Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Forum
Planet
All »
Home
Log In
Question: Cloud Instance Of Galaxy
0
gravatar for Randall, Thomas (NIH/NIEHS) [C]
6.5 years ago by
Randall, Thomas (NIH/NIEHS) [C] • 30
Randall, Thomas (NIH/NIEHS) [C] • 30 wrote:
I have put up an instance of galaxy on the cloud and as a simple test am trying to retrieve hg19 sequences corresponding to a bed file using the Extract Genomic DNA tool. hg19 is supposed to be a "loaded, system installed build" yet I get an error message stating that "No sequences are available for hg19". A similar thing occurred with an mm9 request. What is being done wrong? Tom Thomas Randall, PhD Bioinformatics Scientist, Contractor Integrative Bioinformatics National Institute of Environmental Health Sciences P.O. Box 12233, Research Triangle Park, NC 27709 randallta2@niehs.nih.gov<mailto:randallta2@niehs.nih.gov> 919-541-2271
galaxy • 818 views
ADD COMMENT • link •
modified 6.5 years ago by Dave Clements ♦♦ 2.5k • written 6.5 years ago by Randall, Thomas (NIH/NIEHS) [C] • 30
0
gravatar for Dave Clements
6.5 years ago by
Dave Clements ♦♦ 2.5k
United States
Dave Clements ♦♦ 2.5k wrote:
Hi Tom, The cloud image has the reference data for hg19 and mm9. However, it does not come with fully configured loc files for every tool that takes advantage of all that preloaded data. Try updating the loc file for the Extract Genomic DNA tool. Dave C. On Wed, May 23, 2012 at 11:07 AM, Randall, Thomas (NIH/NIEHS) [C] < -- http://galaxyproject.org/GCC2012 <http: galaxyproject.org="" wiki="" gcc2012=""> http://galaxyproject.org/ http://getgalaxy.org/ http://usegalaxy.org/ http://galaxyproject.org/wiki/
ADD COMMENT • link written 6.5 years ago by Dave Clements ♦♦ 2.5k
Hi Tom, An update from the CloudMan developers: This will be fixed in the next release, which is imminent. Thanks, Dave C. On Thu, May 24, 2012 at 11:04 AM, Dave Clements -- http://galaxyproject.org/GCC2012 <http: galaxyproject.org="" wiki="" gcc2012=""> http://galaxyproject.org/ http://getgalaxy.org/ http://usegalaxy.org/ http://galaxyproject.org/wiki/
ADD REPLY • link written 6.5 years ago by Dave Clements ♦♦ 2.5k
Please log in to add an answer.

Similar posts • Search »

Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 175 users visited in the last hour