Hi,
I was thinking of an incremental backup script using Backupninja to
backup the galaxy configuration files. Not sure though how long to keep
backups of galaxy datasets. What are other people doing?
Greetz,
Mattias
___
Please keep all re
Hej Galaxy-admins,
While thinking of backing up the galaxy dir I noticed the database/pbs
directory on our local server contains several gigabytes of data (all
*.o, *.e and galaxy_*.sh scripts). I use the cleanup scripts to remove
deleted datasets, but shouldn't this directory also not be cleaned
Hello,
I just noticed I get metadata errors in the paster.log file. Can someone
tell me what they are and if they are related to above problem?
galaxy.jobs.runners.drmaa DEBUG 2011-11-16 11:55:28,037 (840/588) state change:
job finished normally
galaxy.datatypes.metadata DEBUG 2011-11-16 11:55:
Hello,
I am observing some difficulties running a custom tool (processing an
sff file). It shows up in Galaxy, runs and its three output files are
given back. Only one of them is only showing the first 12 lines of many
more...
More symptoms:
* The corrupted file is written successfully to
Good luck,
> Enis
>
> On Mon, Sep 5, 2011 at 2:22 PM, Mattias de Hollander
> wrote:
> Hello Galaxy-developers and community,
>
> I would like to ask your advice on installing software. I used
> the
> cloudman scripts to insta
Hello Galaxy-developers and community,
I would like to ask your advice on installing software. I used the
cloudman scripts to install galaxy on a multi-core server. I use the
fabric scripts from cloudman/mi-diployment to install some software but
I am also looking at repositories like biolinux and
g variable `tool_dependency_dir = /mnt/galaxyTools/tools` set in
> Galaxy's universe_wsgi.ini).
>
> Enis
>
> On Fri, Jul 15, 2011 at 12:19 PM, Mattias de Hollander
> wrote:
> Hello Enis,
>
> I am trying to add PyCogent to the PYTHONPATH,
f the tool's env.sh script is prepended to the execution
> command when running the tool so the appropriate environment settings
> will be loaded before the tool is run.
>
>
> Enis
>
> On Wed, Jul 13, 2011 at 12:09 PM, Mattias de Hollander
> wrote:
> He
Hello,
I am trying to add tools (PyCogent, Qiime) to a Cloudman image using the
mi-deployment scripts. Qiime depends on PyCogent and it needs to be
accessible on the python path, otherwise I get an error:
PyCogent not installed but required. (Is it installed? Is it in the
current user's $PYTHONPAT
