X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhelp%2Fhtml%2FwhatsNew.html;h=97b1b2dabe9fe2c9d9b4f92f44dc8cee495ffbb7;hb=2c0496537b3ea1fb76dca30c7c3b5d87c0333260;hp=00f94661de6105662b8c2458ffd24a3979c1d67f;hpb=8b0ad7a1cd2800549ccc31f90e8450445eb654c1;p=jalview.git diff --git a/help/help/html/whatsNew.html b/help/help/html/whatsNew.html index 00f9466..97b1b2d 100755 --- a/help/help/html/whatsNew.html +++ b/help/help/html/whatsNew.html @@ -24,52 +24,18 @@

- Jalview 2.11.1.0 + Jalview 2.11.1.5

Jalview 2.11.1.5 is a critical patch release that updates one + of the open source components, log4j, that Jalview relies on. The + update addresses the widely reported log4shell security + vunerability. This release also addresses a bug in the occupancy + calculation that occurs when working with alignments of more than + 32,000 sequences.

- Jalview 2.11.1.0 is the first minor release for the 2.11 series. - Along with a number of critical bug fixes and improvements it brings - new functionality for mapping sequence features between CDS and - Protein alignments. It is also the first release made under a new four - number versioning scheme, which will allow us to keep track of - patches and bug fixes. -

Virtual Features
In previous - versions of Jalview, specific nucleotide sequence features such as - genomic variants and exons were transferred to protein products on - import. Jalview 2.11.1 instead provides 'virtual features' that - can be enabled and overlaid on linked CDS/Protein views via their - Sequence - Features dialog. This allows more analyses of nucleotide and - peptide sequence features on alignments in a more flexible and - memory efficient way than in earlier versions.
Improved VCF data import
Standard attributes for - filtering variants (e.g. position, QUAL field etc) are now - extracted from VCF files. This new feature was suggested by a user - at the Jalview booth during ISMB 2019.
Extended feature attributes are exported - in GFF3
Complex attributes from VCF files can be exported - and imported via GFF3
Updated Jalview Installer and Launcher
Jalview's - installation packages are now built with Install4j 8, which brings - better support for Linux and improved control of file - associations. New parameters on the - Jalview launcher allow an upper memory limit to be specified via - a Jalview launch file, to prevent it from hogging your system.

- See the 2.11.1.0 - release notes for full details of bugs fixed and new known issues. -

- JalviewJS News
With the release of Jalview 2.11.1.0, - the team are now focused on bringing JalviewJS to full production. - To follow our progress take a look at http://www.jalview.org/jalview-js/ - and follow updates on our new JalviewJS - Releases github repository. + For the full release notes, see the Jalview 2.11.1.5 + release notes.