Development

New patch release: Jalview 2.10.4b1

The first patch release for Jalview 2.10.4 is now available. It includes the following minor improvments and critical 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.

If you experience any problems, please let us now via Twitter (@Jalview) or the jalview mailing lists.

Jalview 2.10.2b1 Released

A bugfix release for 2.10.2 is now available. Version 2.10.2b1 has the following new features:

  • Show gaps in overview window by colouring in grey (sequences used to be coloured grey, and gaps were white)
  • Overview tab in Jalview Desktop Preferences
  • Overview updates immediately on increase in size and progress bar shown as higher resolution overview is recalculated

Several minor (and not so minor) bugs are also resolved, including problems with retrieval of Ensembl crossreferences for Uniprot sequences, and PDB sequence/structure associations.

Patch Friday: 2.9.0b1 patch release

We've just uploaded the patch release for version 2.9. It addresses a dozen or so minor issues in the desktop and applet, including linked editing of cDNA and Protein alignments and exchange of alignment data embedded in HTML pages. It's also the first release distributed as a signed OSX disk image, which (should) provide trouble free installation on all Macs.

apologies for Jalview launch problems on 3rd-4th November 2014

Unfortunately, due to a configuration error whilst we updated our drupal servers, the Jalview desktop and applet were unavailable for a short period of time, but are now back. We realise here at www.jalview.org that this outage will have inconvenienced many people, and we've already begun to take steps to make sure this doesn't happen again.

Thanks for your patience - and stay tuned for the next Jalview release! Version 2.8.2 is rapidly approaching beta, and should be fully released by the middle of the month !

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