Thanks John,I will try to find some time and courage to implement this in my galaxy and let you know what happens...ThonOn Jun 05, 2012, at 06:58 PM, John Chilton wrote:I have produced an updated version of my changes to be compatible with newer versions of galaxy, but but my local Galaxy instance
yes, i've had the same error ever since the last galaxy-dist release. i
previously had multiple servers and switched to the one manager, two
handlers. rewrite rules didn't need to be changed.
On Thu, May 24, 2012 at 8:14 AM, Sarah Diehl wrote:
> **
> Hi all,
>
> I have a similar, maybe related
Hi, Daniel.
The wrapper doesn't introduce any new dependencies other than a
working FastQC install in the right place so can you please let us
know what happens when you run FastQC from the command line as the
user running your Galaxy processes - it should start an interactive
FastQC session where
This is probably because R on a server requires an X11 framebuffer
since your process is not able to open an X11 server connection while
it's running.
Does
http://stackoverflow.com/questions/1710853/how-to-run-r-on-a-server-without-x11-and-avoid-broken-dependencies
help?
On Thu, Jun 7, 2012 at
Hi,
I am trying to wrap the qvalue R package in a script (as I have already
done for a dozen), but this time I have repeatedly the same error
"*In fun(libname, pkgname) : no DISPLAY variable so Tk is not available*"
or "*Loading Tcl/Tk interface ... done*" (and red, desperately red box).
I alread
I'm running two separate instances of Galaxy on two different servers. On both
servers, whenever I run FastQC, I can see the result HTML file, but none of the
pictures show up. Furthermore, if I try to access the links at the bottom of
the page, they don't lead to any real files.
If I look in m
The plan is to support Tophat2, which includes support for doing fusion search,
in the future.
Best,
J.
On Jun 4, 2012, at 2:56 PM, suzan katie wrote:
> Hello,
>
> Is there any plan of installing TopHat fusion in Galaxy in near future.
>
> Thanks
>
> Katie
>
In my case I ended modifying the API workflow_execute.py script and
used it to create symlinks I could use to run processes outside of
galaxy. In case the new processing machine doesn't have access to the
directory tree and use rsync with '--copy-links' to download the
datasets.
This is the import
Hi Jean-Francois
My random guess: this is a web browser issue, struggling to download big
files? - although, 3000 lines is not big
If required, we use scp on the command line to get a copy of the dataset
Regards, Hans
On 06/06/2012 03:53 PM, Jean-Francois Payotte wrote:
Hi folks,
Some of
I was never able to donwload data from history (Penn state server). I would
be intersted to see the feedback on this quetion.
Thanks.
On Wed, Jun 6, 2012 at 6:53 AM, Jean-Francois Payotte <
jean-francois.payo...@dnalandmarks.ca> wrote:
> Hi folks,
>
> Some of our local Galaxy instance users seem
Hi folks,
Some of our local Galaxy instance users seem to be experiencing some
strange behaviour lately. I searched the mailing-list archive but I
didn't found anything related, so I'd be interested to know if somebody
already had the same issue.
The problem is that sometimes, when people are
Using the cookie_path setting makes user lose his session when editing
pages.
For some reason, if you activate the cookie_path setting in
universe_wsgi.ini, the simple fact of opening the page editor (via the
/page/edit_content URL) adds a new record to the galaxy_session database
table, with a nu
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