Question: Galaxy December 20, 2012 Distribution & News Brief
0
Jennifer Hillman Jackson ♦ 25k wrote:
*Galaxy Dec 20, 2012 Distribution & News Brief
<http: wiki.galaxyproject.org="" news="" 2012_12_20_distributionnewsbrief="">*
*Complete News Brief
<http: wiki.galaxyproject.org="" devnewsbriefs="" 2012_12_20="">*
*Highlights:*
*
*Required Metadata Reset* for instances running *Tool Shed
<http: wiki.galaxyproject.org="" tool%20shed="">* repositories. Be sure
to *learn how
<http: wiki.galaxyproject.org="" resettingmetadataforinstalledreposi="" tories="">*.
*
*Simplified tool config*: all tools (including tool shed repos)
can
now have handlers and runners assigned based on their "short id".
*
*New* GFF <http: wiki.galaxyproject.org="" learn="" datatypes#gff="">/GFF3
<http: wiki.galaxyproject.org="" learn="" datatypes#gff3=""> annotation
support for *Cuffcompare/merge/diff
<http: cufflinks.cbcb.umd.edu="" manual.html="">*.
*
*More Updated* tools: *TopHat2
<http: tophat.cbcb.umd.edu="" manual.html="">*, *Bowtie2
<http: bowtie-bio.sourceforge.net="" bowtie2="" manual.shtml="">*.
*
*Multiple pull-requests* contributed by community (thanks!): *#83
<https: bitbucket.org="" galaxy="" galaxy-central="" pull-="" request="" 83="" allow-a-datatypes-merge-method-to="">*,
*#85
<https: bitbucket.org="" galaxy="" galaxy-central="" pull-request="" 85="" another-round-of-bug-fixes-and="">*,
*#90
<https: bitbucket.org="" galaxy="" galaxy-central="" pull-request="" 90="" patch-to-make-extended_metadata-loader="">*,
*#91*
<https: bitbucket.org="" galaxy="" galaxy-central="" pull-request="" 91="" fixing-missing-jobwrapper-import="">.
*
*Issue tracking help* is now covered in detailed in our new wiki:
*Using the Galaxy Issue Board
<http: wiki.galaxyproject.org="" issues="">*
*
*GCC2013 Training Day Topic Nominations
<http: wiki.galaxyproject.org="" events="" gcc2013="" trainingday=""> are now
open* through /*January 11th*/
<http: wiki.galaxyproject.org="" events="" gcc2013="" keydates="">
*
*Plus* more *Tool Shed
<http: wiki.galaxyproject.org="" tool%20shed="">*
updates, *Bug Fixes*, and improvements to *Trackster, UI,
Libraries,
and Histories*.
*
getgalaxy.org <http: getgalaxy.org="">*
*bitbucket.org/galaxy/galaxy-dist
<http: bitbucket.org="" galaxy="" galaxy-dist="">*
*galaxy-dist.readthedocs.org <http: galaxy-dist.readthedocs.org="">
*
new: $ hg clone http://www.bx.psu.edu/hg/galaxy galaxy-dist
upgrade: $ hg pull -u -r 36ad8aa7b922
*Best wishes for a safe and happy holiday*,
/*The Galaxy Team <http: wiki.galaxyproject.org="" galaxy%20team="">*/
--
Jennifer Jackson
http://galaxyproject.org