diff --git a/README.md b/README.md
index 434c9677..6fe70a37 100644
--- a/README.md
+++ b/README.md
@@ -15,4 +15,4 @@ This directory contains the following files, which are mostly ignored on the `ma
 ## Source
 
 The manuscripts in this directory were built from
-[`aba52468ff16ba0e4c9a6f5c00d02a76f4baef0e`](https://github.com/greenelab/manubot-rootstock/commit/aba52468ff16ba0e4c9a6f5c00d02a76f4baef0e).
+[`38effe877efc7bd6c6de338f306db2a2a33a5df1`](https://github.com/greenelab/manubot-rootstock/commit/38effe877efc7bd6c6de338f306db2a2a33a5df1).
diff --git a/index.html b/index.html
index 542a5c2a..4efd4fa5 100644
--- a/index.html
+++ b/index.html
@@ -6,7 +6,7 @@
   <meta name="viewport" content="width=device-width, initial-scale=1.0, user-scalable=yes">
   <meta name="author" content="John Doe">
   <meta name="author" content="Jane Roe">
-  <meta name="dcterms.date" content="2017-10-05">
+  <meta name="dcterms.date" content="2017-10-09">
   <meta name="keywords" content="markdown, publishing, manubot">
   <title>Manubot Rootstock: Manuscript Title</title>
   <style type="text/css">code{white-space: pre;}</style>
@@ -23,7 +23,7 @@
 <header>
 <h1 class="title">Manubot Rootstock: Manuscript Title</h1>
 </header>
-<p><small><em> This manuscript was automatically generated from <a href="https://github.com/greenelab/manubot-rootstock/tree/aba52468ff16ba0e4c9a6f5c00d02a76f4baef0e">greenelab/manubot-rootstock@aba5246</a> on October 5, 2017. </em></small></p>
+<p><small><em> This manuscript was automatically generated from <a href="https://github.com/greenelab/manubot-rootstock/tree/38effe877efc7bd6c6de338f306db2a2a33a5df1">greenelab/manubot-rootstock@38effe8</a> on October 9, 2017. </em></small></p>
 <h2 id="authors">Authors</h2>
 <ul>
 <li><p><strong>John Doe</strong><br> <img src="images/orcid.svg" alt="ORCID icon" width="13" height="13" /> <a href="https://orcid.org/XXXX-XXXX-XXXX-XXXX">XXXX-XXXX-XXXX-XXXX</a> · <img src="images/github.svg" alt="GitHub icon" width="13" height="13" /> <a href="https://github.com/johndoe">johndoe</a> · <img src="images/twitter.svg" alt="Twitter icon" width="13" height="13" /> <a href="https://twitter.com/johndoe">johndoe</a><br> <small> Department of Something, University of Whatever · Funded by Grant XXXXXXXX </small></p></li>
diff --git a/index.html.ots b/index.html.ots
index 0334d36c..0cf42e24 100644
Binary files a/index.html.ots and b/index.html.ots differ
diff --git a/manuscript.pdf b/manuscript.pdf
index 5f1a5f8b..217c0342 100644
Binary files a/manuscript.pdf and b/manuscript.pdf differ
diff --git a/manuscript.pdf.ots b/manuscript.pdf.ots
index f6f89591..27dc9f51 100644
Binary files a/manuscript.pdf.ots and b/manuscript.pdf.ots differ