<!-- 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>
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-3837 -->GPL license info on splash screen and About
+ text
+ </li>
</ul>
<em>Jalview Native App</em>
<ul>
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>
<!-- 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)
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>
<!-- 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>
</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>
<!-- 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>
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>