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steno-aarhus · Aug 21, 2024 · b5e0497 · b5e0497
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diff --git a/.nojekyll b/.nojekyll
@@ -1 +1 @@
-978b25a1
+94fe518d
diff --git a/admin.html b/admin.html
@@ -2,13 +2,13 @@
 <html xmlns="http://www.w3.org/1999/xhtml" lang="en" xml:lang="en"><head>
 
 <meta charset="utf-8">
-<meta name="generator" content="quarto-1.4.557">
+<meta name="generator" content="quarto-1.5.56">
 
 <meta name="viewport" content="width=device-width, initial-scale=1.0, user-scalable=yes">
 
-<meta name="dcterms.date" content="2024-06-28">
+<meta name="dcterms.date" content="2024-08-21">
 
-<title>ukbAid - Administration</title>
+<title>Administration – ukbAid</title>
 <style>
 code{white-space: pre-wrap;}
 span.smallcaps{font-variant: small-caps;}
@@ -116,7 +116,7 @@
     </a>
   </div>
             <div id="quarto-search" class="" title="Search"></div>
-          <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbarCollapse" aria-controls="navbarCollapse" aria-expanded="false" aria-label="Toggle navigation" onclick="if (window.quartoToggleHeadroom) { window.quartoToggleHeadroom(); }">
+          <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbarCollapse" aria-controls="navbarCollapse" role="menu" aria-expanded="false" aria-label="Toggle navigation" onclick="if (window.quartoToggleHeadroom) { window.quartoToggleHeadroom(); }">
   <span class="navbar-toggler-icon"></span>
 </button>
           <div class="collapse navbar-collapse" id="navbarCollapse">
@@ -126,7 +126,7 @@
 <span class="menu-text">Welcome!</span></a>
   </li>  
   <li class="nav-item dropdown ">
-    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-about" role="button" data-bs-toggle="dropdown" aria-expanded="false">
+    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-about" role="link" data-bs-toggle="dropdown" aria-expanded="false">
  <span class="menu-text">About</span>
     </a>
     <ul class="dropdown-menu dropdown-menu-end" aria-labelledby="nav-menu-about">    
@@ -145,7 +145,7 @@
     </ul>
   </li>
   <li class="nav-item dropdown ">
-    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-getting-started" role="button" data-bs-toggle="dropdown" aria-expanded="false">
+    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-getting-started" role="link" data-bs-toggle="dropdown" aria-expanded="false">
  <span class="menu-text">Getting started</span>
     </a>
     <ul class="dropdown-menu dropdown-menu-end" aria-labelledby="nav-menu-getting-started">    
@@ -168,7 +168,7 @@
     </ul>
   </li>
   <li class="nav-item dropdown ">
-    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-admin" role="button" data-bs-toggle="dropdown" aria-expanded="false">
+    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-admin" role="link" data-bs-toggle="dropdown" aria-expanded="false">
  <span class="menu-text">Admin</span>
     </a>
     <ul class="dropdown-menu dropdown-menu-end" aria-labelledby="nav-menu-admin">    
@@ -192,7 +192,7 @@
   </li>  
 </ul>
           </div> <!-- /navcollapse -->
-          <div class="quarto-navbar-tools">
+            <div class="quarto-navbar-tools">
     <a href="./pkg/index.html" title="" class="quarto-navigation-tool px-1" aria-label=""><i class="bi bi-box-seam"></i></a>
     <a href="https://github.com/steno-aarhus/ukbAid" title="" class="quarto-navigation-tool px-1" aria-label=""><i class="bi bi-github"></i></a>
 </div>
@@ -232,7 +232,7 @@ <h1 class="title">Administration</h1>
     <div>
     <div class="quarto-title-meta-heading">Published</div>
     <div class="quarto-title-meta-contents">
-      <p class="date">June 28, 2024</p>
+      <p class="date">August 21, 2024</p>
     </div>
   </div>
 
@@ -354,18 +354,7 @@ <h3 class="anchored" data-anchor-id="uploading-to-zenodo">Uploading to Zenodo</h
     }
     return false;
   }
-  const clipboard = new window.ClipboardJS('.code-copy-button', {
-    text: function(trigger) {
-      const codeEl = trigger.previousElementSibling.cloneNode(true);
-      for (const childEl of codeEl.children) {
-        if (isCodeAnnotation(childEl)) {
-          childEl.remove();
-        }
-      }
-      return codeEl.innerText;
-    }
-  });
-  clipboard.on('success', function(e) {
+  const onCopySuccess = function(e) {
     // button target
     const button = e.trigger;
     // don't keep focus
@@ -397,15 +386,37 @@ <h3 class="anchored" data-anchor-id="uploading-to-zenodo">Uploading to Zenodo</h
     }, 1000);
     // clear code selection
     e.clearSelection();
+  }
+  const getTextToCopy = function(trigger) {
+      const codeEl = trigger.previousElementSibling.cloneNode(true);
+      for (const childEl of codeEl.children) {
+        if (isCodeAnnotation(childEl)) {
+          childEl.remove();
+        }
+      }
+      return codeEl.innerText;
+  }
+  const clipboard = new window.ClipboardJS('.code-copy-button:not([data-in-quarto-modal])', {
+    text: getTextToCopy
   });
+  clipboard.on('success', onCopySuccess);
+  if (window.document.getElementById('quarto-embedded-source-code-modal')) {
+    // For code content inside modals, clipBoardJS needs to be initialized with a container option
+    // TODO: Check when it could be a function (https://github.com/zenorocha/clipboard.js/issues/860)
+    const clipboardModal = new window.ClipboardJS('.code-copy-button[data-in-quarto-modal]', {
+      text: getTextToCopy,
+      container: window.document.getElementById('quarto-embedded-source-code-modal')
+    });
+    clipboardModal.on('success', onCopySuccess);
+  }
     var localhostRegex = new RegExp(/^(?:http|https):\/\/localhost\:?[0-9]*\//);
     var mailtoRegex = new RegExp(/^mailto:/);
       var filterRegex = new RegExp("https:\/\/steno-aarhus\.github\.io\/ukbAid\/");
     var isInternal = (href) => {
         return filterRegex.test(href) || localhostRegex.test(href) || mailtoRegex.test(href);
     }
     // Inspect non-navigation links and adorn them if external
- 	var links = window.document.querySelectorAll('a[href]:not(.nav-link):not(.navbar-brand):not(.toc-action):not(.sidebar-link):not(.sidebar-item-toggle):not(.pagination-link):not(.no-external):not([aria-hidden]):not(.dropdown-item):not(.quarto-navigation-tool)');
+ 	var links = window.document.querySelectorAll('a[href]:not(.nav-link):not(.navbar-brand):not(.toc-action):not(.sidebar-link):not(.sidebar-item-toggle):not(.pagination-link):not(.no-external):not([aria-hidden]):not(.dropdown-item):not(.quarto-navigation-tool):not(.about-link)');
     for (var i=0; i<links.length; i++) {
       const link = links[i];
       if (!isInternal(link.href)) {

diff --git a/code-review.html b/code-review.html
@@ -2,13 +2,13 @@
 <html xmlns="http://www.w3.org/1999/xhtml" lang="en" xml:lang="en"><head>
 
 <meta charset="utf-8">
-<meta name="generator" content="quarto-1.4.557">
+<meta name="generator" content="quarto-1.5.56">
 
 <meta name="viewport" content="width=device-width, initial-scale=1.0, user-scalable=yes">
 
-<meta name="dcterms.date" content="2024-06-28">
+<meta name="dcterms.date" content="2024-08-21">
 
-<title>ukbAid - Code review</title>
+<title>Code review – ukbAid</title>
 <style>
 code{white-space: pre-wrap;}
 span.smallcaps{font-variant: small-caps;}
@@ -82,7 +82,7 @@
     </a>
   </div>
             <div id="quarto-search" class="" title="Search"></div>
-          <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbarCollapse" aria-controls="navbarCollapse" aria-expanded="false" aria-label="Toggle navigation" onclick="if (window.quartoToggleHeadroom) { window.quartoToggleHeadroom(); }">
+          <button class="navbar-toggler" type="button" data-bs-toggle="collapse" data-bs-target="#navbarCollapse" aria-controls="navbarCollapse" role="menu" aria-expanded="false" aria-label="Toggle navigation" onclick="if (window.quartoToggleHeadroom) { window.quartoToggleHeadroom(); }">
   <span class="navbar-toggler-icon"></span>
 </button>
           <div class="collapse navbar-collapse" id="navbarCollapse">
@@ -92,7 +92,7 @@
 <span class="menu-text">Welcome!</span></a>
   </li>  
   <li class="nav-item dropdown ">
-    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-about" role="button" data-bs-toggle="dropdown" aria-expanded="false">
+    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-about" role="link" data-bs-toggle="dropdown" aria-expanded="false">
  <span class="menu-text">About</span>
     </a>
     <ul class="dropdown-menu dropdown-menu-end" aria-labelledby="nav-menu-about">    
@@ -111,7 +111,7 @@
     </ul>
   </li>
   <li class="nav-item dropdown ">
-    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-getting-started" role="button" data-bs-toggle="dropdown" aria-expanded="false">
+    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-getting-started" role="link" data-bs-toggle="dropdown" aria-expanded="false">
  <span class="menu-text">Getting started</span>
     </a>
     <ul class="dropdown-menu dropdown-menu-end" aria-labelledby="nav-menu-getting-started">    
@@ -134,7 +134,7 @@
     </ul>
   </li>
   <li class="nav-item dropdown ">
-    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-admin" role="button" data-bs-toggle="dropdown" aria-expanded="false">
+    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-admin" role="link" data-bs-toggle="dropdown" aria-expanded="false">
  <span class="menu-text">Admin</span>
     </a>
     <ul class="dropdown-menu dropdown-menu-end" aria-labelledby="nav-menu-admin">    
@@ -158,7 +158,7 @@
   </li>  
 </ul>
           </div> <!-- /navcollapse -->
-          <div class="quarto-navbar-tools">
+            <div class="quarto-navbar-tools">
     <a href="./pkg/index.html" title="" class="quarto-navigation-tool px-1" aria-label=""><i class="bi bi-box-seam"></i></a>
     <a href="https://github.com/steno-aarhus/ukbAid" title="" class="quarto-navigation-tool px-1" aria-label=""><i class="bi bi-github"></i></a>
 </div>
@@ -169,7 +169,7 @@
 <div id="quarto-content" class="quarto-container page-columns page-rows-contents page-layout-article page-navbar">
 <!-- sidebar -->
 <!-- margin-sidebar -->
-    <div id="quarto-margin-sidebar" class="sidebar margin-sidebar">
+    <div id="quarto-margin-sidebar" class="sidebar margin-sidebar zindex-bottom">
 
     </div>
 <!-- main -->
@@ -188,7 +188,7 @@ <h1 class="title">Code review</h1>
     <div>
     <div class="quarto-title-meta-heading">Published</div>
     <div class="quarto-title-meta-contents">
-      <p class="date">June 28, 2024</p>
+      <p class="date">August 21, 2024</p>
     </div>
   </div>
 
@@ -285,18 +285,7 @@ <h3 class="anchored" data-anchor-id="reviewer-1">Reviewer</h3>
     }
     return false;
   }
-  const clipboard = new window.ClipboardJS('.code-copy-button', {
-    text: function(trigger) {
-      const codeEl = trigger.previousElementSibling.cloneNode(true);
-      for (const childEl of codeEl.children) {
-        if (isCodeAnnotation(childEl)) {
-          childEl.remove();
-        }
-      }
-      return codeEl.innerText;
-    }
-  });
-  clipboard.on('success', function(e) {
+  const onCopySuccess = function(e) {
     // button target
     const button = e.trigger;
     // don't keep focus
@@ -328,15 +317,37 @@ <h3 class="anchored" data-anchor-id="reviewer-1">Reviewer</h3>
     }, 1000);
     // clear code selection
     e.clearSelection();
+  }
+  const getTextToCopy = function(trigger) {
+      const codeEl = trigger.previousElementSibling.cloneNode(true);
+      for (const childEl of codeEl.children) {
+        if (isCodeAnnotation(childEl)) {
+          childEl.remove();
+        }
+      }
+      return codeEl.innerText;
+  }
+  const clipboard = new window.ClipboardJS('.code-copy-button:not([data-in-quarto-modal])', {
+    text: getTextToCopy
   });
+  clipboard.on('success', onCopySuccess);
+  if (window.document.getElementById('quarto-embedded-source-code-modal')) {
+    // For code content inside modals, clipBoardJS needs to be initialized with a container option
+    // TODO: Check when it could be a function (https://github.com/zenorocha/clipboard.js/issues/860)
+    const clipboardModal = new window.ClipboardJS('.code-copy-button[data-in-quarto-modal]', {
+      text: getTextToCopy,
+      container: window.document.getElementById('quarto-embedded-source-code-modal')
+    });
+    clipboardModal.on('success', onCopySuccess);
+  }
     var localhostRegex = new RegExp(/^(?:http|https):\/\/localhost\:?[0-9]*\//);
     var mailtoRegex = new RegExp(/^mailto:/);
       var filterRegex = new RegExp("https:\/\/steno-aarhus\.github\.io\/ukbAid\/");
     var isInternal = (href) => {
         return filterRegex.test(href) || localhostRegex.test(href) || mailtoRegex.test(href);
     }
     // Inspect non-navigation links and adorn them if external
- 	var links = window.document.querySelectorAll('a[href]:not(.nav-link):not(.navbar-brand):not(.toc-action):not(.sidebar-link):not(.sidebar-item-toggle):not(.pagination-link):not(.no-external):not([aria-hidden]):not(.dropdown-item):not(.quarto-navigation-tool)');
+ 	var links = window.document.querySelectorAll('a[href]:not(.nav-link):not(.navbar-brand):not(.toc-action):not(.sidebar-link):not(.sidebar-item-toggle):not(.pagination-link):not(.no-external):not([aria-hidden]):not(.dropdown-item):not(.quarto-navigation-tool):not(.about-link)');
     for (var i=0; i<links.length; i++) {
       const link = links[i];
       if (!isInternal(link.href)) {