install r and dependencies with publish

RConsortium · Aug 27, 2024 · 5d7d33d · 5d7d33d
1 parent 405f177
commit 5d7d33d
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diff --git a/.Rprofile b/.Rprofile
@@ -0,0 +1 @@
+source("renv/activate.R")
diff --git a/.github/workflows/publish.yml b/.github/workflows/publish.yml
@@ -14,6 +14,16 @@ jobs:
 
       - name: Set up Quarto
         uses: quarto-dev/quarto-actions/setup@v2
+
+      - name: Install R
+        uses: r-lib/actions/setup-r@v2
+        with:
+          r-version: '4.2.0'
+
+      - name: Install R Dependencies 
+        uses: r-lib/actions/setup-renv@v2
+        with:
+          cache-version: 1
 
       - name: Render and Publish 
         uses: quarto-dev/quarto-actions/publish@v2

diff --git a/docs/index.html b/docs/index.html
@@ -2,7 +2,7 @@
 <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-1.5.56">
 
 <meta name="viewport" content="width=device-width, initial-scale=1.0, user-scalable=yes">
 
@@ -99,7 +99,7 @@
   })
   </script>
 
-  <script src="https://polyfill.io/v3/polyfill.min.js?features=es6"></script>
+  <script src="https://cdnjs.cloudflare.com/polyfill/v3/polyfill.min.js?features=es6"></script>
   <script src="https://cdn.jsdelivr.net/npm/mathjax@3/es5/tex-chtml-full.js" type="text/javascript"></script>
 
 <script type="text/javascript">
@@ -144,13 +144,13 @@
     </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">
             <ul class="navbar-nav navbar-nav-scroll ms-auto">
   <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">    
@@ -197,7 +197,7 @@
     </ul>
   </li>
   <li class="nav-item dropdown ">
-    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-members" role="button" data-bs-toggle="dropdown" aria-expanded="false">
+    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-members" role="link" data-bs-toggle="dropdown" aria-expanded="false">
  <span class="menu-text">Members</span>
     </a>
     <ul class="dropdown-menu dropdown-menu-end" aria-labelledby="nav-menu-members">    
@@ -216,7 +216,7 @@
     </ul>
   </li>
   <li class="nav-item dropdown ">
-    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-grants" role="button" data-bs-toggle="dropdown" aria-expanded="false">
+    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-grants" role="link" data-bs-toggle="dropdown" aria-expanded="false">
  <span class="menu-text">Grants</span>
     </a>
     <ul class="dropdown-menu dropdown-menu-end" aria-labelledby="nav-menu-grants">    
@@ -243,7 +243,7 @@
     </ul>
   </li>
   <li class="nav-item dropdown ">
-    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-projects" role="button" data-bs-toggle="dropdown" aria-expanded="false">
+    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-projects" role="link" data-bs-toggle="dropdown" aria-expanded="false">
  <span class="menu-text">Projects</span>
     </a>
     <ul class="dropdown-menu dropdown-menu-end" aria-labelledby="nav-menu-projects">    
@@ -266,7 +266,7 @@
     </ul>
   </li>
   <li class="nav-item dropdown ">
-    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-events" role="button" data-bs-toggle="dropdown" aria-expanded="false">
+    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-events" role="link" data-bs-toggle="dropdown" aria-expanded="false">
  <span class="menu-text">Events</span>
     </a>
     <ul class="dropdown-menu dropdown-menu-end" aria-labelledby="nav-menu-events">    
@@ -285,7 +285,7 @@
     </ul>
   </li>
   <li class="nav-item dropdown ">
-    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-news" role="button" data-bs-toggle="dropdown" aria-expanded="false">
+    <a class="nav-link dropdown-toggle" href="#" id="nav-menu-news" role="link" data-bs-toggle="dropdown" aria-expanded="false">
  <span class="menu-text">News</span>
     </a>
     <ul class="dropdown-menu dropdown-menu-end" aria-labelledby="nav-menu-news">    
@@ -333,7 +333,7 @@
   </li>  
 </ul>
           </div> <!-- /navcollapse -->
-          <div class="quarto-navbar-tools">
+            <div class="quarto-navbar-tools">
 </div>
       </div> <!-- /container-fluid -->
     </nav>
@@ -622,7 +622,7 @@ <h2 class="scroll-title anchored">
 <a href="./posts/building-bridges-in-haifa-israel/index.html" class="quarto-grid-link">
 <div class="quarto-grid-item card h-100 card-left">
 <p class="card-img-top">
-<img src="./posts/building-bridges-in-haifa-israel/unnamed4.jpg" class="thumbnail-image card-img" style="height: 150px;">
+<img loading="lazy" src="./posts/building-bridges-in-haifa-israel/unnamed4.jpg" class="thumbnail-image card-img" style="height: 150px;">
 </p>
 <div class="card-body post-contents">
 <h5 class="no-anchor card-title listing-title">
@@ -647,7 +647,7 @@ <h5 class="no-anchor card-title listing-title">
 <a href="./posts/a-new-r-community-in-ahmedabad/index.html" class="quarto-grid-link">
 <div class="quarto-grid-item card h-100 card-left">
 <p class="card-img-top">
-<img src="./posts/a-new-r-community-in-ahmedabad/unnamed.png" class="thumbnail-image card-img" style="height: 150px;">
+<img loading="lazy" src="./posts/a-new-r-community-in-ahmedabad/unnamed.png" class="thumbnail-image card-img" style="height: 150px;">
 </p>
 <div class="card-body post-contents">
 <h5 class="no-anchor card-title listing-title">
@@ -672,7 +672,7 @@ <h5 class="no-anchor card-title listing-title">
 <a href="./posts/rconsortium-grants-comittee-announces-new-chair/index.html" class="quarto-grid-link">
 <div class="quarto-grid-item card h-100 card-left">
 <p class="card-img-top">
-<img src="./posts/rconsortium-grants-comittee-announces-new-chair/images/Katherine-blog2.png" class="thumbnail-image card-img" style="height: 150px;">
+<img loading="lazy" src="./posts/rconsortium-grants-comittee-announces-new-chair/images/Katherine-blog2.png" class="thumbnail-image card-img" style="height: 150px;">
 </p>
 <div class="card-body post-contents">
 <h5 class="no-anchor card-title listing-title">
@@ -697,7 +697,7 @@ <h5 class="no-anchor card-title listing-title">
 <a href="./posts/pharma-rug-the-rise-of-r/index.html" class="quarto-grid-link">
 <div class="quarto-grid-item card h-100 card-left">
 <p class="card-img-top">
-<img src="./posts/pharma-rug-the-rise-of-r/unnamed.jpg" class="thumbnail-image card-img" style="height: 150px;">
+<img loading="lazy" src="./posts/pharma-rug-the-rise-of-r/unnamed.jpg" class="thumbnail-image card-img" style="height: 150px;">
 </p>
 <div class="card-body post-contents">
 <h5 class="no-anchor card-title listing-title">
@@ -722,7 +722,7 @@ <h5 class="no-anchor card-title listing-title">
 <a href="./posts/r-ladies-rome-empowering-women-in-data-science-through-collaboration-and-innovation/index.html" class="quarto-grid-link">
 <div class="quarto-grid-item card h-100 card-left">
 <p class="card-img-top">
-<img src="./posts/r-ladies-rome-empowering-women-in-data-science-through-collaboration-and-innovation/unnamed (2).png" class="thumbnail-image card-img" style="height: 150px;">
+<img loading="lazy" src="./posts/r-ladies-rome-empowering-women-in-data-science-through-collaboration-and-innovation/unnamed (2).png" class="thumbnail-image card-img" style="height: 150px;">
 </p>
 <div class="card-body post-contents">
 <h5 class="no-anchor card-title listing-title">
@@ -806,18 +806,7 @@ <h5 class="no-anchor card-title listing-title">
     }
     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
@@ -849,15 +838,37 @@ <h5 class="no-anchor card-title listing-title">
     }, 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('/' + window.location.host + '/');
     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)) {