Updated with SPLITT v1.2.2.

venelin · Jul 21, 2019 · 814bc5e · 814bc5e
1 parent 61f8b3a
commit 814bc5e
Show file tree

Hide file tree

Showing 17 changed files with 223 additions and 238 deletions.
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,8 +1,8 @@
 Package: PMMUsingSPLITT
 Type: Package
 Title: Calculating the Likelihood of Phylogenetic Mixed Models using the 'SPLITT' Library
-Version: 1.0.1
-Date: 2018-11-15
+Version: 1.0.2
+Date: 2019-07-21
 Authors@R: person("Venelin", "Mitov", email = "vmitov@gmail.com",
                  role = c("aut", "cre", "cph"))
 Maintainer: Venelin Mitov <vmitov@gmail.com>

diff --git a/docs/authors.html b/docs/authors.html
diff --git a/docs/index.html b/docs/index.html
diff --git a/docs/news/index.html b/docs/news/index.html
diff --git a/docs/pkgdown.css b/docs/pkgdown.css
@@ -58,9 +58,14 @@ img {
   max-width: 100%;
 }
 
+/* Fix bug in bootstrap (only seen in firefox) */
+summary {
+  display: list-item;
+}
+
 /* Typographic tweaking ---------------------------------*/
 
-.contents h1.page-header {
+.contents .page-header {
   margin-top: calc(-60px + 1em);
 }
 
@@ -136,7 +141,9 @@ a.anchor {
 .ref-index th {font-weight: normal;}
 
 .ref-index td {vertical-align: top;}
+.ref-index .icon {width: 40px;}
 .ref-index .alias {width: 40%;}
+.ref-index-icons .alias {width: calc(40% - 40px);}
 .ref-index .title {width: 60%;}
 
 .ref-arguments th {text-align: right; padding-right: 10px;}

diff --git a/docs/pkgdown.js b/docs/pkgdown.js
@@ -25,9 +25,13 @@
     for (var i = 0; i < links.length; i++) {
       if (links[i].getAttribute("href") === "#")
         continue;
-      var path = paths(links[i].pathname);
+      // Ignore external links
+      if (links[i].host !== location.host)
+        continue;
+
+      var nav_path = paths(links[i].pathname);
 
-      var length = prefix_length(cur_path, path);
+      var length = prefix_length(nav_path, cur_path);
       if (length > max_length) {
         max_length = length;
         pos = i;
@@ -52,13 +56,14 @@
     return(pieces);
   }
 
+  // Returns -1 if not found
   function prefix_length(needle, haystack) {
     if (needle.length > haystack.length)
-      return(0);
+      return(-1);
 
     // Special case for length-0 haystack, since for loop won't run
     if (haystack.length === 0) {
-      return(needle.length === 0 ? 1 : 0);
+      return(needle.length === 0 ? 0 : -1);
     }
 
     for (var i = 0; i < haystack.length; i++) {

diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml
@@ -1,5 +1,5 @@
-pandoc: 1.19.2.1
-pkgdown: 1.1.0.9000
-pkgdown_sha: 36bedb20e8d68ee91d33834c76f0e3dd03d5086a
+pandoc: 2.3.1
+pkgdown: 1.3.0
+pkgdown_sha: ~
 articles: []
 
diff --git a/docs/reference/AbcPMMLogLik.html b/docs/reference/AbcPMMLogLik.html
diff --git a/docs/reference/AbcPMMLogLikCpp.html b/docs/reference/AbcPMMLogLikCpp.html