<tr>
<td width="60" align="center" nowrap><strong><a
id="Jalview.2.11.1">2.11.1</a><a id="Jalview.2.11.1.1">.1</a><br />
- <em>13/07/2020</em></strong></td>
+ <em>11/08/2020</em></strong></td>
<td align="left" valign="top">
<ul>
<!-- -->
ENA Browser (https://www.ebi.ac.uk/ena/browser/home) and
EMBL flat file
</li>
+ <li>
+ <!-- JAL-3667 -->Improved warning messages, debug logging
+ and fixed Retry action when Jalview encounters errors when
+ saving or making backup files.
+ </li>
+ <li>
+ <!-- JAL-3676 -->Enhanced Jalview Java Console:
+ <ul>
+ <li>Jalview's logging level can be configured</li>
+ <li>Copy to Clipboard Buttion</li>
+ </ul>
+ </li>
+ <li>
+ <!-- JAL-3541 -->Improved support for Hi-DPI (4K) screens
+ when running on Linux (Requires Java 11+)
+ </li>
</ul> <em>Launching Jalview</em>
<ul>
<li>
<!-- JAL-3608 -->Configure Jalview Desktop's look and feel
through a system property
</li>
+ <li>
+ <!-- JAL-3477 -->Improved built-in documentation and command
+ line help for configuring Jalview's memory
+ </li>
</ul>
</td>
<td align="left" valign="top">
<ul>
<li>
+ <!-- JAL-3691 -->Conservation and Quality tracks are shown
+ but not calculated and no protein or DNA score models are
+ available for tree/PCA calculation when launched with
+ Turkish language locale
+ </li>
+ <li>
<!-- JAL-3493 -->Escape does not clear highlights on the
alignment (Since Jalview 2.10.3)
</li>
<li>
<!-- JAL-3680 -->Alt+Left or Right arrow in cursor mode
- doesn't slide selected sequences
+ doesn't slide selected sequences, just sequence under cursor
</li>
<li>
<!-- JAL-3613 -->Peptide-to-CDS tracking broken when
to the position under the cursor
</li>
<li>
+ <!-- JAL-3673 -->Sequence ID for reference sequence is
+ clipped when Right align Sequence IDs enabled
+ </li>
+ <li>
<!-- JAL-2983 -->Slider with negative range values not
rendered correctly in VAqua4 (Since 2.10.4)
</li>
- </ul>
- <em>New Known defects</em>
+ <li>
+ <!-- JAL-3685 -->Single quotes not displayed correctly in
+ internationalised text for some messages and log output
+ </li>
+ <li>
+ <!-- JAL-3490 -->Find doesn't report matches that span
+ hidden gapped columns
+ </li>
+ <li>
+ <!-- JAL-3597 -->Resolved memory leaks in Tree and PCA
+ panels, Alignment viewport and annotation renderer.
+ </li>
+ <li>
+ <!-- JAL-3561 -->Jalview ignores file format parameter
+ specifying output format when exporting an alignment via the
+ command line
+ </li>
+ </ul> <em>Developing Jalview</em>
+ <ul>
+ <li>
+ <!-- JAL-3541 -->Fixed issue with cleaning up old coverage
+ data, causing cloverReport gradle task to fail with an
+ OutOfMemory error.
+ </li>
+ </ul> <em>New Known defects</em>
<ul>
- <li><!-- JAL-3701 -->Stale build data in jalview standalone jar builds (only affects 2.11.1.1 branch)
+ <li>
+ <!-- JAL-3576 -->Co-located features exported and re-imported
+ are ordered differently when shown on alignment and in
+ tooltips. (Also affects v2.11.1.0)
+ </li>
+ <li>
+ <!-- JAL-3667 -->Windows 10: For a minority of users, if
+ backups are not enabled, Jalview sometimes fails to
+ overwrite an existing file and raises a warning dialog.
+ Workaround is to try to save the file again, and if that
+ fails, delete the original file and save in place.
+ </li>
+ <li>
+ <!-- JAL-3702 -->Drag and drop of alignment file onto
+ alignment window not working correctly when in a HiDPI
+ scaled mode in Linux
+ </li>
+ <li>
+ <!-- JAL-3701 -->Stale build data in jalview standalone jar
+ builds (only affects 2.11.1.1 branch)
+ </li>
+ <li>
+ <!-- JAL-3127 -->Sequence ID colourscheme not re-applied
+ when alignment view restored from project (since Jalview 2.11.0)
</li>
</ul>
</td>