Updated 'gh-pages' from docs/ folder

futureverse · Oct 27, 2024 · 8819fbb · 8819fbb
1 parent 840d3ec
commit 8819fbb
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Showing 17 changed files with 1,125 additions and 1,907 deletions.
diff --git a/404.html b/404.html
diff --git a/CONTRIBUTING.html b/CONTRIBUTING.html
diff --git a/OVERVIEW.html b/OVERVIEW.html
diff --git a/articles/FutureParam.html b/articles/FutureParam.html
diff --git a/articles/index.html b/articles/index.html
diff --git a/authors.html b/authors.html
diff --git a/index.html b/index.html
diff --git a/news/index.html b/news/index.html
diff --git a/pkgdown.css b/pkgdown.css
@@ -56,8 +56,10 @@ img.icon {
   float: right;
 }
 
-img {
+/* Ensure in-page images don't run outside their container */
+.contents img {
   max-width: 100%;
+  height: auto;
 }
 
 /* Fix bug in bootstrap (only seen in firefox) */
@@ -78,29 +80,26 @@ dd {
 /* Section anchors ---------------------------------*/
 
 a.anchor {
-  margin-left: -30px;
-  display:inline-block;
-  width: 30px;
-  height: 30px;
-  visibility: hidden;
+  display: none;
+  margin-left: 5px;
+  width: 20px;
+  height: 20px;
 
   background-image: url(./link.svg);
   background-repeat: no-repeat;
   background-size: 20px 20px;
   background-position: center center;
 }
 
-.hasAnchor:hover a.anchor {
-  visibility: visible;
-}
-
-@media (max-width: 767px) {
-  .hasAnchor:hover a.anchor {
-    visibility: hidden;
-  }
+h1:hover .anchor,
+h2:hover .anchor,
+h3:hover .anchor,
+h4:hover .anchor,
+h5:hover .anchor,
+h6:hover .anchor {
+  display: inline-block;
 }
 
-
 /* Fixes for fixed navbar --------------------------*/
 
 .contents h1, .contents h2, .contents h3, .contents h4 {
@@ -264,31 +263,26 @@ table {
 
 /* Syntax highlighting ---------------------------------------------------- */
 
-pre {
-  word-wrap: normal;
-  word-break: normal;
-  border: 1px solid #eee;
-}
-
-pre, code {
+pre, code, pre code {
   background-color: #f8f8f8;
   color: #333;
 }
+pre, pre code {
+  white-space: pre-wrap;
+  word-break: break-all;
+  overflow-wrap: break-word;
+}
 
-pre code {
-  overflow: auto;
-  word-wrap: normal;
-  white-space: pre;
+pre {
+  border: 1px solid #eee;
 }
 
-pre .img {
+pre .img, pre .r-plt {
   margin: 5px 0;
 }
 
-pre .img img {
+pre .img img, pre .r-plt img {
   background-color: #fff;
-  display: block;
-  height: auto;
 }
 
 code a, pre a {
@@ -305,9 +299,8 @@ a.sourceLine:hover {
 .kw      {color: #264D66;} /* keyword */
 .co      {color: #888888;} /* comment */
 
-.message { color: black;   font-weight: bolder;}
-.error   { color: orange;  font-weight: bolder;}
-.warning { color: #6A0366; font-weight: bolder;}
+.error   {font-weight: bolder;}
+.warning {font-weight: bolder;}
 
 /* Clipboard --------------------------*/
 
@@ -365,3 +358,27 @@ mark {
     content: "";
   }
 }
+
+/* Section anchors ---------------------------------
+   Added in pandoc 2.11: https://github.com/jgm/pandoc-templates/commit/9904bf71
+*/
+
+div.csl-bib-body { }
+div.csl-entry {
+  clear: both;
+}
+.hanging-indent div.csl-entry {
+  margin-left:2em;
+  text-indent:-2em;
+}
+div.csl-left-margin {
+  min-width:2em;
+  float:left;
+}
+div.csl-right-inline {
+  margin-left:2em;
+  padding-left:1em;
+}
+div.csl-indent {
+  margin-left: 2em;
+}
diff --git a/pkgdown.js b/pkgdown.js
@@ -80,7 +80,7 @@
     $(document).ready(function() {
       var copyButton = "<button type='button' class='btn btn-primary btn-copy-ex' type = 'submit' title='Copy to clipboard' aria-label='Copy to clipboard' data-toggle='tooltip' data-placement='left auto' data-trigger='hover' data-clipboard-copy><i class='fa fa-copy'></i></button>";
 
-      $(".examples, div.sourceCode").addClass("hasCopyButton");
+      $("div.sourceCode").addClass("hasCopyButton");
 
       // Insert copy buttons:
       $(copyButton).prependTo(".hasCopyButton");
@@ -91,7 +91,7 @@
       // Initialize clipboard:
       var clipboardBtnCopies = new ClipboardJS('[data-clipboard-copy]', {
         text: function(trigger) {
-          return trigger.parentNode.textContent;
+          return trigger.parentNode.textContent.replace(/\n#>[^\n]*/g, "");
         }
       });
 

diff --git a/pkgdown.yml b/pkgdown.yml
@@ -1,10 +1,9 @@
-pandoc: 1.19.2.4
-pkgdown: 1.6.1
+pandoc: '3.4'
+pkgdown: 2.1.1
 pkgdown_sha: ~
 articles:
   FutureParam: FutureParam.html
-last_built: 2021-08-17T10:04Z
+last_built: 2024-10-27T03:49Z
 urls:
   reference: https://BiocParallel.FutureParam.futureverse.org/reference
   article: https://BiocParallel.FutureParam.futureverse.org/articles
-
diff --git a/reference/BiocParallel.FutureParam-package.html b/reference/BiocParallel.FutureParam-package.html
@@ -0,0 +1,8 @@
+<html>
+  <head>
+    <meta http-equiv="refresh" content="0;URL=https://BiocParallel.FutureParam.futureverse.org/reference/BiocParallel.FutureParam.html" />
+    <meta name="robots" content="noindex">
+    <link rel="canonical" href="https://BiocParallel.FutureParam.futureverse.org/reference/BiocParallel.FutureParam.html">
+  </head>
+</html>
+