JAL-3746 JAL-3103 java.awt.Desktop.showURL method mechanism release notes

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

diff --git a/help/help/html/releases.html b/help/help/html/releases.html
index a7b2868..b884f49 100755 (executable)
--- a/help/help/html/releases.html
+++ b/help/help/html/releases.html
@@ -100,6 +100,16 @@ li:before {
             <!-- JAL-3863 -->Support for Canonical Uniprot IDs
           </li>
           <li>
+            <!-- JAL-3881 -->Sequence IDs split on '_' as well as other
+            non-alphanumerics when discovering database references with
+            'Fetch DB Refs'
+          </li>
+          <li>
+            <!-- JAL-3884 -->Suppressed harmless exceptions output to
+            Console whilst discovering database references for a
+            sequence
+          </li>
+          <li>
             <!-- JAL-3204 -->Updated Jalview bindings for Uniprot XML
             schema
           </li>
@@ -108,15 +118,62 @@ li:before {
             disabled by default
           </li>
           <li>
-            <!-- JAL-3530 -->-nowebservicediscovery command line argument to
-            prevent automatic discovery of analysis webservices on
-            launch
+            <!-- JAL-3530 -->-nowebservicediscovery command line
+            argument to prevent automatic discovery of analysis
+            webservices on launch
+          </li>
+          <li>
+            <!-- JAL-3618 -->Allow 'App' directories to be opened when
+            locating Chimera, ChimeraX or Pymol binaries via filechooser
+            opened by double clicking the Structure Preferences' path
+            textbox
+          </li>
+          <li>
+            <!-- JAL-3632 JAL-3633 -->support for HTTP/S access via
+            proxies that require authentication
+          </li>
+          <li>
+            <!-- JAL-3103 -->New mechanism for opening URLs with system
+            default browser (works on OSX and Linux as well as Windows)
+          </li>
+          <li>
+            <!-- JAL-3837 -->GPL license info on splash screen and About
+            text
+          </li>
+        </ul>
+        <em>Jalview Native App</em>
+        <ul>
+          <li>
+            <!-- JAL- -->New Jalview Develop app - making it even easier
+            to get at Jalview's development builds
+          </li>
+          <li>
+            <!-- JAL-3594 -->New splashscreens for Jalview, Jalview Test
+            and Jalview Develop applications.
           </li>
           <li>
             <!-- JAL-3728 -->Jalview logos shown for Jalview Java
             Console and other window widgets in taskbar and dock rather
             than anonymous 'Java' icons
           </li>
+          <li>
+            <!-- JAL-3608 -->Options to allow user to choose the (Swing) Look and Feel (LaF) used by Jalview
+          </li>
+          <li>
+            <!-- JAL-3552, JAL-3609 -->Metal LaF used to improved operation on Linux Ubuntu with
+            HiDPI display in Java 11 (still known issues with HiDPI screens in java
+            8 and 11. see <a
+            href="https://issues.jalview.org/browse/JAL-3137">JAL-3137</a>)
+          </li>
+          <li>
+            <!-- JAL-3830 -->New command line launcher scripts (.sh, .ps1, .bat) usable on
+            macOS, Linux/Unix, Windows and documentation in Help.  Installer wizard has option
+            to add this to PATH, or link to it in your PATH.
+          </li>
+          <li>
+            <!-- JAL-3633 -->Getdown launcher inherits HTTP/S proxy
+            configuration from jalview_properties
+          </li>
         </ul> <em>JalviewJS</em>
         <ul>
           <li>
@@ -127,12 +184,6 @@ li:before {
             <!-- JAL-3208 -->setprop commandline argument reinstated for JalviewJS only 
           </li>
           <li>
-            <!-- JAL- -->
-          </li>
-          <li>
-            <!-- JAL- -->
-          </li>
-          <li>
             <!-- JAL-3163 -->Missing message bundle keys are only
             reported once per key (avoids excessive log output in js
             console)
@@ -166,6 +217,10 @@ li:before {
             installation with a customizedId of "JALVIEW" in install4j's
             Jalview Launcher
           </li>
+          <li>
+            <!-- JAL-3907 -->Improved compatibility of Jalview build
+            with Java 17 (next LTS target)
+          </li>
 
         </ul>
 
@@ -223,6 +278,10 @@ li:before {
             <!-- JAL-3275 -->Can open multiple Preferences panels
           </li>
           <li>
+            <!-- JAL-3633 -->Properly configure HTTPS proxy settings
+            from Preferences
+          </li>
+          <li>
             <!-- JAL-3949 -->Standard out logging broken: messages only
             routing to stderr and appear as a raw template
           </li>
@@ -268,6 +327,14 @@ li:before {
           </li>
 
         </ul>
+        <em>Known Issues</em>
+        <ul>
+          <li>
+            <!-- JAL-3764 -->Display of RESNUM sequence features are not
+            suppressed when structures associated with a sequence are
+            viewed with an external viewer (Regression from 2.11.1 series)
+          </li>
+        </ul>
       </td>
     </tr>
     <tr>
@@ -510,6 +577,12 @@ li:before {
             <!-- JAL-3541 -->Improved support for Hi-DPI (4K) screens
             when running on Linux (Requires Java 11+)
           </li>
+          <li>
+            <!-- JAL-1842 JAL-3509 -->RESNUM sequence features (the
+            green ones) are not automatically displayed when associated
+            structures are displayed or for sequences retrieved from the
+            PDB.
+          </li>
         </ul> <em>Launching Jalview</em>
         <ul>
           <li>
@@ -590,6 +663,11 @@ li:before {
             save in place.)
           </li>
           <li>
+            <!-- JAL-3509 -->Dragging a PDB file onto an alignment with
+            sequence features displayed causes displayed features to be
+            hidden.
+          </li>
+          <li>
             <!-- JAL-3750 -->Cannot process alignments from HTTPS urls
             via command line
           </li>