Hi,
I try to configure Galaxy with SGE. It works one time yesterday but now I
have the following message all the time :
galaxy.jobs DEBUG 2011-07-26 16:50:54,002 dispatching job 118 to drmaa
runner
galaxy.jobs ERROR 2011-07-26 16:50:54,002 put(): (118) Invalid job runner:
drmaa
[ An error
[
galaxy-dev-boun...@lists.bx.psu.edu] On Behalf Of remy d1 [
remy...@gmail.com]
Sent: July 26, 2011 7:44 AM
To: galaxy-dev@lists.bx.psu.edu
Subject: [galaxy-dev] Invalid job runner: drmaa
Hi,
I try to configure Galaxy with SGE. It works one time yesterday but now I
have the following message
: *'num_threads' is currently ignored when
'subject' is specified.
WARNING:galaxy.eggs:Warning: MarkupSafe (a dependent egg of Mako) cannot be
fetched
*However I can download the result file.
Best Regards,
Thanks for help,
Remy
2011/7/27 remy d1 remy...@gmail.com
Hi Ka Ming,
Thanks for your
Hi Chris,
Take a look at this file :
lib/galaxy/jobs/runners/drmaa.py
in your galaxy directory.
You can export a path for binaries here. For example :
export PATH=$PATH:/opt/bin/
before export PYTHONPATH
Moreover, do not forget other path values in your service script or in your
galaxy user
Hi,
We found a little problem in the new galaxy release. When we upload a
dataset library from filesystem :
Admin Manage data libraries create new data library Add dataset
Upload files from filesystem path Link to files without copying
If galaxy user is the owner of this file or if he has
Hello,
In my configuration, I submit job through SGE. I have a cluster in the
backend. If nodes are shutdown job is in state queue wait and I noticed
that it disappear sometime. Is there a timeout somewhere in galaxy which is
monitoring jobs ? In fact, I whish to use a script in SGE which is
Hi,
I would like to modify Pages a lot. For example, I would like to create a
galaxy Page with rss-reader written in PHP (or javascript) in it.
I found where content is stored for Pages, but not the script who read this
content.
Is there any possibility to integrate code into Galaxy Page which
Hi,
For information, here is my install script for rpy, because I had to
reinstall all of that on CentOS 5.4... :
#!/bin/bash
#
#
#
echo RPY for R and Python **
cd rpy;
export
