Thank you, Bjoern
It turns out that I forgot start the scheduler, and now galaxy runs smoothly
with torque.
I am also trying to add more tools, some .xml config of the added tools can be
found in tools, but some of them are missing, I don't know where are they. I
want to try do some
Hi Ben,
Most of the tools you are looking for should be in the Galaxy Tool Shed:
https://toolshed.g2.bx.psu.edu/
As for the earlier question regarding the resource selector drop down menu
which I assume you are seeing on Galaxy Test, this is a feature currently
available in the development
On Jul 23, 2014, at 6:42 AM, Peter Cock p.j.a.c...@googlemail.com wrote:
Interesting hypothesis - you may well be right.
Galaxy guys - who is the expert to talk to on this and/or where
in the code should we be looking?
Thanks,
Peter
I think there's a bit of a mixup here - Peter, I
On Jul 22, 2014, at 2:13 PM, John Chilton jmchil...@gmail.com wrote:
Running jobs as the real user is not available with the PBS job
runner - one has to use the DRMAA interface to submit jobs as the real
user.
That said, the DRMAA runner plugin is compatible with Torque, you just need to
Hmm... the random_lines1 test case distributed with bioblend is kind
of like this but a little more complex because it includes a
conditional also:
https://github.com/jmchilton/bioblend/blob/master/tests/TestGalaxyTools.py#L68
Just using random_lines1 without specifying anything in the
Not exactly a dev question, but I was asked recently how many sites are running
galaxy. The wiki page listing deployments seems not to reflect the actual
number, since may are most likely private.
Is there an estimate?
--
David Lapointe Ph.D.
Sr. Bioinformatics Specialist
Research and
There is a list of the ones that reached back to us and are publicly
accessible (~60): https://wiki.galaxyproject.org/PublicGalaxyServers
As of private ones there is no good clue as Galaxy does not call home.
M.
On Thu, Jul 24, 2014 at 12:55 PM, Lapointe, David david.lapoi...@tufts.edu
wrote:
Nate and John,
I tried with pbs-drmaa and it crashed my galaxy server when the server was
started and tried to load the drmaa library .
However, I am able to make the drmaa library that comes with TORQUE working
with galaxy if sudo is not use.. With sudo,
there are still problems I am working to
