diff --git a/help/html/whatsNew.html b/help/html/whatsNew.html index 13fe656..3538ff4 100755 --- a/help/html/whatsNew.html +++ b/help/html/whatsNew.html @@ -24,49 +24,47 @@

- What's new in Jalview 2.10.5 ? + Jalview 2.11 - major and minor new features

Jalview 2.10.5 is a minor release that includes critical - patches for users working with Ensembl, RNA secondary structure - annotation, and those running Jalview on OSX with Java 10.

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.

Jalview's default memory limit increased to 1G.
If you have - problems starting Jalview 2.10.5 and you have 1G or less - physical memory on your machine, you will need to reduce the memory allocated to - Jalview. -
EPS, PNG and SVG export now includes hidden sequence - markers, and representative sequences are marked in bold.
Ensembl Client updated for Ensembl Rest API v7.
The - latest Ensembl API is not backwards compatible with earlier - versions of Jalview, so if you require Ensembl functionality you - will need to install this release. -
Improved support for VIENNA extended dot-bracket notation - for RNA secondary structure.
Positional and selected region highlighting in VARNA - 'trimmed sequence' view made more reliable.
VCF Support. 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.
The Jalview Launcher and Update System
+ 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.
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.

The full list of bugs fixed in this release can be found in the 2.10.5 Release Notes. The - majority of bug fixes and improvements in 2.10.5 are due to Jalview users - contacting us via the jalview-discuss email list. Thanks to everyone - who took the time to help make Jalview better ! + href="releases.html#Jalview.2.11">2.11 Release Notes.

- Jalview and Java 10 + Jalview and Java 11, 13, and onwards

This release addresses a critical bug for OSX users who are - running Jalview with Java 10 which can prevent files being saved - correctly through the 'Save As' dialog box.

- Known Issues +

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.

+ Known Issues - update for 211

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.
The workaround is to first clear the 'Untitled' filename before selecting the file you wish to load. -
OSX: Links don't open when clicked on or via the Sequence or Alignment window popup menu.

OSX: Links don't open when clicked on or via the Sequence + or Alignment window popup menu.
OSX (Webstart): JalviewÂ only displays old news feed items