And finally, what would be a good way to test that galaxy is submitting jobs to
the queue properly? Is there some generic test data/procedure to verify that
the galaxy instance is working as expected?
Thanks,
Sandra Maksimovic
Systems Administrator
Information Technology
Murdoch Children's Res
any experience with PBS-python vs.
PBS-drmaa? I’d be open to switching if the latter turns out to be more
reliable/flexible.
Cheers,
Sandra
From: SAPET, Frederic
Sent: Friday, 30 August 2019 5:52 PM
To: Sandra Maksimovic ;
'galaxy-dev@lists.galaxyproject.org'
Subject: RE: pbs-python issues
: SAPET, Frederic via galaxy-dev
Sent: Wednesday, 28 August 2019 5:09 PM
To: Sandra Maksimovic ;
'galaxy-dev@lists.galaxyproject.org'
Subject: [galaxy-dev] Re: pbs-python issues
Hi Sandra
We're running a Galaxy with PBS Pro as jobs scheduler.
I never had any problem with pbs-python however
PBSQuery.py script. The source and python installers are noticeably different
upon inspection, unfortunately I still haven’t managed to get the python
installation working yet.
Here is my job_conf.xml:
@other.cluster
Thanks,
Sandra
From: Sandra Maksimovic
Sent
FYI in case it's relevant the server's sssd.conf has also been customised to
drop the domain suffix.
Any ideas? Is there perhaps some additional config in the v20.01 galaxy.yml
that I've missed?
Thanks,
Sandra Maksimovic
Systems Administrator
Information Technology
Murdoch
Hi there,
Does anyone know of a best practice method to upgrade a Galaxy instance built
from source?
Thanks,
Sandra
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Hi there,
We are hosting an on-prem Galaxy instance in a HPC environment. Our research
staff would like the ability to manipulate raw data that is located on the
shared filesystem without having to manually upload it into Galaxy. Is this
currently supported and would there be any related
Solution: Disable all user_library_import settings.
From: Sandra Maksimovic [mailto:sandra.maksimo...@mcri.edu.au]
Sent: Thursday, 30 April 2020 4:28 PM
To: galaxy-dev@lists.galaxyproject.org
Subject: [galaxy-dev] pam login issue
Hi there,
Galaxy newbie here. I have a brand new v20.01 instance
,
Sandra
From: Marius van den Beek
Sent: Friday, 2 October 2020 7:39 PM
To: Sandra Maksimovic
Cc: galaxy-dev@lists.galaxyproject.org
Subject: Re: [galaxy-dev] Expose local filesystem to Galaxy?
Hi Sandra,
if the goal is to import data into galaxy from disk you can designate an area
Hi,
Has anyone out there had any success installing the pbs_python module into a
Python 3+ Galaxy installation? I run into the following issue when installing
https://github.com/ehiggs/pbs-python as per the documentation.
# python setup.py install
File "setup.py", line 68
print "Version:
Hi Keith,
I did try that but it didn’t make any difference. I’ve even tried disabling
privilege separation entirely but that had no effect either.
Thanks,
Sandra
From: Keith Suderman
Sent: Wednesday, 17 February 2021 5:42 AM
To: Sandra Maksimovic
Cc: galaxy-dev@lists.galaxyproject.org
:
privsep: foo
errdocs: foo
galaxy: foo
root: foo
Where ‘foo’ is the user you want to SSH with.
From: Peter van Heusden
Sent: Tuesday, 16 February 2021 3:42 AM
To: Michael Moore
Cc: Sandra Maksimovic ;
galaxy-dev@lists.galaxyproject.org
Subject: [EXTERNAL]Re: [galaxy-dev] Re: Ansible Galaxy using
Hi there,
Would anyone happen to know why Ansible tries to connect to a remote host
(CentOS 7) using 'root' during Galaxy role installation?
My playbook has been configured to connect to the remote host using a different
user account via SSH, however, the role installation is not honoring this
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