<html>
+<!--
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1)
+ * Copyright (C) 2014 The Jalview Authors
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+-->
<head>
<title>What's new ?</title>
</head>
<body>
-<p><strong>What's new ?</strong></p>
-<p><strong>Jalview Version 2.4</strong></p>
-<ul>
- VAMSAS Interoperation Client<br>
- DAS Sequence Fetching<br>
- PFAM full alignment retrieval<br>
- DNA/Protein Product traversal (Experimental)</br>
- .. (more to come)<br>
- URL links can be generated using regular
- expressions and created for sequence database cross references<br>
-</ul>
-<p><strong>Issues Resolved</strong></p>
-<ul>
- .. (more to come)
-</ul>
-
-<--<p><strong>Jalview Version 2.3</strong></p>
-<ul>
- Jmol 11.0.2 integration<br>
- PDB views stored in Jalview XML files<br>
- Slide sequences<br>
- Edit sequence in place<br>
- EMBL CDS features<br>
- DAS Feature mapping<br>
- Feature ordering<br>
- Alignment Properties<br>
- Annotation Scores<br>
- Sort by scores<br>
- Feature/annotation editing in applet<br>
-</ul>
-<p><strong>Issues Resolved</strong></p>
-<ul>
- Headless state operation in 2.2.1 <br>
- Incorrect and unstable DNA pairwise alignment <br>
- Cut and paste of sequences with annotation <br>
- Feature group display state in XML<br>
- Feature ordering in XML<br>
- 2.2.1 applet had no feature transparency<br>
- Number pad keys can be used in cursor mode<br>
- Structure Viewer mirror image resolved</p>
- </ul>-->
-<p> </p>
-<p>See the <a href="releases.html">Release History</a> page for
-details of all new features and resolved issues.</p>
+ <p>
+ <strong>What's new ?</strong><br /> Jalview 2.8.0b1 is a bugfix
+ release for Jalview version 2.8. <br /> As usual you can find the
+ highlights below, and the comprehensive list is given in the <a
+ href="releases.html#Jalview2.8.0b1">Jalview 2.8.0b1 Release Notes</a>.
+ </p>
+ <p>
+ This bug fix release includes numerous minor enhancements made over
+ the last 12 months. Importantly, it is also the first release that
+ provides Jalview as a trusted application, signed with a certificate
+ donated to us by <a href="certum.eu">Certum</a>.
+ </p>
+ <strong>Enhancements and new features</strong>
+ <ul>
+ <li>Allow disorder predictions to be made on the current
+ selection (or visible selection) in the same way that JPred works</li>
+ <li>allow import of data from gzipped files</li>
+ <li>Improved per-sequence 'colour-by-annotation' performance</li>
+ <li>Support '' style escaping of quotes in Newick files</li>
+ <li>group options for JABAWS service by command line name</li>
+ <li>Select primary source when selecting authority in database
+ fetcher GUI</li>
+ <li>COMBINE statement uses current SEQUENCE_REF and GROUP_REF
+ scope to group annotation rows</li>
+ <li>add .mfa to FASTA file extensions recognised by Jalview</li>
+ <li>groovy scripting for headless jalview operation</li>
+ <li>Output in Stockholm format</li>
+ </ul>
+ <strong>Bug fixes</strong>
+ <ul>
+ <li>Uniprot and PDB database cross-reference fetching works
+ properly</li>
+ <li>'View all structures' in the desktop is more reliable</li>
+ <li>Web services parameter dialog box shows the options enabled
+ for different presets</li>
+ <li>Interactive creation of RNA secondary structure works more
+ smoothly</li>
+ <li>Keyboard mode 'P' command jumps to the right place</li>
+ <li>Improved support for parsing database cross-references via
+ Stockholm and Rfam database</li>
+ <li>Improved semantics in annotation files for grouping
+ annotation rows associated with particular sequences and groups</li>
+ <li>More robust DNA->Amino acid translation</li>
+ <li>Improved Headless-mode operation for DAS annotation
+ retrieval, groovy script execution and alignment figure generation</li>
+ <li>annotation label tooltip text needs to be wrapped</li>
+ </ul>
</body>
</html>