X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Freleases.html;h=af417a768933d9701bb2f02602c3baff4e8fdb01;hb=903973eeb7485c38e32002d926de1e06bf29bc94;hp=efe65205ecd9e309a2bca6d14cb59467abc43347;hpb=26501f76ef450657c530de489b8404356a98aca3;p=jalview.git

diff --git a/help/html/releases.html b/help/html/releases.html
index efe6520..af417a7 100755
--- a/help/html/releases.html
+++ b/help/html/releases.html
@@ -78,7 +78,7 @@ li:before {
           <em></em>
           <ul>
             <li>
-              <!--  -->
+              <!-- JAL-2865 -->Jalview doesn't hang when closing windows or the overview updates with large alignments.
             </li>
           </ul>
         </div></td>
@@ -92,16 +92,135 @@ li:before {
         </div></td>
     </tr>
     <tr>
+    <td width="60" nowrap>
+      <div align="center">
+        <strong><a name="Jalview.2.10.5">2.10.5</a><br /> <em>10/09/2018</em></strong>
+      </div>
+    </td>
+    <td><div align="left">
+        <em></em>
+        <ul>
+            <li>
+              <!-- JAL-3101 -->Default memory for Jalview webstart and
+              InstallAnywhere increased to 1G.
+            </li>
+            <li>
+              <!-- JAL-247 -->Hidden sequence markers and representative
+              sequence bolding included when exporting alignment as EPS,
+              SVG, PNG or HTML. <em>Display is configured via the
+                Format menu, or for command-line use via a jalview
+                properties file.</em>
+            </li>
+            <li>
+              <!-- JAL-3076 -->Ensembl client updated to Version 7 REST
+              API and sequence data now imported as JSON.
+            </li>
+            <li>
+              <!-- JAL-3065 -->Change in recommended way of starting
+              Jalview via a Java command line: add jars in lib directory
+              to CLASSPATH, rather than via the deprecated java.ext.dirs
+              property.
+            </li>
+          </ul>
+          <em>Development</em>
+          <ul>
+            <li>
+              <!-- JAL-3047 -->Support added to execute test suite
+              instrumented with <a href="http://openclover.org/">Open
+                Clover</a>
+            </li>
+          </ul>
+        </div></td>
+    <td><div align="left">
+        <em></em>
+        <ul>
+            <li>
+              <!-- JAL-3104 -->Poorly scaled bar in quality annotation
+              row shown in Feredoxin Structure alignment view of example
+              alignment.
+            </li>
+            <li>
+              <!-- JAL-2854 -->Annotation obscures sequences if lots of
+              annotation displayed.
+            </li>
+            <li>
+              <!-- JAL-3107 -->Group conservation/consensus not shown
+              for newly created group when 'Apply to all groups'
+              selected
+            </li>
+            <li>
+              <!-- JAL-3087 -->Corrupted display when switching to
+              wrapped mode when sequence panel's vertical scrollbar is
+              visible.
+            </li>
+            <li>
+              <!-- JAL-3003 -->Alignment is black in exported EPS file
+              when sequences are selected in exported view.</em>
+            </li>
+            <li>
+              <!-- JAL-3059 -->Groups with different coloured borders
+              aren't rendered with correct colour.
+            </li>
+            <li>
+              <!-- JAL-3092 -->Jalview could hang when importing certain
+              types of knotted RNA secondary structure.
+            </li>
+            <li>
+              <!-- JAL-3095 -->Sequence highlight and selection in
+              trimmed VARNA 2D structure is incorrect for sequences that
+              do not start at 1.
+            </li>
+            <li>
+              <!-- JAL-3061 -->'.' inserted into RNA secondary structure
+              annotation when columns are inserted into an alignment,
+              and when exporting as Stockholm flatfile.
+            </li>
+            <li>
+              <!-- JAL-3053 -->Jalview annotation rows containing upper
+              and lower-case 'E' and 'H' do not automatically get
+              treated as RNA secondary structure.
+            </li>
+            <li>
+              <!-- JAL-3106 -->.jvp should be used as default extension
+              (not .jar) when saving a jalview project file.
+            </li>
+            <li>
+              <!-- JAL-3105 -->Mac Users: closing a window correctly
+              transfers focus to previous window on OSX
+            </li>
+          </ul>
+          <em>Java 10 Issues Resolved</em>
+          <ul>
+            <li>
+              <!-- JAL-2988 -->OSX - Can't save new files via the File
+              or export menus by typing in a name into the Save dialog
+              box.
+            </li>
+            <li>
+              <!-- JAL-2988 JAL-2968 -->Jalview now uses patched version
+              of the <a href="https://violetlib.org/vaqua/overview.html">VAqua5</a>
+              'look and feel' which has improved compatibility with the
+              latest version of OSX.
+            </li>
+          </ul>
+        </div>
+    </td>
+    </tr>
+    <tr>
       <td width="60" nowrap>
         <div align="center">
           <strong><a name="Jalview.2.10.4b1">2.10.4b1</a><br />
-            <em>27/05/2018</em></strong>
+            <em>7/06/2018</em></strong>
         </div>
       </td>
       <td><div align="left">
           <em></em>
           <ul>
             <li>
+              <!-- JAL-2920 -->Use HGVS nomenclature for variant
+              annotation retrieved from Uniprot
+            </li>
+            <li>
               <!-- JAL-1460 -->Windows File Shortcuts can be dragged
               onto the Jalview Desktop
             </li>
@@ -111,28 +230,37 @@ li:before {
           <em></em>
           <ul>
             <li>
+              <!-- JAL-3017 -->Cannot import features with multiple
+              variant elements (blocks import of some Uniprot records)
+            </li>
+            <li>
               <!-- JAL-2997 -->Clustal files with sequence positions in
               right-hand column parsed correctly
             </li>
             <li>
+              <!-- JAL-2991 -->Wrap view - export to SVG - IDs shown but
+              not alignment area in exported graphic
+            </li>
+            <li>
               <!-- JAL-2993 -->F2/Keyboard mode edits work when Overview
               window has input focus
             </li>
             <li>
-              <!-- JAL-2991 -->Wrap view - export to SVG - IDs shown but
-              not alignment area in exported graphic
+              <!-- JAL-2992 -->Annotation panel set too high when
+              annotation added to view (Windows)
+            </li>
+            <li>
+              <!-- JAL-3009 -->Jalview Desktop is slow to start up when
+              network connectivity is poor
             </li>
             <li>
               <!-- JAL-1460 -->Drag URL from chrome, firefox, IE to
-              Jalview desktop on Windows doesn't open file<br />
-            <em>Dragging the currently open URL and links from a page viewed in Firefox or Chrome on
-                Windows is now fully supported. If you are using Edge, only
-                links in the page can be dragged, and with Internet Explorer, only
-                the currently open URL in the browser can be dropped onto
-                Jalview.</em>
-                </li>
-            <li>
-              <!-- JAL-2992 -->
+              Jalview desktop on Windows doesn't open file<br /> <em>Dragging
+                the currently open URL and links from a page viewed in
+                Firefox or Chrome on Windows is now fully supported. If
+                you are using Edge, only links in the page can be
+                dragged, and with Internet Explorer, only the currently
+                open URL in the browser can be dropped onto Jalview.</em>
             </li>
           </ul>
         </div></td>