JAL-1812 JAL-1868 release notes

[jalview.git] / help / html / releases.html

diff --git a/help/html/releases.html b/help/html/releases.html
index 2c8bb3b..475a8da 100755 (executable)
--- a/help/html/releases.html
+++ b/help/html/releases.html
@@ -55,6 +55,8 @@
             <li><!-- JAL-2164,JAL-1919,-->Jmol now primary parser for importing structure data to Jalview. Enables mmCIF and better PDB parsing.</li>
             <li><!-- JAL-192 --->Alignment ruler shows positions relative to reference sequence</li>
             <li><!-- JAL-2202 -->Position/residue shown in status bar when mousing over sequence associated annotation</li>
+            <li><!-- JAL-2171 -->Default RNA SS symbol to 'matching bracket' for manual entry</li>
+            <li><!-- JAL-2214 -->RNA Structure consensus indicates wc-only '()', canonical '[]' and invalid '{}' base pair populations for each column</li>
         </ul> <em>Application</em>
         <ul>
             <li><!-- JAL---></li>
@@ -67,8 +69,10 @@
             <li><!-- JAL-2123 -->Show residue labels in Chimera when mousing over sequences in Jalview</li>
             <li><!-- JAL-2027-->Support for reverse-complement coding regions in ENA and EMBL</li>
             <li><!-- JAL-1855, JAL-2113, JAL-2114-->Upgrade to EMBL XML 1.2 for ENA record retrieval</li>
-            <li><!--  JAL 1812 -->New 'execute Groovy script' option in an alignment window's Calculate menu</li>
-            <li><!--  JAL 1812 -->Allow groovy scripts that call Jalview.getAlignFrames() to run in headless mode</li>
+            <li><!-- JAL-2027 -->Support for ENA CDS records with reverse complement operator</li>
+            <li><!--  JAL-1812 -->New 'execute Groovy script' option in an alignment window's Calculate menu</li>
+            <li><!--  JAL-1812 -->Allow groovy scripts that call Jalview.getAlignFrames() to run in headless mode</li>
+            <li><!--  JAL-2068 -->Support for creating new alignment calculation workers from groovy scripts</li>
             <li><!-- JAL-1369 --->Store/restore reference sequence in Jalview projects</li>
             <li><!-- JAL-1803-->Chain codes for a sequence's PDB associations are now saved/restored from project</li>
             <li><!-- JAL-2183-->Double click on an entry in Jalview's database chooser opens a sequence fetcher</li>
@@ -94,6 +98,10 @@
             <li><!--  JAL-2086  -->Cannot insert gaps into sequence when set as reference</li>
             <li><!-- JAL-2146 -->Alignment column in status incorrectly shown as &quot;Sequence position&quot; when mousing over annotation</li>
             <li><!--  JAL-2099 -->Incorrect column numbers in ruler when hidden columns present</li>
+            <li><!--  JAL-1577 -->Colour by RNA Helices not enabled when user created annotation added to alignment</li>
+            <li><!-- JAL-1841 -->RNA Structure consensus only computed for '()' base pair annotation</li>
+            <li><!-- JAL-2215, JAL-1841 -->Enabling 'Ignore Gaps' results in zero scores for all base pairs in RNA Structure Consensus</li>
+            
             
           </ul>
           <em>Application</em>
@@ -108,7 +116,7 @@
             <li><!--  JAL-1989  -->Hide columns not mirrored in complement view in a cDNA/Protein splitframe</li>
             <li><!--  JAL-1369 -->Cannot save/restore representative sequence from project when only one sequence is represented</li>
             <li><!-- JAL-2002 -->Disabled 'Best Uniprot Coverage' option in Structure Chooser</li>
-            
+            <li><!-- JAL-2215 -->Modifying 'Ignore Gaps' on consensus or structure consensus didn't refresh annotation panel</li>            
             <!--  may exclude, this is an external service stability issue  JAL-1941 /> RNA 3D structure not added via DSSR service</li> -->
           </ul>
           <em>Applet</em>