Built site for gh-pages

.nojekyll

@@ -1 +1 @@
-3638ac62
+75a5d0df

evaluation/badges.html

@@ -256,7 +256,7 @@ <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="995cd1c8" class="cell" data-execution_count="1">
+<div id="d5bdacd9" 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>
@@ -389,7 +389,7 @@ <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="1c37992d" class="cell" data-execution_count="2">
+<div id="6cf68600" 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>

listings.json

@@ -2,6 +2,7 @@
   {
     "listing": "/logbook/logbook.html",
     "items": [
+      "/logbook/posts/2024_10_04/index.html",
       "/logbook/posts/2024_10_03/index.html",
       "/logbook/posts/2024_10_02/index.html",
       "/logbook/posts/2024_10_01/index.html",

logbook/logbook.html

@@ -241,7 +241,7 @@ <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">(9)</span></div><div class="category" data-category="read">read <span class="quarto-category-count">(1)</span></div><div class="category" data-category="reproduce">reproduce <span class="quarto-category-count">(8)</span></div><div class="category" data-category="scope">scope <span class="quarto-category-count">(2)</span></div><div class="category" data-category="setup">setup <span class="quarto-category-count">(1)</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">(10)</span></div><div class="category" data-category="read">read <span class="quarto-category-count">(1)</span></div><div class="category" data-category="reproduce">reproduce <span class="quarto-category-count">(9)</span></div><div class="category" data-category="scope">scope <span class="quarto-category-count">(2)</span></div><div class="category" data-category="setup">setup <span class="quarto-category-count">(1)</span></div></div></div>
 <!-- main -->
 <main class="content quarto-banner-title-block column-page-left" id="quarto-document-content">
 
@@ -256,7 +256,40 @@ <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="reproduce" data-listing-date-sort="1727913600000" data-listing-file-modified-sort="1727969535848" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="396">
+<div class="quarto-post image-right" data-index="0" data-categories="reproduce" data-listing-date-sort="1728000000000" data-listing-file-modified-sort="1728032851731" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="228">
+<div class="thumbnail">
+<p><a href="../logbook/posts/2024_10_04/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_10_04/index.html" class="no-external">
+<div class="listing-item-img-placeholder card-img-top" >&nbsp;</div>
+</a><p><a href="../logbook/posts/2024_10_04/index.html" class="no-external"></a></p>
+</div>
+<div class="body">
+<h3 class="no-anchor listing-title">
+<a href="../logbook/posts/2024_10_04/index.html" class="no-external">Day 10</a>
+</h3>
+<div class="listing-subtitle">
+<a href="../logbook/posts/2024_10_04/index.html" class="no-external"></a>
+</div>
+<div class="listing-categories">
+<div class="listing-category" onclick="window.quartoListingCategory('reproduce'); return false;">
+reproduce
+</div>
+</div>
+<div class="listing-description">
+<a href="../logbook/posts/2024_10_04/index.html" class="no-external">X. Total time used: Xh Xm (X%)</a>
+</div>
+</div>
+<div class="metadata">
+<a href="../logbook/posts/2024_10_04/index.html" class="no-external">
+<div class="listing-date">
+Oct 4, 2024
+</div>
+<div class="listing-author">
+Amy Heather
+</div>
+</a>
+</div>
+</div>
+<div class="quarto-post image-right" data-index="1" data-categories="reproduce" data-listing-date-sort="1727913600000" data-listing-file-modified-sort="1728032851731" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="5" data-listing-word-count-sort="888">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_10_03/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_10_03/index.html" class="no-external">
 <p class="card-img-top"><img src="posts/2024_10_03/figure5_100pop_50gen_1run.png"  class="thumbnail-image card-img"/></p>
@@ -275,7 +308,7 @@ <h3 class="no-anchor listing-title">
 </div>
 </div>
 <div class="listing-description">
-<a href="../logbook/posts/2024_10_03/index.html" class="no-external">Continuing to tweak run parameters and model parameters. Figure 6 reproduced. Total time used: Xh Xm (X%)</a>
+<a href="../logbook/posts/2024_10_03/index.html" class="no-external">Continuing to tweak run parameters and model parameters. Figure 6 reproduced, but Figure 5 not, with no further ideas on troubleshooting for it. Total time used: 12h 36m…</a>
 </div>
 </div>
 <div class="metadata">
@@ -289,7 +322,7 @@ <h3 class="no-anchor listing-title">
 </a>
 </div>
 </div>
-<div class="quarto-post image-right" data-index="1" data-categories="reproduce" data-listing-date-sort="1727827200000" data-listing-file-modified-sort="1727969535843" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="6" data-listing-word-count-sort="1086">
+<div class="quarto-post image-right" data-index="2" data-categories="reproduce" data-listing-date-sort="1727827200000" data-listing-file-modified-sort="1728032851725" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="6" data-listing-word-count-sort="1086">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_10_02/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_10_02/index.html" class="no-external">
 <p class="card-img-top"><img src="posts/2024_10_02/figure5_fixtimes_100pop_5gen_1run.png"  class="thumbnail-image card-img"/></p>
@@ -322,7 +355,7 @@ <h3 class="no-anchor listing-title">
 </a>
 </div>
 </div>
-<div class="quarto-post image-right" data-index="2" data-categories="reproduce" data-listing-date-sort="1727740800000" data-listing-file-modified-sort="1727969535835" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="312">
+<div class="quarto-post image-right" data-index="3" data-categories="reproduce" data-listing-date-sort="1727740800000" data-listing-file-modified-sort="1728032851718" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="312">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_10_01/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_10_01/index.html" class="no-external">
 <p class="card-img-top"><img src="posts/2024_10_01/figure5_prescreen10_100_50_1.png"  class="thumbnail-image card-img"/></p>
@@ -355,7 +388,7 @@ <h3 class="no-anchor listing-title">
 </a>
 </div>
 </div>
-<div class="quarto-post image-right" data-index="3" data-categories="reproduce" data-listing-date-sort="1727654400000" data-listing-file-modified-sort="1727969535829" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="7" data-listing-word-count-sort="1347">
+<div class="quarto-post image-right" data-index="4" data-categories="reproduce" data-listing-date-sort="1727654400000" data-listing-file-modified-sort="1728032851712" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="7" data-listing-word-count-sort="1347">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_09_30/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_09_30/index.html" class="no-external">
 <p class="card-img-top"><img src="posts/2024_09_30/figure5_axis.png"  class="thumbnail-image card-img"/></p>
@@ -388,7 +421,7 @@ <h3 class="no-anchor listing-title">
 </a>
 </div>
 </div>
-<div class="quarto-post image-right" data-index="4" data-categories="reproduce" data-listing-date-sort="1727395200000" data-listing-file-modified-sort="1727969535807" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="385">
+<div class="quarto-post image-right" data-index="5" data-categories="reproduce" data-listing-date-sort="1727395200000" data-listing-file-modified-sort="1728032851690" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="385">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_09_27/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_09_27/index.html" class="no-external">
 <p class="card-img-top"><img src="posts/2024_09_27/figure5_10pop_1gen.png" alt="fig5 10 pop 1 gen"  class="thumbnail-image card-img"/></p>
@@ -421,7 +454,7 @@ <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="1727308800000" data-listing-file-modified-sort="1727969535798" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="3" data-listing-word-count-sort="513">
+<div class="quarto-post image-right" data-index="6" data-categories="reproduce" data-listing-date-sort="1727308800000" data-listing-file-modified-sort="1728032851681" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="3" data-listing-word-count-sort="513">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_09_26/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_09_26/index.html" class="no-external">
 <p class="card-img-top"><img src="posts/2024_09_26/figure5.png"  class="thumbnail-image card-img"/></p>
@@ -454,7 +487,7 @@ <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="1727222400000" data-listing-file-modified-sort="1727969535796" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="6" data-listing-word-count-sort="1045">
+<div class="quarto-post image-right" data-index="7" data-categories="reproduce" data-listing-date-sort="1727222400000" data-listing-file-modified-sort="1728032851679" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="6" data-listing-word-count-sort="1045">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_09_25/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_09_25/index.html" class="no-external">
 <p class="card-img-top"><img src="posts/2024_09_25/figure5.png"  class="thumbnail-image card-img"/></p>
@@ -487,7 +520,7 @@ <h3 class="no-anchor listing-title">
 </a>
 </div>
 </div>
-<div class="quarto-post image-right" data-index="7" data-categories="scope,reproduce" data-listing-date-sort="1727136000000" data-listing-file-modified-sort="1727969535795" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="6" data-listing-word-count-sort="1025">
+<div class="quarto-post image-right" data-index="8" data-categories="scope,reproduce" data-listing-date-sort="1727136000000" data-listing-file-modified-sort="1728032851678" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="6" data-listing-word-count-sort="1025">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_09_24/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_09_24/index.html" class="no-external">
 <div class="listing-item-img-placeholder card-img-top" >&nbsp;</div>
@@ -523,7 +556,7 @@ <h3 class="no-anchor listing-title">
 </a>
 </div>
 </div>
-<div class="quarto-post image-right" data-index="8" data-categories="setup,read,scope" data-listing-date-sort="1726790400000" data-listing-file-modified-sort="1727969535795" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="220">
+<div class="quarto-post image-right" data-index="9" data-categories="setup,read,scope" data-listing-date-sort="1726790400000" data-listing-file-modified-sort="1728032851678" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="220">
 <div class="thumbnail">
 <p><a href="../logbook/posts/2024_09_20/index.html" class="no-external"></a></p><a href="../logbook/posts/2024_09_20/index.html" class="no-external">
 <div class="listing-item-img-placeholder card-img-top" >&nbsp;</div>

logbook/posts/2024_09_20/index.html

@@ -300,7 +300,7 @@ <h2 class="anchored" data-anchor-id="read-the-article-and-defined-scope">15.10-1
 </section>
 <section id="timings" class="level2">
 <h2 class="anchored" data-anchor-id="timings">Timings</h2>
-<div id="b5b4682f" class="cell" data-execution_count="1">
+<div id="80851065" 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_09_24/index.html

@@ -345,7 +345,7 @@ <h3 class="anchored" data-anchor-id="myutils">myutils</h3>
 <li><code>StaffAllocationProblem.py</code></li>
 </ul>
 <p>There is only one line of code that specifies that a function is from myutils, which is in <code>StaffAllocationProblem.py</code>:</p>
-<div id="dd6ff2a5" class="cell" data-execution_count="1">
+<div id="51b97e6a" class="cell" data-execution_count="1">
 <div class="sourceCode cell-code" id="cb7"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb7-1"><a href="#cb7-1" aria-hidden="true" tabindex="-1"></a><span class="co">#capacities = myutils.boundingFunction(capacities, self.boundingParameters)</span></span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
 </div>
 <p>However, as that is commented out, it actually might be possible that <code>myutils/</code> is not actually needed. I tried commenting out all attempts to import <code>myutils</code> in all scripts, then re-ran.</p>
@@ -417,7 +417,7 @@ <h3 class="anchored" data-anchor-id="nsga2-and-myutils">nsga2 and myutils</h3>
 </section>
 <section id="timings" class="level2">
 <h2 class="anchored" data-anchor-id="timings">Timings</h2>
-<div id="3a1a908e" class="cell" data-execution_count="2">
+<div id="1ddb7caa" class="cell" data-execution_count="2">
 <div class="sourceCode cell-code" id="cb12"><pre class="sourceCode python code-with-copy"><code class="sourceCode python"><span id="cb12-1"><a href="#cb12-1" aria-hidden="true" tabindex="-1"></a><span class="im">import</span> sys</span>
 <span id="cb12-2"><a href="#cb12-2" aria-hidden="true" tabindex="-1"></a>sys.path.append(<span class="st">'../'</span>)</span>
 <span id="cb12-3"><a href="#cb12-3" aria-hidden="true" tabindex="-1"></a><span class="im">from</span> timings <span class="im">import</span> calculate_times</span>

logbook/posts/2024_09_25/index.html

@@ -379,7 +379,7 @@ <h3 class="anchored" data-anchor-id="writing-code-to-import-txt-data-combine-and
 </section>
 <section id="timings" class="level2">
 <h2 class="anchored" data-anchor-id="timings">Timings</h2>
-<div id="044d7341" class="cell" data-execution_count="1">
+<div id="89d11360" class="cell" data-execution_count="1">
 <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>

logbook/posts/2024_09_26/index.html

@@ -325,7 +325,7 @@ <h2 class="anchored" data-anchor-id="running-on-remote-machine">14.30-14.47: Run
 </section>
 <section id="timings" class="level2">
 <h2 class="anchored" data-anchor-id="timings">Timings</h2>
-<div id="0aebe0ad" class="cell" data-execution_count="1">
+<div id="db2ac5b7" 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>

logbook/posts/2024_09_27/index.html

@@ -300,7 +300,7 @@ <h2 class="anchored" data-anchor-id="results-from-pre-screen-10-with-full-set-up
 </section>
 <section id="timings" class="level2">
 <h2 class="anchored" data-anchor-id="timings">Timings</h2>
-<div id="59b7534c" class="cell" data-execution_count="1">
+<div id="2f31dd2f" class="cell" data-execution_count="1">
 <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="im">import</span> sys</span>
 <span id="cb2-2"><a href="#cb2-2" aria-hidden="true" tabindex="-1"></a>sys.path.append(<span class="st">'../'</span>)</span>
 <span id="cb2-3"><a href="#cb2-3" aria-hidden="true" tabindex="-1"></a><span class="im">from</span> timings <span class="im">import</span> calculate_times</span>