I'd like to set up a local installation of Galaxy on a dedicated linux
machine. I've taken a look at the Galaxy appliance, but since I'm the
only one in my lab who will be using it, it's outside my price range.
I'm going to be doing RNA seq read mapping and differential expression
Thank you so much for the descriptions, and for sharing the method to check
that the difference in line count is appropriate.
On Tue, Nov 12, 2013 at 7:09 PM, Jennifer Jackson j...@bx.psu.edu wrote:
Nice to hear that Vipin's server
I am setting up a galaxy instance at our department and I was hoping to use our
LDAP database to authenticate users to use galaxy,
So my questions are:
How would one tell galaxy to refer to the LDAP database?
Would this allow new users to be automatically created on first login?
Morning Jon, See this page: http://wiki.galaxyproject.org/Admin/Config/Apache%20Proxy Under 'mod_authnz_ldap' you'll find relevant information (assuming you're using mod_authnz_ldap) Users will be created on first login, which means you'll have to have them login and then assign groups (as far as
In the current version of galaxy stable branch (5c789ab4144a), the tool
panel is empty when installed (freshly and out of the box) on my
production server (ubuntu server 12.04). If I copy this galaxy folder
onto my laptop, the tool panel shows up (ubuntu 13.10).
Do you have an idea of
On Wed, Oct 30, 2013 at 4:03 PM, Peter Cock p.j.a.c...@googlemail.com wrote:
This is just to announce I am working on a wrapper for
CLC Assembly Cell which is the CLCbio commercial
command line assembly tool suite.
It looks like you have tools with no matching id in toolbox.tools_by_id.
Given the complexity of your job_conf.xml I assume you are using
multiple Galaxy processes? Have you installed stuff from the tool shed
or migrated tools and not restarted all Galaxy processes, or did you
try to restart
I am responding to galaxy-dev because others may have better answers than me.
On Wed, Nov 13, 2013 at 9:38 PM, Alistair Chilcott
Thanks for the advice, a dose of realism is always useful. :D
I suspect that our current installation is fiddly
Xian and I were able to resolve this on IRC, the problem is is that no default
queue is specified in the PBS client (intentionally) and the `-q` param was
improperly handled in the pbs job runner (it expected param id=“destination”
instead). This has been fixed in the stable branch in
Hello Zeeshan, Let's post this over to the proper list,
galaxy-...@bx.psu.edu, and see if that helps.
You could also contact Brad, the git repository owner, directly about
questions that involve biocloud.
Without details about your incoming data rate and size, it's very difficult to
answer this question. I suggest taking some of your data, running it on our
public server (usegalaxy.org), and seeing how long it takes. RNA-seq tools
(Tophat, Cufflinks, etc.) use 4 cores for a job, so you can
particular Web browsers?
On Nov 15, 2013, at 10:15 AM, Yec'han Laizet ylai...@pierroton.inra.fr wrote:
In the current version of galaxy stable branch (5c789ab4144a), the tool panel
is empty when installed
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