Hello all,
I'm curious if there is any way to manipulate the Galaxy job
queuing in order to be 'fairer' to multiple simultaneous users.
My impression is that Galaxy uses a simple FIFO queue itself,
with for cluster jobs offloaded to the cluster queue immediately.
In our case, I'm looking at
On May 1, 2012, at 4:32 AM, liram_va...@agilent.com wrote:
Hi Nate,
Great! Thanks.
Any chance that this change will be also included on galaxy-dist soon?
Our next dist was supposed to be out already but it was stalled to fix a few
bugs. It'll most likely be in the next one, whenever
Hi Nate,
Great! Thanks.
Any chance that this change will be also included on galaxy-dist soon?
Thanks,
Liram
-Original Message-
From: Nate Coraor [mailto:n...@bx.psu.edu]
Sent: Monday, April 30, 2012 11:29 PM
To: VARDI,LIRAM (A-Labs,ex1)
Cc: galaxy-...@bx.psu.edu; BEN-DOR,AMIR
Hi all,
We're running our Galaxy with an SGE cluster, using the DRMAA
support in Galaxy, and job splitting. I've noticed if the user cancels
a job (that was running or queued on the cluster) while the job is
shows as deleted in Galaxy, looking at the queue on the cluster
with qstat shows it
I'll take care of it. Thanks for reminding me about the TODO!
On May 1, 2012, at 10:03 AM, Dannon Baker dannonba...@me.com wrote:
On May 1, 2012, at 9:51 AM, Peter Cock wrote:
I'm a little confused about tasks.py vs drmaa.py but that TODO
comment looks pertinent. Is that the problem
Hello all,
The May 2012 Galaxy Update
http://wiki.g2.bx.psu.edu/GalaxyUpdates/2012_05is now available (
http://wiki.g2.bx.psu.edu/GalaxyUpdates/2012_05). *Galaxy
Updatehttp://wiki.g2.bx.psu.edu/GalaxyUpdates
* is a (mostly) monthly summary of what is going on in the Galaxy
community. *Galaxy
Hi,
Recently Full Path display was added as an option. I was wondering
if this information could also be available when accessing a dataset
information through the API.
Thanks,
Carlos
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Sure, good idea. I'll tie it in.
-Dannon
On May 1, 2012, at 3:03 PM, Carlos Borroto wrote:
Hi,
Recently Full Path display was added as an option. I was wondering
if this information could also be available when accessing a dataset
information through the API.
Thanks,
Carlos
Hi,
We run Galaxy and Sun Grid Engine cluster environment (DRMAA API).
When i start a job (e.g. : blast), the job runs on the cluster, and
produces results output files. But in the history web interface, the job
status is in error with this message :
malloc: using debugging hooks
/bin/sh:
hi Dan,
Thanks for your replay. I have now installed MACS 1.3.7.1, so the script
macs_wrapper.py is not trying to call the correct executable.
When I try to run MACS from galaxy, I do however get what an error:
Messages from MACS:
INFO @ Tue, 01 May 2012 14:47:42:
# ARGUMENTS LIST:
# name =
sorry, I meant is NOW trying to call the correct executable, but I still
get the error.
thanks,
S.
On 1 May 2012 14:51, Sergei Manakov siarheimana...@gmail.com wrote:
hi Dan,
Thanks for your replay. I have now installed MACS 1.3.7.1, so the script
macs_wrapper.py is not trying to call the
Thanks for the reply, Nate!
Cheers,
CL
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Thanks for the reply! I'll try that one. I'll come back if the problem
still persists.
Cheers,
CL
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