I just cloned the current release version of galaxy:
hg clone http://bitbucket.org/galaxy/galaxy-dist
and can not run setup.sh because it is not present in the /galaxy-dist/
directory.
setup.sh is also not listed on the https://bitbucket.org/galaxy/galaxy-dist/src
page,
is this an error o
not
getting stripped by this script
thanks,
Curt Palm
***
Curtis J. Palm cp...@stanford.edu
Stanford Genome Technology Center
MC: 8307
office: 650-812-
I have been having trouble getting cufflinks to run with the "-g" or "-G"
parameters via Galaxy. when I select either "use reference annotation" or "use
reference annotation as guide" from the pulldown menu, cufflinks runs , but
the "-g" or "-G" is not added to the cufflinks command. I think
When I try to run a GATK analysis that uses a bam file as input, I get the
following error in the html page:
Metadata missing, click the pencil icon in the history item and use the
auto-detect feature to correct this issue.
when the input file is a bam file that has not run yet or is still run
I am trying to run GATK's DepthOFCoverage using intervals and get the
following error:
failure preparing job
Traceback (most recent call last):
File "/home/galaxy/galaxy-dist/lib/galaxy/jobs/runners/local.py", line 59, in
run_job
job_wrapper.prepare()
File "/home/galaxy/galaxy-dist/lib/
.. class:: infomark
Thanks,
-Curt
Curt Palm
Data Engineer
INGENUITY SYSTEMS | www.ingenuity.com
1700 Seaport Blvd., 3rd Floor | Redwood City, CA 94063
650.381.5084
___
ly
as the next step?
If this works, please confirm to the entire list - I'm sending this to you
just in case I'm full of it :)
On Thu, Aug 22, 2013 at 9:12 AM, Curt Palm wrote:
I've just created a repository in the sandbox and have been trying to
test the installation of a dep
