- <p>Jalview 2.11.1.2 is the second patch release, fixing a bug
- introduced in last weeks Jalview 2.11.1.1 release affecting display
- of Jalview's example project for some users. Together, these
- releases include fixes for a number of critical bugs, and also contains a
- handful of new features suggested by the Jalview community.</p>
- <ul>
- <li>Shift+arrow keys navigate to next gap or residue in cursor
- mode (enable with F2)</li>
- <li>Support import of VCF 4.3 by updating HTSJDK from 2.12 to
- 2.23</li>
- <li>Improved recognition of GZipped files from local disk or
- retrieved via the web</li>
- <li>EMBL and EMBL CDS database records retrieved from the
- European Nucleotide Archive's Data API as 'EMBL Flatfile' records</li>
- <li>Improved <a href="logging.html">Java Console and
- logging</a> to help track down problems
- </li>
- <li>Improved support for Hi-DPI (4K) screens when running on
- Linux (Requires Java 11+)</li>
- </ul>
- <p>Critical bug fixes include</p>
- <ul>
- <li>Jalview runs correctly when launched with Turkish language
- settings</li>
- <li>Peptide-to-CDS tracking broken when multiple EMBL gene
- products shown for a single contig (such as viral genomes)</li>
- <li>Errors encountered when processing variants from VCF files
- yield "Error processing VCF: Format specifier '%s'" on the console</li>
- <li>Count of features not shown can be wrong when there are
- both DNA and Protein features mapped to the position under
- the cursor</li>
- <li>Sequence ID for reference sequence is clipped when Right
- align Sequence IDs enabled</li>
- <li>Find doesn't report matches that span hidden gapped columns</li>
- <li>Jalview ignores file format parameter specifying output
- format when exporting an alignment via the command line</li>
- </ul>