December 3, 2012 Distribution & News Brief
<http://wiki.galaxyproject.org/News/2012_12_03_DistributionNewsBrief>
*
Complete News Brief
<http://wiki.galaxyproject.org/DevNewsBriefs/2012_12_03>*
*
Highlights:*
*
*NGS: Mapping* tools *Bowtie
<http://bowtie-bio.sourceforge.net/index.shtml>* and *Lastz
<http://www.bx.psu.edu/%7Ersharris/lastz/>* have moved from the
*Galaxy distribution <https://bitbucket.org/galaxy/galaxy-dist>* to
the *Galaxy Main Tool Shed <http://toolshed.g2.bx.psu.edu/>*.
*
Improvements in the display of *Tool Shed
<http://wiki.galaxyproject.org/Tool%20Shed>* repository dependencies
and contents.
*
More *Tool Shed <http://toolshed.g2.bx.psu.edu/>* updates including
details of the Functional test framework
<http://wiki.galaxyproject.org/HostingALocalToolShed#Functional_test_framework_for_the_tool_shed>,
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
<http://usegalaxy.org/cloud>* release and /*December 2012 Galaxy
Update <http://wiki.galaxyproject.org/GalaxyUpdates/2012_12>*/.
*
http://getgalaxy.org*
*http://bitbucket.org/galaxy/galaxy-dist*
*http://galaxy-dist.readthedocs.org*
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 <http://wiki.galaxyproject.org/Galaxy%20Team>
--
Jennifer Jackson
http://galaxyproject.org
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