<tr>
<td width="60" nowrap>
<div align="center">
+ <strong><a name="Jalview.2.10.3">2.10.3</a><br />
+ <em>14/11/2017</em></strong>
+ </div>
+ </td>
+ <td><div align="left">
+ <em></em>
+ <ul>
+ <li>
+ <!-- JAL-2446 -->Faster and more efficient management and
+ rendering of sequence features
+ </li>
+ <li>
+ <!-- JAL 2523-->More reliable Ensembl fetching with HTTP
+ 429 rate limit request hander
+ </li>
+ <li>
+ <!-- JAL-2773 -->Structure views don't get updated unless
+ their colours have changed
+ </li>
+ <li><!-- JAL-2495 -->All linked sequences are highlighted for a structure mousover (Jmol) or selection (Chimera)</li>
+ <li><!-- JAL-2790 -->'Cancel' button in progress bar for JABAWS AACon, RNAAliFold and Disorder prediction jobs
+ </li>
+
+ <li><!-- JAL-2617 -->Stop codons are excluded in CDS/Protein view from Ensembl locus cross-references</li>
+ <li><!-- JAL-2685 -->Start/End limits are shown in Pairwise Alignment report</li>
+ </ul>
+ <ul><li>Example groovy script for generating a matrix of percent identity scores for current alignment.</li></ul>
+ <em>Testing and Deployment</em>
+ <ul><li><!-- JAL-2727 -->Test to catch memory leaks in Jalview UI</li></ul>
+ </div>
+ </td>
+ <td><div align="left">
+ <em>General</em>
+ <ul>
+ <li><!-- JAL-2643 -->Pressing tab after updating the colour threshold text field doesn't trigger an update to the alignment view</li>
+ <li><!-- JAL-2682 -->Race condition when parsing sequence ID strings in parallel</li>
+ <li><!-- JAL-2608 -->Overview windows are also closed when alignment window is closed</li>
+ <li><!-- JAL-2548 -->Export of features doesn't always respect group visibility</li>
+ </ul>
+ <em>Desktop</em>
+ <ul>
+ <li><!-- JAL-2777 -->Structures with whitespace chainCode cannot be viewed in Chimera</li>
+ <li><!-- JAL-2728 -->Protein annotation panel too high in CDS/Protein view
+ </li>
+ <li><!-- JAL-2757 -->Can't edit the query after the server error warning icon is shown in Uniprot and PDB Free Text Search Dialogs
+ </li>
+ <li><!-- JAL-2253 -->Slow EnsemblGenome ID lookup</li>
+ <li><!-- JAL-2529 -->Revised Ensembl REST API CDNA query</li>
+ <li><!-- JAL-2739 -->Hidden column marker in last column not rendered when switching back from Wrapped to normal view</li>
+ <li><!-- JAL-2768 -->Annotation display corrupted when scrolling right in unwapped alignment view</li>
+ <li><!-- JAL-2542 -->Existing features on subsequence incorrectly relocated when full sequence retrieved from database</li>
+ <li><!-- JAL-2733 -->Last reported memory still shown when Desktop->Show Memory is unticked (OSX only)</li>
+ <li><!-- JAL-2658 -->Amend Features dialog doesn't allow features of same type and group to be selected for amending</li>
+ <li><!-- JAL-2524 -->Jalview becomes sluggish in wide alignments when hidden columns are present</li>
+ <li><!-- JAL-2392 -->Jalview freezes when loading and displaying several structures</li>
+ <li><!-- JAL-2732 -->Black outlines left after resizing or moving a window</li>
+ <li><!-- JAL-1900,JAL-1625 -->Unable to minimise windows within the Jalview desktop on OSX</li>
+ <li><!-- JAL-2667 -->Mouse wheel doesn't scroll vertically when in wrapped alignment mode</li>
+ <li><!-- JAL-2636 -->Scale mark not shown when close to right hand end of alignment</li>
+ <li><!-- JAL-2684 -->Pairwise alignment only aligns selected regions of each selected sequence</li>
+ <li><!-- JAL-2973 -->Alignment ruler height set incorrectly after canceling the Alignment Window's Font dialog</li>
+ <li><!-- JAL-2036 -->Show cross-references not enabled after restoring project until a new view is created</li>
+ <li><!-- JAL-2756 -->Warning popup about use of SEQUENCE_ID in URL links appears when only default EMBL-EBI link is configured (since 2.10.2b2)</li>
+ <li><!-- JAL-2775 -->Overview redraws whole window when box position is adjusted</li>
+ </ul>
+ <strong><em>Applet</em></strong><br/>
+ <ul>
+ <li><!-- JAL-2687 -->Concurrent modification exception when closing alignment panel</li>
+ </ul>
+ <strong><em>BioJSON</em></strong><br/>
+ <ul>
+ <li>
+ <!-- JAL-2546 -->BioJSON export does not preserve non-positional features
+ </li>
+ </ul>
+ </div>
+ </td>
+ </tr>
+ <tr>
+ <td width="60" nowrap>
+ <div align="center">
+ <strong><a name="Jalview.2.10.2b2">2.10.2b2</a><br />
+ <em>2/10/2017</em></strong>
+ </div>
+ </td>
+ <td><div align="left">
+ <em>New features in Jalview Desktop</em>
+ <ul>
+ <li>
+ <!-- JAL-2748 -->Uniprot Sequence Fetcher now uses web API at uniprot.org
+ </li>
+ <li> <!-- JAL-2745 -->HTTPS used for all connections to ebi.ac.uk
+ </li>
+ </ul>
+ </div></td>
+ <td><div align="left">
+ </div></td>
+ </tr>
+ <tr>
+ <td width="60" nowrap>
+ <div align="center">
<strong><a name="Jalview.2.10.2b1">2.10.2b1</a><br />
- <em>TBA</em></strong>
+ <em>7/9/2017</em></strong>
</div>
</td>
<td><div align="left">
in grey (sequences used to be coloured grey, and gaps were
white)
</li>
- <li><!-- JAL-2588,JAL-2527 -->Overview tab in Jalview Desktop Preferences</li>
+ <li>
+ <!-- JAL-2588,JAL-2527 -->Overview tab in Jalview Desktop
+ Preferences
+ </li>
+ <li>
+ <!-- JAL-2587 -->Overview updates immediately on increase
+ in size and progress bar shown as higher resolution
+ overview is recalculated
+ </li>
+
</ul>
</div></td>
<td><div align="left">
if group has show boxes format setting unticked
</li>
<li>
- <!-- JAL-2672,JAL-2665 -->Redraw problems when autoscrolling whilst
- dragging current selection group to include sequences and
- columns not currently displayed
+ <!-- JAL-2672,JAL-2665 -->Redraw problems when
+ autoscrolling whilst dragging current selection group to
+ include sequences and columns not currently displayed
+ </li>
+ <li>
+ <!-- JAL-2691 -->Not all chains are mapped when multimeric
+ assemblies are imported via CIF file
+ </li>
+ <li>
+ <!-- JAL-2704 -->Gap colour in custom colourscheme is not
+ displayed when threshold or conservation colouring is also
+ enabled.
+ </li>
+ <li>
+ <!-- JAL-2549 -->JABAWS 2.2 services report wrong JABAWS
+ server version
+ </li>
+ <li>
+ <!-- JAL-2673 -->Jalview continues to scroll after
+ dragging a selected region off the visible region of the
+ alignment
+ </li>
+ <li>
+ <!-- JAL-2724 -->Cannot apply annotation based
+ colourscheme to all groups in a view
+ </li>
+ <li>
+ <!-- JAL-2511 -->IDs don't line up with sequences
+ initially after font size change using the Font chooser or
+ middle-mouse zoom
</li>
</ul>
</div></td>
-
+ </tr>
<tr>
<td width="60" nowrap>
<div align="center">
after clicking on it to create new annotation for a
column.
</li>
+ <li>
+ <!-- JAL-1980 -->Null Pointer Exception raised when
+ pressing Add on an orphaned cut'n'paste window.
+ </li>
<!-- may exclude, this is an external service stability issue JAL-1941
-- > RNA 3D structure not added via DSSR service</li> -->
</ul>