Hi Kostas,
Workflows are saved in the database. If you're looking for an external
representation you can generate one by going to 'Download or Export' in an
individual workflow's menu in the main workflows list. The download option
there gives a JSON representation of the workflow that can
Hi Glen,
Good to know. I assume that currently that is not happening though,
right? If yes, is it in your immediate plans?
It should happen now - each step in the workflow would get submitted as a
separate job to the cluster. At that point it is up to the job scheduler and
not Galaxy to
On Mar 30, 2011, at 8:34 AM, Kostas Karasavvas wrote:
Hi Glen,
Good to know. I assume that currently that is not happening though,
right? If yes, is it in your immediate plans?
It should happen now - each step in the workflow would get submitted as a
separate job to the cluster. At
Hi Glen,
All is clear now. Thanks for the info! :)
K.
the job should copy its output files into the Galaxy database/files directory
before it terminates. So assuming you are not using data staging and the
database directory is shared via NFS, then the next tool will read the files
from
We are experiencing issues with workflows where jobs are running
before the previous step is completed (especially with large
workflows). I am wondering if the problem is MySQL.
Does anyone know of a reliable script for converting a MySQL dump to
PostgreSQL?
Thanks
Shaun
--
The
Hello all,
Maybe I posted it wrong. But below my original message again.
Any ideas?
Thanks
Alex
-Oorspronkelijk bericht-
Van: galaxy-dev-boun...@lists.bx.psu.edu
[mailto:galaxy-dev-boun...@lists.bx.psu.edu] Namens Bossers, Alex
Verzonden: zaterdag 19 maart 2011 10:23
Aan:
Hello Alex,
We have a similar setup, and this is how we implemented it:
1. all users must be logged in, so $userEmail is set to the correct user name
and can't be changed by the user.
2. Created an admin Mysql user that can load data into the DB (and create
tables, etc.) - with access to all
Hi all,
It's been a long while since I had to install a fresh production galaxy server,
and I can offer some tips or requests for minor improvements (but to give
credit were it's due - installation is much smoother now, and DRMAA works great
with SGE out of the box).
These are just minor
