It doesn't hurt to try this, but I don't think that will solve the problem.
Just to be sure, the basics are working? You can submit jobs via sbatch?
How did you compile/install slurm-drmaa ?
Also it looks like drmaa-python is being used from /usr/local/... .
Are you running galaxy in a virtualenv
Hi Marius,
yes, we are using the one from Poznan. Should we give it a try with the
fork?
Best
Leonor
Leonor Palmeira | PhD
Associate Scientist
Department of Human Genetics
CHU de Liège | Domaine Universitaire du Sart-Tilman
4000 Liège | BELGIQUE
Tél: +32-4-366.91.41
Fax: +32-4-366.72.61
e-mail:
Hi Leonor,
Are you sure that you are using a drmaa library that is compatible with
slurm?
This http://apps.man.poznan.pl/trac/slurm-drmaa should work, IIRC,
or alternatively you can use Nate Coraor's fork here
https://github.com/natefoo/slurm-drmaa.
Best,
Marius
On 20 February 2017 at 15:06, Leo
Hi,
we modified our configuration as Marius suggested, but we still get the
following error. This is an error we had just before, and we were trying
to fix it by specifying an $SGE_ROOT variable.
I don't know why this error pops up, as we are trying to use SLURM, not
SGE...
galaxy.jobs.runners.s
Ok ur right
I cannot reproduce this error any more... must be a typo or I don't
know, sorry guys.
Cheers
Jochen
On 20.02.2017 14:44, John Chilton wrote:
> Really, that doesn't sounds correct. Why is pmode not allowed?
>
> -John
>
> On Mon, Feb 20, 2017 at 5:22 AM, Jochen Bick wrote:
>> H
This is the page describing the xml syntax that can be used to wrap tools.
If its not on this page I would guess that you can't use it in your xml
code.
https://docs.galaxyproject.org/en/latest/dev/schema.html
On Mon, Feb 20, 2017 at 5:22 AM, Jochen Bick
wrote:
> Hi all,
>
> is there any list av
Hi all,
is there any list available of names that are not allowed to use inside
xml code? I just found out that "pmode" is one of them.
Cheers Jochen
--
ETH Zurich
*Jochen Bick*
Animal Physiology
Institute of Agricultural Sciences
Postal address: Universitätstrasse 2 / LFW B 58.1
Office: Tanne
