<tr>
<td width="60" nowrap>
<div align="center">
- <strong><a name="Jalview.2.9.0b2">2.10.0b1</a><br />
- <em>18/10/2016</em></strong>
+ <strong><a name="Jalview.2.10.1">2.10.1</a><br />
+ <em>22/11/2016</em></strong>
+ </div>
+ </td>
+ <td><div align="left">
+ <em>General</em>
+ <ul>
+ <li><!-- JAL-98 -->Improved memory usage: sparse arrays used for all consensus calculations</li>
+ <li><!-- JAL- --></li>
+ </ul>
+ <em>Application</em>
+ <ul>
+ <li><!-- JAL-1723 -->Sequence ID tool tips have been tamed (databases sorted alphabetically, abridged ID sets) </li>
+ <li><!-- JAL-2282-->New replacement token for creating URLs <em>just</em> from database cross references. Users with custom links will receive a warning dialog asking them to update their preferences.</li>
+ <li><!-- JAL-2287-->Cancel button and escape listener on dialog warning user about disconnecting Jalview from a Chimera session</li>
+ <li><!-- JAL-2281-->Custom URL links for database cross-references are matched to database name regardless of case</li>
+ <li></li>
+
+
+ </ul>
+ <em>Applet</em>
+ <ul>
+ </ul>
+ <em>Build and deployment</em>
+ <ul>
+ <li></li>
+ </ul>
+ </div>
+ </td>
+ <td>
+ <div align="left">
+ <em>General</em>
+ <ul>
+ <li><!-- JAL-2286 -->Columns with more than one modal residue are not coloured or thresholded according to percent identity (first observed in Jalview 2.8.2)</li>
+ <li><!-- JAL-2301 -->Threonine incorrectly reported as not hydrophobic</li>
+ <li><!-- JAL-2318 -->Updates to documentation pages (above PID threshold, amino acid properties)</li>
+ <li><!-- JAL-2292 -->Lower case residues in sequences are not reported as mapped to residues in a structure file in the View Mapping report</li>
+ </ul>
+ <em>Application</em>
+ <ul>
+ <li><!-- JAL-2282-->Custom URL links for specific database names without regular expressions also offer invalid links from Sequence ID</li>
+ <li><!-- JAL-2315-->Removing a single configured link in the URL links pane in Connections preferences doesn't actually update Jalview configuration</li>
+ <li><!-- JAL-2272-->CTRL-Click on a selected region to open the alignment area popup menu doesn't work on El-Capitan</li>
+ <li><!-- JAL-2280 -->Jalview doesn't offer to associate mmCIF files with similarly named sequences if dropped onto the alignment</li>
+ <li><!-- JAL-2312 -->Additional mappings are shown for PDB entries where more chains exist in the PDB accession than are reported in the SIFTS file</li>
+ <li><!-- JAL-2317-->Certain structures do not get mapped to the structure view when displayed with Chimera</li>
+ <li><!-- JAL-2317-->No chains shown in the Chimera view panel's View->Show Chains submenu</li>
+
+ <li><!-- --></li>
+ <li><!-- --></li>
+ </ul>
+ <em>Applet</em>
+ <ul>
+ </ul>
+ <em>Build and deployment</em>
+ <ul>
+ <li><!-- JAL-2308, -->Failing/passing unit tests</li>
+ </ul>
+ <em>New Known Issues</em>
+ <ul>
+ <li></li>
+ </ul>
+ </div>
+ </td>
+ </tr>
+ <td width="60" nowrap>
+ <div align="center">
+ <strong><a name="Jalview.2.10.0b1">2.10.0b1</a><br />
+ <em>25/10/2016</em></strong>
</div>
</td>
<td><em>Application</em>
<ul>
+ <li>3D Structure chooser opens with 'Cached structures'
+ view if structures already loaded</li>
+ <li>Progress bar reports models as they are loaded to
+ structure views</li>
</ul></td>
<td>
<div align="left">
+ <em>General</em>
+ <ul>
+ <li>Colour by conservation always enabled and no tick
+ shown in menu when BLOSUM or PID shading applied</li>
+ <li>FER1_ARATH and FER2_ARATH labels were switched in
+ example sequences/projects/trees</li>
+ </ul>
<em>Application</em>
<ul>
+ <li>Jalview projects with views of local PDB structure
+ files saved on Windows cannot be opened on OSX</li>
+ <li>Multiple structure views can be opened and
+ superposed without timeout for structures with multiple
+ models or multiple sequences in alignment</li>
+ <li>Cannot import or associated local PDB files without
+ a PDB ID HEADER line</li>
+ <li>RMSD is not output in Jmol console when
+ superposition is performed</li>
+ <li>Drag and drop of URL from Browser fails for Linux
+ and OSX versions earlier than El Capitan</li>
+ <li>ENA client ignores invalid content from ENA server</li>
+ <li>Exceptions are not raised in console when ENA
+ client attempts to fetch non-existent IDs via Fetch DB
+ Refs UI option</li>
+ <li>Exceptions are not raised in console when a new
+ view is created on the alignment</li>
+ <li>OSX right-click fixed for group selections:
+ CMD-click to insert/remove gaps in groups and CTRL-click
+ to open group pop-up menu</li>
+ </ul>
+ <em>Build and deployment</em>
+ <ul>
+ <li>URL link checker now copes with multi-line anchor
+ tags</li>
+ </ul>
+ <em>New Known Issues</em>
+ <ul>
+ <li>Drag and drop from URL links in browsers do not
+ work on Windows</li>
</ul>
</div>
</td>
<!-- JAL-1306 -->Quality and Conservation are now shown on
load even when Consensus calculation is disabled
</li>
+ <li>
+ <!-- JAL-1932 -->Remove right on penultimate column of
+ alignment does nothing
+ </li>
</ul>
<em>Application</em>
<ul>
<!-- JAL-1887 -->Incorrect start and end reported for PDB
to sequence mapping in 'View Mappings' report
</li>
+ <li>
+ <!-- JAL-2284 -->Unable to read old Jalview projects that
+ contain non-XML data added after Jalvew wrote project.
+ </li>
+ <li><!-- JAL-2118 -->Newly created annotation row reorders
+ after clicking on it to create new annotation for a
+ column.
+ </li>
<!-- may exclude, this is an external service stability issue JAL-1941
-- > RNA 3D structure not added via DSSR service</li> -->
</ul>
</ul> <em>Applet</em>
<ul>
<li>Split frame example added to applet examples page</li>
+ </ul><em>Build and Deployment</em>
+ <ul>
+ <li><!-- JAL-1888 -->New ant target for running Jalview's test suite</li>
</ul></td>
<td>
<div align="left">
git://source.jalview.org / jalview.git / blobdiff