</tr>
<tr>
<td width="60" align="center" nowrap>
- <strong><a name="Jalview.2.11">2.11</a><br />
- <em>20/06/2019</em></strong>
+ <strong><a name="Jalview.2.11.0">2.11.0</a><br />
+ <em>27/06/2019</em></strong>
</td>
<td align="left" valign="top">
<ul>
<ul>
<li>
<!-- JAL-3140 JAL-2446 -->IntervalStoreJ (NCList
- implementation that alows updates) used for Sequence Feature collections</li>
+ implementation that allows updates) used for Sequence Feature collections</li>
<li>
<li>
<!-- JAL-2808,JAL-2069 -->Sequence features can be filtered and
column 9 of GFF file)
</li>
<li>
+ <!-- JAL-3334 -->Use full Sequence Ontology (via BioJava) to
+ recognise variant features
+ </li>
+ <li>
<!-- JAL-2897 -->Show synonymous codon variants on peptide
sequences
</li>
<!-- JAL-1767,JAL-2647 -->Principal Components Analysis results
and Viewer state saved in Jalview Project
</li>
- <li>'Change parameters' option removed from viewer's
+ <li><!-- JAL-2962 -->'Change parameters' option removed from viewer's
drop-down menus</li>
<li>
<!-- JAL-2975 -->Can use shift + arrow keys to rotate PCA image
<!-- JAL-3003 -->Added remarks about transparent rendering effects
not supported in EPS figure export
</li>
+ <li><!-- JAL-2903 -->Typos in documentation for Preferences dialog</li>
</ul> <em>Development and Release Processes</em>
<ul>
<li>
score from view
</li>
<li>
+ <!-- JAL-3330 -->Sequence Variants retrieved from Ensembl during
+ show cross references or Fetch Database References are shown in
+ red in original view
+ </li>
+ <li>
+ <!-- JAL-2898 -->stop_gained variants not shown correctly on
+ peptide sequence
+ </li>
+ <li>
<!-- JAL-2060 -->'Graduated colour' option not offered for
manually created features (where if feature score is Float.NaN)
</li>
shown in complementary view
</li>
<li>
- <!-- JAL-2898 -->stop_gained variants not shown correctly on
- peptide sequence
- </li>
- <li>
<!-- JAL-3313 -->Codon consensus incorrectly scaled when shown
without normalisation
</li>
<!-- JAL-868 -->Structure colours not updated when associated tree
repartitions the alignment view (Regression in 2.10.5)
</li>
-
</ul>
- <em>New Known Defects</em>
+ <em>Datamodel</em>
+ <ul>
+ <li>
+ <!-- JAL-2986 -->Sequence.findIndex returns wrong value when
+ sequence's End is greater than its length
+ </li>
+ </ul> <em>New Known Defects</em>
<ul>
<li>
<!-- JAL-3313 -->Codon consensus logo incorrectly scaled in gapped