What's new in Jalview 2.10.4b1 ?

This is the first patch release for Jalview 2.10.4. It includes the following new patches:

• HGVS nomenclature used for variant annotation retrieved from Uniprot
• Uniprot import fails for some sequences (Cannot import features with multiple variant elements)
• Clustal files with sequence positions in right-hand column are now parsed correctly
• Wrap view - export to SVG - IDs shown but not alignment area in exported graphic
• F2/Keyboard mode edits work when Overview window has input focus
• Windows specific fixes:
  • Annotation panel set too high when annotation added to view
  • Updated search paths for Chimera default installation
  • Windows File Shortcuts can be dragged onto the Jalview Desktop
  • Drag URL from Chrome, Firefox, IE to Jalview desktop on Windows doesn't open file:
    Dragging the currently open URL and links from a page viewed in Firefox or Chrome on Windows is now fully supported.
    If you are using Edge, only links in the page can be dragged.
    With Internet Explorer, only the currently open URL in the browser can be dropped onto Jalview.

Highlights in the 2.10.4 series include:

• Numerous efficiency improvements in the renderer and overview when working with large alignments with lots of hidden columns
• Use of HTTPS when connecting to Uniprot, Ensembl and other EBI web services
• Critical patches for running Jalview on OSX with Java 10
• Easier adjustment of the Alignment ID panel and Annotation panel
• Improved support for mapping between 3D Structures and Uniprot Protein Sequences
• Improved support for discovering CDS and transcripts for Proteins and Ensembl gene IDs
• New buttons on the Structure Chooser for adding structures to an existing view, and disabling automatic superposition according to linked alignments
• Annotation transfer between Chimera and Jalview (formerly only available in 'Experimental' mode)

The full list of bugs fixed in this release can be found in the 2.10.4 Release Notes.