From: Jim Procter <jprocter@issues.jalview.org>
Date: Thu, 29 Oct 2020 15:10:54 +0000 (+0000)
Subject: JAL-3766 release notes for JAL-3765 JAL-3763 JAL-3760 JAL-3751 JAL-3748 JAL-3725... 
X-Git-Tag: Release_2_11_1_3~4^2
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=8f149d9613754f066b0aced1b4fdcd7169fa7e05;p=jalview.git

JAL-3766 release notes for JAL-3765 JAL-3763 JAL-3760 JAL-3751 JAL-3748 JAL-3725 JAL-3700 JAL-3611
---

diff --git a/help/help/html/releases.html b/help/help/html/releases.html
index 4bef1f6..0898739 100755
--- a/help/help/html/releases.html
+++ b/help/help/html/releases.html
@@ -58,22 +58,56 @@ li:before {
     <tr>
       <td width="60" align="center" nowrap><strong><a
           id="Jalview.2.11.1">2.11.1</a><a id="Jalview.2.11.1.3">.3</a><br />
-          <em>27/10/2020</em></strong></td>
+          <em>29/10/2020</em></strong></td>
       <td align="left" valign="top">
         <ul>
-        
+
         </ul>
       </td>
       <td align="left" valign="top">
         <ul>
           <li>
             <!-- JAL-3765 -->Find doesn't always highlight all matching
-            positions in a sequence
+            positions in a sequence (bug introduced in 2.11.1.2)
+          </li>
+          <li>
+            <!-- JAL-3760 -->Alignments containing one or more protein
+            sequences can be classed as nucleotide
+          </li>
+          <li>
+            <!-- JAL-3748 -->CDS alignment doesn't match original CDS
+            sequences after alignment of protein products (known defect
+            first reported for 2.11.1.0)
+          </li>
+          <li>
+            <!-- JAL-3725 -->No tooltip or popup menu for genomic features
+            outwith CDS shown overlaid on protein
+          </li>
+          <li>
+            <!-- JAL-3751 -->Overlapping CDS in ENA accessions are not
+            correctly mapped by Jalview (e.g. affects viral CDS with
+            ribosomal slippage, since 2.9.0)
+          </li>
+          <li>
+            <!-- JAL-3763 -->Spliced transcript CDS sequences don't show
+            CDS features
+          </li>
+          <li>
+            <!-- JAL-3700 -->Selections in CDS sequence panel don't
+            always select corresponding protein sequences
           </li>
+        </ul> <em>Installer</em>
+        <ul>
           <li>
             <!-- JAL-3611 -->Space character in Jalview install path on
             Windows prevents install4j launching getdown
           </li>
+        </ul> <em>Development</em>
+        <ul>
+          <li>
+            <!-- JAL-3248 -->Fixed typos and specified compatible gradle
+            version numbers in doc/building.md
+          </li>
         </ul>
       </td>
     </tr>
@@ -277,6 +311,11 @@ li:before {
             <!-- JAL-3127 -->Sequence ID colourscheme not re-applied
             when alignment view restored from project (since Jalview 2.11.0)
           </li>
+          <li>
+            <!-- JAL-3749 -->Duplicate CDS sequences are generated when
+            protein products for certain ENA records are repeatedly
+            shown via Calculate-&gt;Show Cross Refs
+          </li>
         </ul>
       </td>
     </tr>