X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhelp%2Fhtml%2FwhatsNew.html;h=bee83800ed3b864e674571b340fc0957b949793e;hb=6875edc608179e9710388439099542296f263c15;hp=2e18baead82803c0cd8425b372300b8842e87c10;hpb=05add34141e2161ee8174074de42d56e8afac9b7;p=jalview.git diff --git a/help/help/html/whatsNew.html b/help/help/html/whatsNew.html index 2e18bae..bee8380 100755 --- a/help/help/html/whatsNew.html +++ b/help/help/html/whatsNew.html @@ -24,47 +24,24 @@

- Jalview 2.11.1.1 + Jalview 2.11.1.3

Jalview 2.11.1.1 is the first patch release for Jalview version - 2.11.1. In addition to fixes for some critical bugs, it also - contains a handful of new features suggested by the Jalview - community.

Jalview 2.11.1.3 is the third patch release in the 2.11.1 + series. Critical bugs resolved in this release include:

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
Find doesn't highlight all motif matches for a sequence.
Mouse over highlighting, CDS reconstruction and problems + with virtual feature popups when working with linked CDS/Protein + alignments.
Result of aligning protein sequences linked to CDS results + in incorrect CDS alignment.
Jalview installer doesn't correctly install Jalview on + paths containing spaces.

- For the full release notes, see the - Jalview 2.11.1.1 release notes. + For the full release notes, see the Jalview 2.11.1.3 + release notes.

Known Issues @@ -79,7 +56,7 @@ 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

+ quadrant of the alignment window.