X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhelp%2Fhtml%2FwhatsNew.html;h=4c5701269f89d3da1cc9582808be47f6d03cc17b;hb=6b546f7bffb732ae50a927f4c0ad796f4e137e74;hp=a62e71dbfc2c6589d8a0b249d20b2be80101c5d8;hpb=0df0212d23b9c373d042c56213c06bde16b62b1c;p=jalview.git diff --git a/help/help/html/whatsNew.html b/help/help/html/whatsNew.html index a62e71d..4c57012 100755 --- a/help/help/html/whatsNew.html +++ b/help/help/html/whatsNew.html @@ -24,61 +24,26 @@

- Jalview 2.11.1.1 + Jalview 2.11.1.4 +

Jalview 2.11.1.4 is the fourth patch release in the 2.11.1 + series. One critical bug was fixed in this release - when Jalview + would occasionally hang when viewing structures in Jmol. This release + also introduces a number of new configuration options for disabling + web service connections used by the Jalview Debian package.

Jalview 2.11.1.1 is the first patch release for Jalview version - 2.11.1. In addition to fixes for some critical it also contains a - handful of 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

- For the full release notes, see the - Jalview 2.11.1.1 release notes. + For the full release notes, see the Jalview 2.11.1.4 + release notes.

Known Issues

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!
Co-located features exported and re-imported are ordered - differently when shown on alignment and in tooltips. (Also affects - v2.11.1.0)
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

New known issues in this release affect recovery of CDS/Protein + relationships from project files, and interactive selection of + protein sequences from a tree built on linked nucleotide sequences. + We will provide patches for these issues as soon as possible.