[GMOD-devel] New Apollo Release 2.0.5(JB#9334e76fd)

[Monica Munoz-T. <mcm...@lb...>]

*We are pleased to announce the latest Apollo release*

*Apollo 2.0.5 *

*Some of the new features include:*

   - Numerous UI and performance improvements, including easier navigation
   between annotated elements via the Annotator Panel.
   - Better server and client-side reporting.
   - It is now possible to also include metadata on import.
   - Upgrade to Java 8 / GWT 2.8, and updated JBrowse.
   - Apollo 2.0.5 uses the latest JBrowse commit as of 2016-12-09 (
   #9334e76fd
   <https://github.com/GMOD/jbrowse/commit/9334e76fd7530681fa2dcc71d4440141e1414cfd>).
   Use ./apollo clean-all or install from a formal release download for best
   performance.


*Some important bug fixes:*

   - Import script were logging preferences unnecessarily.
   - Improved security for non-public genomes.
   - Fixed for going between logged-out mode and the Annotator Panel while
   retaining history.
   - Improved display of sequence over the annotation after moving the
   annotation to the opposite strand.
   - Users will see a warning message when it is not possible to create an
   intron with canonical splice sites in the selected region.


* The *latest release* can be downloaded from GitHub at:
https://github.com/GMOD/Apollo/releases/latest

* *Detailed, searchable documentation* on pre-requisites, configuration,
and installation guides found at:
http://genomearchitect.readthedocs.io/

* A more *detailed account of all changes* is available in the Apollo
ChangeLog:
https://github.com/GMOD/Apollo/blob/master/ChangeLog.md

* *Quick-Start Guide for Apollo 2.0.x*: If you already have Apollo
instances running, you can use your current JBrowse data directories. The
quick-start guide is available at: http://genomearchitect.rea
dthedocs.io/en/stable/Apollo2Build.html

* *Migrating existing annotations:* Please find detailed information about
migrating existing installations and their annotations at
http://genomearchitect.readthedocs.io/en/latest/Migration.html

** Troubleshooting, GitHub tracker, Mailing List: *

   - Browse the Troubleshooting guide at http://genomearchitect.readthe
   docs.io/en/stable/Troubleshooting.html
   <http://genomearchitect.readthedocs.io/en/stable/Troubleshooting.html>
   - Open a GitHub issue at https://github.com/GMOD/Apollo/issues/
   - Post your questions on our mailing list at ap...@li...

* *The Apollo User Guide* is available at http://genomearchitect.org/use
rs-guide/

** Public Demo: If you are new to Apollo we encourage you to learn more
about our software and its functionality by taking a tour of our Apollo
Demo at http://genomearchitect.org/demo/ <http://genomearchitect.org/demo/>*

* These and more details are available at the Apollo Website
<http://genomearchitect.org/> and the Apollo repository
<https://github.com/GMOD/Apollo/blob/master/README.md>.


We look forward to your questions and suggestions.

Sincerely,
The Apollo Development Team <http://genomearchitect.org/about/>

[image: Inline image 1]

It is very likely you will receive this message more than once; we offer
our sincere apologies for the redundancy.
Bee photograph by www.AlexanderWild.com



-- 
Mentorship Matters!
--
Monica Munoz-Torres, PhD.
Berkeley Bioinformatics Open-source Projects (BBOP)
Environmental Genomics and Systems Biology Division
Lawrence Berkeley National Laboratory

Mailing Address:
Lawrence Berkeley National Laboratory
1 Cyclotron Road Mailstop 977
Berkeley, CA 94720