="1717459200000" data-listing-file-modified-sort="1717768382759" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="4" data-listing-word-count-sort="696">
+<div class="quarto-post image-right" data-index="1" data-categories="guidelines" data-listing-date-sort="1717459200000" data-listing-file-modified-sort="1717768914815" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="4" data-listing-word-count-sort="696">
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 </a>
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-<div class="quarto-post image-right" data-index="2" data-categories="reproduce" data-listing-date-sort="1717372800000" data-listing-file-modified-sort="1717768382755" 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="2" data-categories="reproduce" data-listing-date-sort="1717372800000" data-listing-file-modified-sort="1717768914811" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="5" data-listing-word-count-sort="879">
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+<div class="quarto-post image-right" data-index="3" data-categories="reproduce" data-listing-date-sort="1716508800000" data-listing-file-modified-sort="1717768914811" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="3" data-listing-word-count-sort="458">
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+<div class="quarto-post image-right" data-index="4" data-categories="read,reproduce" data-listing-date-sort="1716422400000" data-listing-file-modified-sort="1717768914811" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="13" data-listing-word-count-sort="2543">
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+<div class="quarto-post image-right" data-index="5" data-categories="setup,read,scope" data-listing-date-sort="1716336000000" data-listing-file-modified-sort="1717768914807" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="9" data-listing-word-count-sort="1786">
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evaluation/posts/2024_05_22/index.html

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@@ -472,7 +472,7 @@ <h3 class="anchored" data-anchor-id="untimed-uploading-to-zenodo">Untimed: Uploa
 </section>
 <section id="timings" class="level2">
 <h2 class="anchored" data-anchor-id="timings">Timings</h2>
-<div id="349750f6" class="cell" data-execution_count="1">
+<div id="e76b9f02" 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>

evaluation/posts/2024_05_23/index.html

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@@ -544,7 +544,7 @@ <h3 class="anchored" data-anchor-id="reproduction-2">15.23-16.35 Reproduction</h
 </section>
 <section id="timings" class="level2">
 <h2 class="anchored" data-anchor-id="timings">Timings</h2>
-<div id="ad4555a7" class="cell" data-execution_count="1">
+<div id="f85fbfc7" class="cell" data-execution_count="1">
 <div class="sourceCode cell-code" id="cb5"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb5-1"><a href="#cb5-1" aria-hidden="true" tabindex="-1"></a><span class="im">import</span> sys</span>
 <span id="cb5-2"><a href="#cb5-2" aria-hidden="true" tabindex="-1"></a>sys.path.append(<span class="st">'../'</span>)</span>
 <span id="cb5-3"><a href="#cb5-3" aria-hidden="true" tabindex="-1"></a><span class="im">from</span> timings <span class="im">import</span> calculate_times</span>

evaluation/posts/2024_05_24/index.html

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   </li>  
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     <a class="nav-link" href="../../../evaluation/reproduction_report.html"> 
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@@ -287,7 +287,7 @@ <h3 class="anchored" data-anchor-id="untimed-exploring-methods-for-overlaying-fi
 <p>Exploring methods for overlaying figures. Not timed as not about reproduction of this study, but about how we are going to do this each time when reproducing.</p>
 <p>Decided that it’s not helpful to do this - spend more time fiddling around with getting them to resize and overlay correctly - and that the simplest option here would be to compare by eye.</p>
 <p>If timed, 13.33-13.57.</p>
-<div id="66b7386f" class="cell" data-execution_count="1">
+<div id="bc9c7936" 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> cv2</span>
 <span id="cb1-2"><a href="#cb1-2" aria-hidden="true" tabindex="-1"></a><span class="im">import</span> matplotlib.pyplot <span class="im">as</span> plt</span>
 <span id="cb1-3"><a href="#cb1-3" aria-hidden="true" tabindex="-1"></a></span>
@@ -309,7 +309,7 @@ <h3 class="anchored" data-anchor-id="untimed-exploring-methods-for-overlaying-fi
 </div>
 </div>
 </div>
-<div id="c5c64d9f" class="cell" data-execution_count="2">
+<div id="487d2a10" class="cell" data-execution_count="2">
 <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"># Overlay transparently</span></span>
 <span id="cb2-2"><a href="#cb2-2" aria-hidden="true" tabindex="-1"></a>combined <span class="op">=</span> cv2.addWeighted(original,<span class="fl">0.4</span>,overlay_resize,<span class="fl">0.1</span>,<span class="dv">0</span>)</span>
 <span id="cb2-3"><a href="#cb2-3" aria-hidden="true" tabindex="-1"></a></span>
@@ -329,7 +329,7 @@ <h3 class="anchored" data-anchor-id="untimed-exploring-methods-for-overlaying-fi
 </section>
 <section id="timings" class="level2">
 <h2 class="anchored" data-anchor-id="timings">Timings</h2>
-<div id="788def98" class="cell" data-execution_count="3">
+<div id="4b9908a2" class="cell" data-execution_count="3">
 <div class="sourceCode cell-code" id="cb3"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb3-1"><a href="#cb3-1" aria-hidden="true" tabindex="-1"></a><span class="im">import</span> sys</span>
 <span id="cb3-2"><a href="#cb3-2" aria-hidden="true" tabindex="-1"></a>sys.path.append(<span class="st">'../'</span>)</span>
 <span id="cb3-3"><a href="#cb3-3" aria-hidden="true" tabindex="-1"></a><span class="im">from</span> timings <span class="im">import</span> calculate_times</span>

evaluation/posts/2024_06_03/index.html

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   </li>  
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     <a class="nav-link" href="../../../evaluation/reproduction_report.html"> 
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+<span class="menu-text">Summary</span></a>
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@@ -383,7 +383,7 @@ <h3 class="anchored" data-anchor-id="tidying-the-notebook-and-creating-reproduct
 </section>
 <section id="timings" class="level2">
 <h2 class="anchored" data-anchor-id="timings">Timings</h2>
-<div id="ad347a35" class="cell" data-execution_count="1">
+<div id="8b2cd0d4" 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>

evaluation/posts/2024_06_04/index.html

@@ -134,7 +134,7 @@
   </li>  
   <li class="nav-item">
     <a class="nav-link" href="../../../evaluation/reproduction_report.html"> 
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evaluation/posts/2024_06_05/index.html

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   </li>  
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     <a class="nav-link" href="../../../evaluation/reproduction_report.html"> 
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@@ -384,7 +384,7 @@ <h3 class="anchored" data-anchor-id="comparison-of-my-stress-des-against-the-ori
 <h3 class="anchored" data-anchor-id="comparing-best-practice-audit-results-with-monks-and-harper">Comparing best practice audit results with Monks and Harper</h3>
 <p>Compared my decisions for the best practice audit against those made in Monks and Harper.</p>
 <p>Their GitHub is <a href="https://github.com/TomMonks/des_sharing_lit_review">TomMonks/des_sharing_lit_review</a>, which provides the file <code>bp_audit.zip</code>. I used the provided code to clean this and saved it as <code>bp_audit_clean.csv</code>, which can then view here:</p>
-<div id="69c2c8bf" class="cell" data-execution_count="1">
+<div id="6102adf2" 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> pandas <span class="im">as</span> pd</span>
 <span id="cb1-2"><a href="#cb1-2" aria-hidden="true" tabindex="-1"></a></span>
 <span id="cb1-3"><a href="#cb1-3" aria-hidden="true" tabindex="-1"></a><span class="co"># Import review results</span></span>

evaluation/reporting.html

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     <a class="nav-link" href="../evaluation/reproduction_report.html"> 
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@@ -1044,7 +1044,7 @@ <h2 class="anchored" data-anchor-id="des-checklist-derived-from-ispor-sdm">DES c
     </div>
   </div>
 </footer>
-<script>var lightboxQuarto = GLightbox({"selector":".lightbox","openEffect":"zoom","closeEffect":"zoom","loop":false,"descPosition":"bottom"});
+<script>var lightboxQuarto = GLightbox({"descPosition":"bottom","closeEffect":"zoom","openEffect":"zoom","loop":false,"selector":".lightbox"});
 window.onload = () => {
   lightboxQuarto.on('slide_before_load', (data) => {
     const { slideIndex, slideNode, slideConfig, player, trigger } = data;