gemfile for deploy

revbayes · May 22, 2024 · 49285c3 · 49285c3
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diff --git a/developer/index.html b/developer/index.html
@@ -96,23 +96,23 @@ <h3 id="developers-guide">Developer’s Guide</h3>
 </div>
 
 <div class="tutorial">
-<a class="title" href="/developer/docker/"><p>Using Docker with RevBayes</p>
+<a class="title" href="/developer/automated_builds/"><p>Automated building and testing in RevBayes</p>
 </a>
-<p class="subtitle"><p>Containerized debugging and executeables</p>
+<p class="subtitle"><p>Quick automated feedback on code changes</p>
 </p>
 </div>
 
 <div class="tutorial">
-<a class="title" href="/developer/tests/"><p>Integration Tests in RevBayes</p>
+<a class="title" href="/developer/best_practices/"><p>Best practices in RevBayes</p>
 </a>
-<p class="subtitle"><p>Ensuring that code changes did not unexpectedly alter the software</p>
+<p class="subtitle"><p>Coding and documentation guidelines</p>
 </p>
 </div>
 
 <div class="tutorial">
-<a class="title" href="/developer/tutorial/"><p>Contributing a RevBayes tutorial</p>
+<a class="title" href="/developer/docker/"><p>Using Docker with RevBayes</p>
 </a>
-<p class="subtitle"><p>How to write and host a tutorial on this website</p>
+<p class="subtitle"><p>Containerized debugging and executeables</p>
 </p>
 </div>
 
@@ -124,16 +124,16 @@ <h3 id="developers-guide">Developer’s Guide</h3>
 </div>
 
 <div class="tutorial">
-<a class="title" href="/developer/best_practices/"><p>Best practices in RevBayes</p>
+<a class="title" href="/developer/tests/"><p>Integration Tests in RevBayes</p>
 </a>
-<p class="subtitle"><p>Coding and documentation guidelines</p>
+<p class="subtitle"><p>Ensuring that code changes did not unexpectedly alter the software</p>
 </p>
 </div>
 
 <div class="tutorial">
-<a class="title" href="/developer/automated_builds/"><p>Automated building and testing in RevBayes</p>
+<a class="title" href="/developer/tutorial/"><p>Contributing a RevBayes tutorial</p>
 </a>
-<p class="subtitle"><p>Quick automated feedback on code changes</p>
+<p class="subtitle"><p>How to write and host a tutorial on this website</p>
 </p>
 </div>
 

diff --git a/developer/setup/eclipse.html b/developer/setup/eclipse.html
@@ -55,7 +55,7 @@
 	<h1 class="maintitle">Setting up Eclipse for RevBayes development</h1>
 
 	<h4 class="authors"></h4>
-  <h5>Last modified on August 31, 2018</h5>
+  <h5>Last modified on September  1, 2018</h5>
 </div>
 
 <p>Eclipse is a Java-based, cross-platform IDE with lots of nice features that make it convenient for RevBayes development. First, it’s cross-platform, and unlike Xcode, you can use any compiler you like (not just <code class="language-plaintext highlighter-rouge">clang</code>).</p>

diff --git a/developer/setup/netbeans.html b/developer/setup/netbeans.html
@@ -55,7 +55,7 @@
 	<h1 class="maintitle"></h1>
 
 	<h4 class="authors"></h4>
-  <h5>Last modified on March 10, 2018</h5>
+  <h5>Last modified on March 11, 2018</h5>
 </div>
 
 <p>Conventions: File paths are relative to the repository root.</p>

diff --git a/developer/setup/vim.html b/developer/setup/vim.html
@@ -55,7 +55,7 @@
 	<h1 class="maintitle">Setting up vim for RevBayes development</h1>
 
 	<h4 class="authors"></h4>
-  <h5>Last modified on March 10, 2018</h5>
+  <h5>Last modified on March 11, 2018</h5>
 </div>
 
 <p><a href="http://www.vim.org">Vim</a> is a text editor that some people love.

diff --git a/developer/tutorial/index.html b/developer/tutorial/index.html
@@ -55,7 +55,7 @@
 	<h1 class="maintitle">Contributing a RevBayes tutorial</h1>
 
 	<h4 class="authors"></h4>
-  <h5>Last modified on May 30, 2019</h5>
+  <h5>Last modified on May 31, 2019</h5>
 </div>
 
 <div class="sidebar no-print">

diff --git a/tutorials/biogeo/biogeo_dating.html b/tutorials/biogeo/biogeo_dating.html
@@ -55,7 +55,7 @@
 	<h1 class="maintitle">Biogeographic Dating of Divergence Times</h1>
 	<h3 class="subtitle">Estimating divergence times with molecular, biogeographic, and paleogeographic evidence under the Dispersal-Extirpation-Cladogenesis (DEC) model</h3>
 	<h4 class="authors">Michael J. Landis</h4>
-  <h5>Last modified on February 27, 2022</h5>
+  <h5>Last modified on February 28, 2022</h5>
 </div>
 
 

diff --git a/tutorials/biogeo/biogeo_simple.html b/tutorials/biogeo/biogeo_simple.html
@@ -55,7 +55,7 @@
 	<h1 class="maintitle">Simple Phylogenetic Analysis of Historical Biogeography</h1>
 	<h3 class="subtitle">Estimating ancestral ranges using the Dispersal-Extirpation-Cladogenesis (DEC) model</h3>
 	<h4 class="authors">Michael J. Landis</h4>
-  <h5>Last modified on February 27, 2022</h5>
+  <h5>Last modified on February 28, 2022</h5>
 </div>
 
 

diff --git a/tutorials/biogeo/old_stuff/plot_anc_range.R b/tutorials/biogeo/old_stuff/plot_anc_range.R
diff --git a/tutorials/biogeo/old_stuff/plot_anc_range.n4.R b/tutorials/biogeo/old_stuff/plot_anc_range.n4.R
diff --git a/tutorials/biogeo/old_stuff/range_colors.epoch.n4.txt b/tutorials/biogeo/old_stuff/range_colors.epoch.n4.txt
diff --git a/tutorials/biogeo/output copy/epoch.ase.tre b/tutorials/biogeo/output copy/epoch.ase.tre
diff --git a/tutorials/biogeo/output copy/epoch.mcc.tre b/tutorials/biogeo/output copy/epoch.mcc.tre