+
<html>
<!--
* Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
<th><em>New Features</em></th>
<th><em>Issues Resolved</em></th>
</tr>
- <td width="60" align="center" nowrap><strong><a
- id="Jalview.2.11.1">2.11.1</a><a id="Jalview.2.11.1.4">.4</a><br />
- <em>08/02/2021</em></strong></td>
- <td align="left" valign="top"><em>Improved control of
- Jalview's use of network services</em>
- <ul>
- <li>
- <!-- JAL-3814 -->New .jalview_properties token controlling
- launch of the news browser (like -nonews argument)
- </li>
- <li>
- <!-- JAL-3813 -->New .jalview_properties token controlling
- download of linkout URLs from
- www.jalview.org/services/identifiers
- </li>
- <li>
- <!-- JAL-3812 -->New .jalview_properties token controlling
- download of BIOJSHTML templates
- </li>
- <li>
- <!-- JAL-3811 -->New 'Discover Web Services' option to trigger
- a one off JABAWS discovery if autodiscovery was disabled
- </li>
- </ul></td>
- <td align="left" valign="top">
- <ul>
- <li></li>
- </ul>
- </td>
+ <tr>
+ <td width="60" align="center" nowrap><strong><a
+ id="Jalview.2.11.1">2.11.1</a><a id="Jalview.2.11.1.5">.5</a><br />
+ <em>22/06/2021</em></strong></td>
+ <td align="left" valign="top"><em>Development</em>
+ <ul>
+ <li>Updated building instructions</li>
+ </ul></td>
+ <td>
+ <ul>
+ <li>
+ <!-- JAL-3840 -->Occupancy calculation is incorrect for
+ alignment columns with over -1+2^32 gaps (breaking filtering
+ and display)
+ </li>
+ <li>
+ <!-- JAL-3833 -->Caps on Hi-DPI scaling to prevent crazy
+ scale factors being set with buggy window-managers (linux
+ only)
+ </li>
+ </ul> <em>Development</em>
+ <ul>
+ <li>Fixed non-fatal gradle errors during build</li>
+ </ul>
+ </td>
+ </tr>
+ <tr>
+ <td width="60" align="center" nowrap><strong><a
+ id="Jalview.2.11.1">2.11.1</a><a id="Jalview.2.11.1.4">.4</a><br />
+ <em>09/03/2021</em></strong></td>
+ <td align="left" valign="top"><em>Improved control of
+ Jalview's use of network services via jalview_properties</em>
+ <ul>
+ <li>
+ <!-- JAL-3814 -->New .jalview_properties token controlling
+ launch of the news browser (like -nonews argument)
+ </li>
+ <li>
+ <!-- JAL-3813 -->New .jalview_properties token controlling
+ download of linkout URLs from
+ www.jalview.org/services/identifiers
+ </li>
+ <li>
+ <!-- JAL-3812 -->New .jalview_properties token controlling
+ download of BIOJSHTML templates
+ </li>
+ <li>
+ <!-- JAL-3811 -->New 'Discover Web Services' option to
+ trigger a one off JABAWS discovery if autodiscovery was
+ disabled
+ </li>
+ </ul></td>
+ <td align="left" valign="top">
+ <ul>
+ <li>
+ <!-- JAL-3818 -->Intermittent deadlock opening structure in
+ Jmol
+ </li>
+ </ul> <em>New Known defects</em>
+ <ul>
+ <li>
+ <!-- JAL-3705 -->Protein Cross-Refs for Gene Sequence not
+ always restored from project (since 2.10.3)
+ </li>
+ <li>
+ <!-- JAL-3806 -->Selections from tree built from CDS aren't
+ propagated to Protein alignment (since 2.11.1.3)
+ </li>
+ </ul>
+ </td>
</tr>
<tr>
<td width="60" align="center" nowrap><strong><a
</head>
<body>
<p>
- <strong>Jalview 2.11.1.3</strong>
+ Welcome to Jalview Version $$Version-Rel$$ !!<br />Please take a
+ look at the <a href="releases.html#$$Version-Rel$$">release
+ notes</a> for this build.
+ </p>
+ <p>
+ <strong>Jalview 2.11.1.4</strong>
+ </p>
+ <p>Jalview 2.11.1.4 is the fourth patch release in the 2.11.1
+ series. One critical bug was fixed in this release - when Jalview
+ would occasionally hang when viewing structures in Jmol. This release
+ also introduces a number of new configuration options for disabling
+ web service connections used by the Jalview Debian package.
</p>
- <p>Jalview 2.11.1.3 is the third patch release in the 2.11.1
- series. Critical bugs resolved in this release include:</p>
- <ul>
- <li>Find doesn't highlight all motif matches for a sequence.</li>
- <li>Mouse over highlighting, CDS reconstruction and problems
- with virtual feature popups when working with linked CDS/Protein
- alignments.</li>
- <li>Result of aligning protein sequences linked to CDS results
- in incorrect CDS alignment.</li>
- <li>Jalview installer doesn't correctly install Jalview on
- paths containing spaces.</li>
- </ul>
<p>
For the full release notes, see <a
- href="releases.html#Jalview.2.11.1.3">the Jalview 2.11.1.3
+ href="releases.html#Jalview.2.11.1.4">the Jalview 2.11.1.4
release notes</a>.
</p>
<p>
<strong>Known Issues</strong>
</p>
- <ul>
- <li>We've had reports from a small number of windows 10 users
- who see a warning dialog pop up when Jalview tries to save a new
- version of an existing file. If you are affected by this bug and
- this latest version of Jalview doesn't fix it, please let us know!</li>
- <li>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>Drag and drop of alignment file onto alignment window when
- in a HiDPI scaled mode in Linux only works for the top left
- quadrant of the alignment window.</li>
+ <p>New known issues in this release affect recovery of CDS/Protein
+ relationships from project files, and interactive selection of
+ protein sequences from a tree built on linked nucleotide sequences.
+ We will provide patches for these issues as soon as possible.</p>
</ul>
</body>
</html>
git://source.jalview.org / jalview.git / commitdiff