</head>
<body>
<p>
- <strong>Jalview 2.11 - major and minor new features</strong>
+ <strong>Jalview 2.11.1.3</strong>
</p>
- <p>Jalview 2.11 introduces support for loading VCF files, and new
- filters and shading models for sequence features. Under the hood,
- we've addressed many bugs, and also made some important changes in
- the way the Jalview desktop is installed and launched.</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><em>VCF Support</em>. Proteins and genomic contigs with
- chromosomal location annotation (such as protein coding genes
- retrieved from Ensembl) can be annotated with variants imported
- from a local VCF file.</li>
- <li><em>The Jalview Launcher and Update System</em><br />
- Jalview's new installation model means you'll only need to
- download and install Jalview once. After installation, Jalview
- will automatically keep itself up to date. The launcher also sets
- Jalview's memory automatically, so you'll never again have to
- manually configure Java's memory settings.<br />We are grateful to
- Install4J who provided us with a free license for their
- installation system, and Jalview's over the air update system is
- via Getdown.</li>
+ <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>
- The full list of bugs fixed in this release can be found in the <a
- href="releases.html#Jalview.2.11.0">2.11 Release Notes</a>.
+ For the full release notes, see <a
+ href="releases.html#Jalview.2.11.1.3">the Jalview 2.11.1.3
+ release notes</a>.
</p>
<p>
- <strong>Jalview and Java 11, 13, and onwards</strong>
+ <strong>Known Issues</strong>
</p>
- <p>Java 11 provides improved performance and better OS
- integration, so we now recommend users select our Java 11 Jalview
- distribution rather than the legacy Java 8 build.</p>
- <em>Known Issues - update for 211 </em>
<ul>
- <li>OSX: The 'Open File' dialog for Jalview's Groovy Console
- appears with the title 'Save As', and attempting to select a file
- to load yields a FileNotFound exception.</br>The workaround is to first
- clear the 'Untitled' filename before selecting the file you wish
- to load.
- </li>
- <li>OSX: Links don't open when clicked on or via the Sequence
- or Alignment window popup menu.</li>
- <li>OSX (Webstart): Jalview only displays old news feed items</li>
+ <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>
</ul>
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git://source.jalview.org / jalview.git / blobdiff