HMMER 3.4 release.

site/documentation.html

@@ -35,7 +35,7 @@ <h1>HMMER</h1>
             <li><a href="download.html">Download</a></li>
             <li class="active">Documentation</li>
             <li><a href="http://www.ebi.ac.uk/Tools/hmmer/">Search</a></li>
-            <li><a href="http://cryptogenomicon.org/category/hmmer/">Blog</a></li>
+            <li><a href="http://cryptogenomicon.org/">Blog</a></li>
           </ul>
         </div>
 
@@ -72,7 +72,7 @@ <h3>Alternatively, briefly, to obtain and compile from source:</h3>
           <pre>
   % wget http://eddylab.org/software/hmmer/hmmer.tar.gz 
   % tar zxf hmmer.tar.gz
-  % cd hmmer-3.3.2
+  % cd hmmer-3.4
   % ./configure --prefix /your/install/path
   % make
   % make check
@@ -111,7 +111,6 @@ <h4>Papers:</h4>
             <li>Eddy SR. Accelerated profile HMM searches. PLoS Comput Biol. 7:e1002195 (2011) </li>
             <li>Eddy SR. A probabilistic model of local sequence alignment that simplifies statistical significance estimation. PLoS Comput. Biol. 4:e1000069 (2008) </li>
             <li>Eddy SR. A new generation of homology search tools based on probabilistic inference. Genome Inform. 23:205-11 (2009).</li>
-            <li><a href="/publications.html">Other publications</a> about HMMER.</li>
             </ul>
 
          <h4>Book:</h4>

site/download.html

@@ -39,12 +39,12 @@ <h1>HMMER</h1>
 
       <div class="row current">
         <div class="col-sm-12">
-          <h3>The <strong>current version</strong> is HMMER <strong>3.3.2</strong> (26 Nov 2020).</h3>
+          <h3>The <strong>current version</strong> is HMMER <strong>3.4</strong> (15 August 2023).</h3>
           <div class="well">
             <table>
               <tr>
                 <td> Source:</td>
-                <td> <a href="http://eddylab.org/software/hmmer/hmmer-3.3.2.tar.gz">[hmmer-3.3.2.tar.gz]</a></td>
+                <td> <a href="http://eddylab.org/software/hmmer/hmmer-3.4.tar.gz">[hmmer-3.4.tar.gz]</a></td>
               </tr>
             </table>
           </div>
@@ -58,6 +58,11 @@ <h3> Previous HMMER3 releases </h3>
           <div class="well">
             <table>
               <tbody>
+                <tr>
+                  <td> 3.3.2</td>
+                  <td> 26 Nov 2020 </td>
+                  <td> <a href="http://eddylab.org/software/hmmer/hmmer-3.3.2.tar.gz">[hmmer-3.3.2.tar.gz]</a></td>
+                </tr>
                 <tr>
                   <td> 3.3.1</td>
                   <td> 25 Jul 2020 </td>

site/index.html

@@ -45,7 +45,7 @@ <h2>HMMER: biosequence analysis using profile hidden Markov models</h2>
       <div class="row description">
         <div class="col-sm-4 download">
           <p>Get the latest version</p>
-          <p class="version">v3.3.2</p>
+          <p class="version">v3.4</p>
           <a href="http://eddylab.org/software/hmmer/hmmer.tar.gz" class="btn btn-primary btn-lg">Download source</a>
           <p class="small"><a href="download.html">(archived older versions)</a></p>
         </div>