X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhelp%2Fhtml%2Freleases.html;h=d9678c34a7f9a38bcfe8ece92016a3568e55b401;hb=3e3574b6f00a58de6441015666c6fb7e2e8a1679;hp=f75a17758b91b095c3ae3812527753d44743ad92;hpb=8fc7543a79797b5de07ce48a0da43fb7ead9ceee;p=jalview.git

diff --git a/help/help/html/releases.html b/help/help/html/releases.html
index f75a177..d9678c3 100755
--- a/help/help/html/releases.html
+++ b/help/help/html/releases.html
@@ -101,18 +101,23 @@ li:before {
             implementation that allows updates) used for Sequence Feature collections</li>
           <li>
 							<li>
-								<!-- JAL-2808,JAL-2069 -->Sequence features can be filtered and
-								shaded according to any associated attributes (e.g. variant
-								attributes from VCF file, or key-value pairs imported from
-								column 9 of GFF file)
-							</li>
-							<li>
+                <!-- JAL-2744, JAL-2808,JAL-2069,JAL-2820 -->Sequence
+                features can be filtered and shaded according to any
+                associated attributes (e.g. variant attributes from VCF
+                file, or key-value pairs imported from column 9 of GFF
+                file)
+              </li>
+              <li>
+                <!-- JAL-2879 -->Feature Attributes and shading schemes
+                stored and restored from Jalview Projects
+              </li>
+              <li>
 								<!-- JAL-3334 -->Use full Sequence Ontology (via BioJava) to
 								recognise variant features
 							</li>
 							<li>
-								<!-- JAL-2897 -->Show synonymous codon variants on peptide
-								sequences
+								<!-- JAL-2897,JAL-3330 -->Show synonymous codon variants on peptide
+								sequences (also coloured red by default)
 							</li>
 							<li>
 								<!-- JAL-2792 -->Popup window to show full report for a selected sequence feature's
@@ -250,18 +255,36 @@ li:before {
 						<!-- JAL-3196,JAL-3179.JAL-2671 -->Build system migrated from Ant to Gradle
 					</li>
 					<li><!-- JAL-1424 -->Enhanced checks for missing and duplicated keys in Message bundles</li>
-					<li>
-						<!-- JAL-3225 -->Eclipse project configuration managed with
-						gradle-eclipse
-					</li>
-          <li><!-- JAL-3174,JAL-2886,JAL-2729 -->
-          Atlassian Bamboo continuous integration for
-            unattended Test Suite execution</li>
+          <li>
+            <!-- JAL-3225 -->Eclipse project configuration managed with
+            gradle-eclipse
+          </li>
+          <li>
+            <!-- JAL-3174,JAL-2886,JAL-2729,JAL-1889 --> Atlassian
+            Bamboo continuous integration for unattended Test Suite
+            execution
+          </li>
           <li>
             <!-- JAL-2864 -->Memory test suite to detect leaks in common
-            operations</li>
-          <li><!-- JAL-2360,JAL-2416 -->More unit test coverage, and minor issues resolved.</li>
-          <li><!-- JAL-3248 -->Developer documentation migrated to markdown (with HTML rendering)</li>          
+            operations
+          </li>
+          <li>
+            <!-- JAL-2360,JAL-2416 -->More unit test coverage, and minor
+            issues resolved.
+          </li>
+          <li>
+            <!-- JAL-3248 -->Developer documentation migrated to
+            markdown (with HTML rendering)
+          </li>
+          <li>
+            <!-- JAL-3287 -->HelpLinksChecker runs on Windows
+          </li>
+          <li>
+            <!-- JAL-3289 -->New URLs for publishing development
+            versions of Jalview
+          </li>
+          <li>
+          <li>
         </ul>
       </td>
 			<td align="left" valign="top">
@@ -321,10 +344,6 @@ li:before {
 						doesn't tell users the invalid URL
 					</li>
 					<li>
-						<!-- JAL-3178 -->Nonpositional features lose feature group on
-						export as Jalview features file
-					</li>
-					<li>
 						<!-- JAL-2816 -->Tooltips displayed for features filtered by
 						score from view
 					</li>
@@ -334,8 +353,8 @@ li:before {
 						red in original view
 					</li>
           <li>
-            <!-- JAL-2898 -->stop_gained variants not shown correctly on
-            peptide sequence
+            <!-- JAL-2898,JAL-2207 -->stop_gained variants not shown correctly on
+            peptide sequence (computed variant shown as p.Res.null)
           </li>
 					<li>
 						<!-- JAL-2060 -->'Graduated colour' option not offered for
@@ -426,12 +445,15 @@ li:before {
 						without normalisation
 					</li>
 					<li>
-						<!-- JAL-3021 -->Sequence Details report opens positioned to top
+						<!-- JAL-3021 -->Sequence Details report should open positioned at top
 						of report
 					</li>
 					<li>
 						<!-- JAL-914 -->Help page can be opened twice
 					</li>
+				  <li>
+				  <!-- JAL-3333 -->Fuzzy text in web service status menu on OSX Mojave
+				  </li>
 				</ul> <em>Editing</em>
 				<ul>
 					<li>
@@ -459,7 +481,14 @@ li:before {
 						<!-- JAL-2986 -->Sequence.findIndex returns wrong value when
 						sequence's End is greater than its length
 					</li>
-				</ul> <em>New Known Defects</em>
+          <li><strong>Bugs fixed for Java 11 Support (not
+              yet on general release)</strong>
+            <ul>
+              <li>
+                <!-- JAL-3288 -->Menus work properly in split-screen
+              </li>
+            </ul></li>
+        </ul> <em>New Known Defects</em>
 				<ul>
 				<li><!-- JAL-3340 -->Select columns containing feature by double clicking ignores bounds of an existing selected region
 				</li>
@@ -494,7 +523,11 @@ li:before {
 					<li>
 					<!-- JAL-3338 -->F2 doesn't enable/disable keyboard mode in linked CDS/Protein view
 					</li>
-					 <li><strong>Java 11 Specific defects</strong>
+					<li>
+						<!-- JAL-797 -->Closing tree windows with CMD/CTRL-W for
+						alignments with multiple views can close views unexpectedly
+					</li>
+					<li><strong>Java 11 Specific defects</strong>
             <ul>
               <li>
               <!-- JAL-3235 -->Jalview Properties file is not sorted alphabetically when saved</li>