Deploying to gh-pages from @ 722369d 🚀

3mmaRand · Sep 13, 2024 · ecd6572 · ecd6572
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diff --git a/core/core.html b/core/core.html
diff --git a/core/week-1/Y12345678.zip → core/week-1-old/Y12345678.zip b/core/week-1/Y12345678.zip → core/week-1-old/Y12345678.zip
diff --git a/core/week-1/images/future_you.png → core/week-1-old/images/future_you.png b/core/week-1/images/future_you.png → core/week-1-old/images/future_you.png
diff --git a/core/week-1/images/reproducible-matrix.jpg → ...week-1-old/images/reproducible-matrix.jpg b/core/week-1/images/reproducible-matrix.jpg → ...week-1-old/images/reproducible-matrix.jpg
diff --git a/core/week-1/images/xkcd-comic-file-names.png → ...ek-1-old/images/xkcd-comic-file-names.png b/core/week-1/images/xkcd-comic-file-names.png → ...ek-1-old/images/xkcd-comic-file-names.png
diff --git a/core/week-1/overview.html → core/week-1-old/overview.html b/core/week-1/overview.html → core/week-1-old/overview.html
@@ -101,7 +101,7 @@
 <link rel="stylesheet" href="../../styles.css">
 </head>
 
-<body class="nav-sidebar floating nav-fixed">
+<body class="nav-fixed">
 
 <div id="quarto-search-results"></div>
   <header id="quarto-header" class="headroom fixed-top">
@@ -123,8 +123,8 @@
 <span class="menu-text">Welcome!</span></a>
   </li>  
   <li class="nav-item">
-    <a class="nav-link active" href="../../core/core.html" aria-current="page"> 
-<span class="menu-text">Core</span></a>
+    <a class="nav-link" href="../../core/core.html"> 
+<span class="menu-text">Core Supporting Info</span></a>
   </li>  
   <li class="nav-item">
     <a class="nav-link" href="../../transcriptomics/transcriptomics.html"> 
@@ -146,173 +146,10 @@
 </div>
       </div> <!-- /container-fluid -->
     </nav>
-  <nav class="quarto-secondary-nav">
-    <div class="container-fluid d-flex">
-      <button type="button" class="quarto-btn-toggle btn" data-bs-toggle="collapse" role="button" data-bs-target=".quarto-sidebar-collapse-item" aria-controls="quarto-sidebar" aria-expanded="false" aria-label="Toggle sidebar navigation" onclick="if (window.quartoToggleHeadroom) { window.quartoToggleHeadroom(); }">
-        <i class="bi bi-layout-text-sidebar-reverse"></i>
-      </button>
-        <nav class="quarto-page-breadcrumbs" aria-label="breadcrumb"><ol class="breadcrumb"><li class="breadcrumb-item"><a href="../../core/week-1/overview.html">Week 1: Organising analyses</a></li><li class="breadcrumb-item"><a href="../../core/week-1/overview.html">About</a></li></ol></nav>
-        <a class="flex-grow-1" role="navigation" data-bs-toggle="collapse" data-bs-target=".quarto-sidebar-collapse-item" aria-controls="quarto-sidebar" aria-expanded="false" aria-label="Toggle sidebar navigation" onclick="if (window.quartoToggleHeadroom) { window.quartoToggleHeadroom(); }">      
-        </a>
-    </div>
-  </nav>
 </header>
 <!-- content -->
 <div id="quarto-content" class="quarto-container page-columns page-rows-contents page-layout-article page-navbar">
 <!-- sidebar -->
-  <nav id="quarto-sidebar" class="sidebar collapse collapse-horizontal quarto-sidebar-collapse-item sidebar-navigation floating overflow-auto">
-    <div class="sidebar-menu-container"> 
-    <ul class="list-unstyled mt-1">
-        <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="../../core/core.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text">Core Data Analysis</span></a>
-  </div>
-</li>
-        <li class="sidebar-item sidebar-item-section">
-      <div class="sidebar-item-container"> 
-            <a class="sidebar-item-text sidebar-link text-start" data-bs-toggle="collapse" data-bs-target="#quarto-sidebar-section-1" role="navigation" aria-expanded="true">
- <span class="menu-text">Week 1: Organising analyses</span></a>
-          <a class="sidebar-item-toggle text-start" data-bs-toggle="collapse" data-bs-target="#quarto-sidebar-section-1" role="navigation" aria-expanded="true" aria-label="Toggle section">
-            <i class="bi bi-chevron-right ms-2"></i>
-          </a> 
-      </div>
-      <ul id="quarto-sidebar-section-1" class="collapse list-unstyled sidebar-section depth1 show">  
-          <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="../../core/week-1/overview.html" class="sidebar-item-text sidebar-link active">
- <span class="menu-text">About</span></a>
-  </div>
-</li>
-          <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="../../core/week-1/study_before_workshop.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text">Prepare!</span></a>
-  </div>
-</li>
-          <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="../../core/week-1/workshop.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text">Workshop</span></a>
-  </div>
-</li>
-          <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="../../core/week-1/study_after_workshop.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text">Consolidate!</span></a>
-  </div>
-</li>
-      </ul>
-  </li>
-        <li class="sidebar-item sidebar-item-section">
-      <div class="sidebar-item-container"> 
-            <a class="sidebar-item-text sidebar-link text-start" data-bs-toggle="collapse" data-bs-target="#quarto-sidebar-section-2" role="navigation" aria-expanded="true">
- <span class="menu-text">Week 2: Workflow tips</span></a>
-          <a class="sidebar-item-toggle text-start" data-bs-toggle="collapse" data-bs-target="#quarto-sidebar-section-2" role="navigation" aria-expanded="true" aria-label="Toggle section">
-            <i class="bi bi-chevron-right ms-2"></i>
-          </a> 
-      </div>
-      <ul id="quarto-sidebar-section-2" class="collapse list-unstyled sidebar-section depth1 show">  
-          <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="../../core/week-2/overview.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text">About</span></a>
-  </div>
-</li>
-          <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="../../core/week-2/study_before_workshop.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text">Prepare!</span></a>
-  </div>
-</li>
-          <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="../../core/week-2/workshop.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text">Workshop</span></a>
-  </div>
-</li>
-          <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="../../core/week-2/study_after_workshop.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text">Consolidate!</span></a>
-  </div>
-</li>
-      </ul>
-  </li>
-        <li class="sidebar-item sidebar-item-section">
-      <div class="sidebar-item-container"> 
-            <a class="sidebar-item-text sidebar-link text-start" data-bs-toggle="collapse" data-bs-target="#quarto-sidebar-section-3" role="navigation" aria-expanded="true">
- <span class="menu-text">Week 6: Core Drop-in</span></a>
-          <a class="sidebar-item-toggle text-start" data-bs-toggle="collapse" data-bs-target="#quarto-sidebar-section-3" role="navigation" aria-expanded="true" aria-label="Toggle section">
-            <i class="bi bi-chevron-right ms-2"></i>
-          </a> 
-      </div>
-      <ul id="quarto-sidebar-section-3" class="collapse list-unstyled sidebar-section depth1 show">  
-          <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="../../core/week-6/overview.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text">About</span></a>
-  </div>
-</li>
-          <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="../../core/week-6/study_before_workshop.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text">Prepare!</span></a>
-  </div>
-</li>
-          <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="../../core/week-6/workshop.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text">Workshop</span></a>
-  </div>
-</li>
-          <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="../../core/week-6/study_after_workshop.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text">Consolidate!</span></a>
-  </div>
-</li>
-      </ul>
-  </li>
-        <li class="sidebar-item sidebar-item-section">
-      <div class="sidebar-item-container"> 
-            <a class="sidebar-item-text sidebar-link text-start" data-bs-toggle="collapse" data-bs-target="#quarto-sidebar-section-4" role="navigation" aria-expanded="true">
- <span class="menu-text">Week 11: Research Compendia</span></a>
-          <a class="sidebar-item-toggle text-start" data-bs-toggle="collapse" data-bs-target="#quarto-sidebar-section-4" role="navigation" aria-expanded="true" aria-label="Toggle section">
-            <i class="bi bi-chevron-right ms-2"></i>
-          </a> 
-      </div>
-      <ul id="quarto-sidebar-section-4" class="collapse list-unstyled sidebar-section depth1 show">  
-          <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="../../core/week-11/overview.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text">About</span></a>
-  </div>
-</li>
-          <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="../../core/week-11/study_before_workshop.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text">Prepare!</span></a>
-  </div>
-</li>
-          <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="../../core/week-11/workshop.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text">Workshop</span></a>
-  </div>
-</li>
-          <li class="sidebar-item">
-  <div class="sidebar-item-container"> 
-  <a href="../../core/week-11/study_after_workshop.html" class="sidebar-item-text sidebar-link">
- <span class="menu-text">Consolidate!</span></a>
-  </div>
-</li>
-      </ul>
-  </li>
-    </ul>
-    </div>
-</nav>
-<div id="quarto-sidebar-glass" class="quarto-sidebar-collapse-item" data-bs-toggle="collapse" data-bs-target=".quarto-sidebar-collapse-item"></div>
 <!-- margin-sidebar -->
     <div id="quarto-margin-sidebar" class="sidebar margin-sidebar">
         <nav id="TOC" role="doc-toc" class="toc-active">
@@ -327,7 +164,7 @@ <h2 id="toc-title">On this page</h2>
 <!-- main -->
 <main class="content" id="quarto-document-content">
 
-<header id="title-block-header" class="quarto-title-block default"><nav class="quarto-page-breadcrumbs quarto-title-breadcrumbs d-none d-lg-block" aria-label="breadcrumb"><ol class="breadcrumb"><li class="breadcrumb-item"><a href="../../core/week-1/overview.html">Week 1: Organising analyses</a></li><li class="breadcrumb-item"><a href="../../core/week-1/overview.html">About</a></li></ol></nav>
+<header id="title-block-header" class="quarto-title-block default">
 <div class="quarto-title">
 <h1 class="title">Overview</h1>
 <p class="subtitle lead">Core 1: Organising Data Analyses</p>
@@ -341,7 +178,7 @@ <h1 class="title">Overview</h1>
     <div>
     <div class="quarto-title-meta-heading">Published</div>
     <div class="quarto-title-meta-contents">
-      <p class="date">3 September, 2024</p>
+      <p class="date">13 September, 2024</p>
     </div>
   </div>
 
@@ -369,12 +206,12 @@ <h3 class="anchored" data-anchor-id="learning-objectives">Learning objectives</h
 <section id="instructions" class="level3">
 <h3 class="anchored" data-anchor-id="instructions">Instructions</h3>
 <ol type="1">
-<li><p><a href="../../core/week-1/study_before_workshop.html">Prepare</a></p>
+<li><p><a href="../../core/week-1-old/study_before_workshop.html">Prepare</a></p>
 <ol type="i">
 <li>📖 Read Understanding file systems</li>
 </ol></li>
-<li><p><a href="../../core/week-1/workshop.html">Workshop</a></p></li>
-<li><p><a href="../../core/week-1/study_after_workshop.html">Consolidate</a></p></li>
+<li><p><a href="../../core/week-1-old/workshop.html">Workshop</a></p></li>
+<li><p><a href="../../core/week-1-old/study_after_workshop.html">Consolidate</a></p></li>
 </ol>