added SR 2024 publicatins

RobertsLab · Nov 28, 2024 · b438623 · b438623
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diff --git a/_freeze/site_libs/quarto-listing/list.min.js b/_freeze/site_libs/quarto-listing/list.min.js
diff --git a/docs/calendar.html b/docs/calendar.html
@@ -2,12 +2,12 @@
 <html xmlns="http://www.w3.org/1999/xhtml" lang="en" xml:lang="en"><head>
 
 <meta charset="utf-8">
-<meta name="generator" content="quarto-1.4.555">
+<meta name="generator" content="quarto-1.5.57">
 
 <meta name="viewport" content="width=device-width, initial-scale=1.0, user-scalable=yes">
 
 
-<title>robertslab.info - Calendar</title>
+<title>Calendar – robertslab.info</title>
 <style>
 code{white-space: pre-wrap;}
 span.smallcaps{font-variant: small-caps;}
@@ -98,7 +98,7 @@
   </div>
         <div class="quarto-navbar-tools tools-wide tools-end">
     <div class="dropdown">
-      <a href="" title="" id="quarto-navigation-tool-dropdown-0" class="quarto-navigation-tool dropdown-toggle px-1" data-bs-toggle="dropdown" aria-expanded="false" aria-label=""><i class="bi bi-hdd-network"></i></a>
+      <a href="" title="" id="quarto-navigation-tool-dropdown-0" class="quarto-navigation-tool dropdown-toggle px-1" data-bs-toggle="dropdown" aria-expanded="false" role="link" aria-label=""><i class="bi bi-hdd-network"></i></a>
       <ul class="dropdown-menu dropdown-menu-end" aria-labelledby="quarto-navigation-tool-dropdown-0">
           <li>
             <a class="dropdown-item quarto-navbar-tools-item" href="http://raven.fish.washington.edu:8787">
@@ -128,7 +128,7 @@
       </ul>
     </div>
     <div class="dropdown">
-      <a href="" title="" id="quarto-navigation-tool-dropdown-1" class="quarto-navigation-tool dropdown-toggle px-1" data-bs-toggle="dropdown" aria-expanded="false" aria-label=""><i class="bi bi-journal-code"></i></a>
+      <a href="" title="" id="quarto-navigation-tool-dropdown-1" class="quarto-navigation-tool dropdown-toggle px-1" data-bs-toggle="dropdown" aria-expanded="false" role="link" aria-label=""><i class="bi bi-journal-code"></i></a>
       <ul class="dropdown-menu dropdown-menu-end" aria-labelledby="quarto-navigation-tool-dropdown-1">
           <li>
             <a class="dropdown-item quarto-navbar-tools-item" href="https://robertslab.github.io/sams-notebook/">
@@ -198,7 +198,7 @@
       </ul>
     </div>
     <div class="dropdown">
-      <a href="" title="" id="quarto-navigation-tool-dropdown-2" class="quarto-navigation-tool dropdown-toggle px-1" data-bs-toggle="dropdown" aria-expanded="false" aria-label=""><i class="bi bi-github"></i></a>
+      <a href="" title="" id="quarto-navigation-tool-dropdown-2" class="quarto-navigation-tool dropdown-toggle px-1" data-bs-toggle="dropdown" aria-expanded="false" role="link" aria-label=""><i class="bi bi-github"></i></a>
       <ul class="dropdown-menu dropdown-menu-end" aria-labelledby="quarto-navigation-tool-dropdown-2">
           <li>
             <a class="dropdown-item quarto-navbar-tools-item" href="https://github.com/RobertsLab/resources/issues/new">
@@ -227,13 +227,13 @@
     </nav>
   <nav class="quarto-secondary-nav">
     <div class="container-fluid d-flex">
-      <button type="button" class="quarto-btn-toggle btn" 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(); }">
+      <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">Calendar</li></ol></nav>
-        <a class="flex-grow-1" role="button" 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 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>
-      <button type="button" class="btn quarto-search-button" aria-label="" onclick="window.quartoOpenSearch();">
+      <button type="button" class="btn quarto-search-button" aria-label="Search" onclick="window.quartoOpenSearch();">
         <i class="bi bi-search"></i>
       </button>
     </div>
@@ -307,7 +307,7 @@ <h1 class="title">Calendar</h1>
 </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">
+    <div id="quarto-margin-sidebar" class="sidebar margin-sidebar zindex-bottom">
 
     </div>
 <!-- main -->
@@ -502,18 +502,7 @@ <h1 class="title">Calendar</h1>
     }
     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
@@ -545,15 +534,37 @@ <h1 class="title">Calendar</h1>
     }, 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:\/\/faculty\.washington\.edu\/sr320");
     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/docs/contact.html b/docs/contact.html
@@ -2,12 +2,12 @@
 <html xmlns="http://www.w3.org/1999/xhtml" lang="en" xml:lang="en"><head>
 
 <meta charset="utf-8">
-<meta name="generator" content="quarto-1.4.555">
+<meta name="generator" content="quarto-1.5.57">
 
 <meta name="viewport" content="width=device-width, initial-scale=1.0, user-scalable=yes">
 
 
-<title>robertslab.info - Contact Us</title>
+<title>Contact Us – robertslab.info</title>
 <style>
 code{white-space: pre-wrap;}
 span.smallcaps{font-variant: small-caps;}
@@ -98,7 +98,7 @@
   </div>
         <div class="quarto-navbar-tools tools-wide tools-end">
     <div class="dropdown">
-      <a href="" title="" id="quarto-navigation-tool-dropdown-0" class="quarto-navigation-tool dropdown-toggle px-1" data-bs-toggle="dropdown" aria-expanded="false" aria-label=""><i class="bi bi-hdd-network"></i></a>
+      <a href="" title="" id="quarto-navigation-tool-dropdown-0" class="quarto-navigation-tool dropdown-toggle px-1" data-bs-toggle="dropdown" aria-expanded="false" role="link" aria-label=""><i class="bi bi-hdd-network"></i></a>
       <ul class="dropdown-menu dropdown-menu-end" aria-labelledby="quarto-navigation-tool-dropdown-0">
           <li>
             <a class="dropdown-item quarto-navbar-tools-item" href="http://raven.fish.washington.edu:8787">
@@ -128,7 +128,7 @@
       </ul>
     </div>
     <div class="dropdown">
-      <a href="" title="" id="quarto-navigation-tool-dropdown-1" class="quarto-navigation-tool dropdown-toggle px-1" data-bs-toggle="dropdown" aria-expanded="false" aria-label=""><i class="bi bi-journal-code"></i></a>
+      <a href="" title="" id="quarto-navigation-tool-dropdown-1" class="quarto-navigation-tool dropdown-toggle px-1" data-bs-toggle="dropdown" aria-expanded="false" role="link" aria-label=""><i class="bi bi-journal-code"></i></a>
       <ul class="dropdown-menu dropdown-menu-end" aria-labelledby="quarto-navigation-tool-dropdown-1">
           <li>
             <a class="dropdown-item quarto-navbar-tools-item" href="https://robertslab.github.io/sams-notebook/">
@@ -198,7 +198,7 @@
       </ul>
     </div>
     <div class="dropdown">
-      <a href="" title="" id="quarto-navigation-tool-dropdown-2" class="quarto-navigation-tool dropdown-toggle px-1" data-bs-toggle="dropdown" aria-expanded="false" aria-label=""><i class="bi bi-github"></i></a>
+      <a href="" title="" id="quarto-navigation-tool-dropdown-2" class="quarto-navigation-tool dropdown-toggle px-1" data-bs-toggle="dropdown" aria-expanded="false" role="link" aria-label=""><i class="bi bi-github"></i></a>
       <ul class="dropdown-menu dropdown-menu-end" aria-labelledby="quarto-navigation-tool-dropdown-2">
           <li>
             <a class="dropdown-item quarto-navbar-tools-item" href="https://github.com/RobertsLab/resources/issues/new">
@@ -227,13 +227,13 @@
     </nav>
   <nav class="quarto-secondary-nav">
     <div class="container-fluid d-flex">
-      <button type="button" class="quarto-btn-toggle btn" 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(); }">
+      <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">Contact Us</li></ol></nav>
-        <a class="flex-grow-1" role="button" 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 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>
-      <button type="button" class="btn quarto-search-button" aria-label="" onclick="window.quartoOpenSearch();">
+      <button type="button" class="btn quarto-search-button" aria-label="Search" onclick="window.quartoOpenSearch();">
         <i class="bi bi-search"></i>
       </button>
     </div>
@@ -307,7 +307,7 @@ <h1 class="title">Contact Us</h1>
 </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">
+    <div id="quarto-margin-sidebar" class="sidebar margin-sidebar zindex-bottom">
 
     </div>
 <!-- main -->
@@ -523,18 +523,7 @@ <h1 class="title">Contact Us</h1>
     }
     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
@@ -566,15 +555,37 @@ <h1 class="title">Contact Us</h1>
     }, 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:\/\/faculty\.washington\.edu\/sr320");
     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)) {