Dear Jalview Developers !
We are pleased to announce that Jalview 2.11.1.1, the first patch
release in the 2.11.1 series, is now available as an over the air
update. You can also download standalone jars and the source for the new
release via https://www.jalview.org/download
This patch release includes fixes for critical bugs, and also brings
some new features suggested by the Jalview community.
* Shift+arrow keys navigate to next gap or residue in cursor mode
(enable with F2)
* Support import of VCF 4.3 by updating HTSJDK from 2.12 to 2.23
* Improved recognition of GZipped files from local disk or retrieved via
the web
* EMBL and EMBL CDS database records retrieved from the European
Nucleotide Archive's Data API as 'EMBL Flatfile' records
* Improved Java Console and logging to help track down problems
* Improved support for Hi-DPI (4K) screens when running on Linux
(Requires Java 11+)
Critical bug fixes include
* Jalview runs correctly when launched with Turkish language settings
* Peptide-to-CDS tracking broken when multiple EMBL gene products shown
for a single contig (such as viral genomes)
* Errors encountered when processing variants from VCF files yield
"Error processing VCF: Format specifier '%s'" on the console
* Count of features not shown can be wrong when there are both DNA and
Protein features mapped to the position under the cursor
* Sequence ID for reference sequence is clipped when Right align
Sequence IDs enabled
* Find doesn't report matches that span hidden gapped columns
* Jalview ignores file format parameter specifying output format when
exporting an alignment via the command line
See the full release notes at:
https://www.jalview.org/development/release-history/Jalview-21111
Happy Jalviewing!
Jim, Ben, Mungo, Suzanne and Geoff.
--
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Dr JB Procter, Jalview Coordinator, The Barton Group
Division of Computational Biology, School of Life Sciences
University of Dundee, Dundee DD1 5EH, UK.
+44 1382 388734 | www.jalview.org | www.compbio.dundee.ac.uk
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