Highlights:

NGS: Mapping tools Bowtie and Lastz have moved from the Galaxy distribution to the Galaxy Main Tool Shed.
Improvements in the display of Tool Shed repository dependencies and contents.
More Tool Shed updates including details of the Functional test framework, a new hgweb.config file and HgWebConfigManager tool, plus other management features.
Updated UI display and functionality for datasets and histories: new paused state and "resume/paused" toggle, new History menu options, and improved Scatterplot visualizations.
The SGE job runner has now been fully deprecated and replaced with DRMAA.
Several enhancements to aid with reproducibility: "Re-run" and "Extract workflow" validates datasets and tools, respectively, and a new data tables registry within the Administration menu, along with associated tools, corrects or warns about tool migration issues.
Highlights from the new Galaxy CloudMan release and December 2012 Galaxy Update.


new:     $ hg clone http://www.bx.psu.edu/hg/galaxy galaxy-dist
upgrade: $ hg pull -u -r f364d992270c

Thanks for using Galaxy!

The Galaxy Team


-- 
Jennifer Jackson
http://galaxyproject.org