Hi all,
I am using galaxy on the cloud and I keep getting the following error:
An error occurred running this job: Job output not returned from cluster
Any clues?
thanks
Alfonso
___
Please keep all replies on the list by using reply all
in
Hi Alfonso,
Is this any particular tool that's failing? What does the state of your cloud
cluster look like, are there any failures in the log? (in the cloudman
interface)
And lastly, when writing a new issue to the mailing list, please create a new
email instead of replying to an unrelated
] Job output not returned from Cluster
Sent:
Freitag, 13. Juli 2012 19:35
From:
Nate Coraor (n...@bx.psu.edu)
On Jul 9, 2012, at 11:25 AM, Sascha Kastens wrote:
Hi!
Unfortunately I was not able to fix this problem yet.
Is anybody out there who had a similar problem while using Galaxy
On Jul 9, 2012, at 11:25 AM, Sascha Kastens wrote:
Hi!
Unfortunately I was not able to fix this problem yet.
Is anybody out there who had a similar problem while using Galaxy with SGE or
has the knowledge about the things I can look at?
Hi Sascha,
The error message you are getting is
Hi Hemant,
thanks for your help. I have set the value to 100, but this did not fix the
problem.
I am now trying to get a NFS mounted with -noac.
Cheers,
Sascha
Original Message
processed by CONSOLIDATE
Subject:
RE: [galaxy-dev] Job output not returned from Cluster
Sent:
Montag
Hi!
Unfortunately I was not able to fix this problem yet.
Is anybody out there who had a similar problem while using Galaxy with SGE or
has the knowledge about the things I can look at?
Thanks in advance!
Cheers,
Sascha
___
Hi all,
I have exactly the same problem as described here:
http://gmod.827538.n3.nabble.com/Job-output-not-returned-from-cluster-td879580.html
All the SGE stuff is administrated in our company and unfortunately they know
nothing about
Galaxy and so it?s my task to get it running.
On Nov 29, 2011, at 9:22 PM, Fields, Christopher J wrote:
On Nov 29, 2011, at 3:13 AM, Peter Cock wrote:
On Monday, November 28, 2011, Joseph Hargitai
joseph.hargi...@einstein.yu.edu wrote:
Ed,
we had the classic goof on our cluster with this. 4 nodes could not see the
/home/galaxy
On Monday, November 28, 2011, Joseph Hargitai
joseph.hargi...@einstein.yu.edu wrote:
Ed,
we had the classic goof on our cluster with this. 4 nodes could not see
the /home/galaxy folder due to a missing entry in /etc/fstab. When the jobs
hit those nodes (which explains the randomness) we got
On Nov 29, 2011, at 3:13 AM, Peter Cock wrote:
On Monday, November 28, 2011, Joseph Hargitai
joseph.hargi...@einstein.yu.edu wrote:
Ed,
we had the classic goof on our cluster with this. 4 nodes could not see the
/home/galaxy folder due to a missing entry in /etc/fstab. When the jobs
...@bx.psu.edu]
Sent: Friday, October 21, 2011 10:26 AM
To: Joseph Hargitai
Cc: galaxy-dev@lists.bx.psu.edumailto:galaxy-dev@lists.bx.psu.edu
Subject: Re: [galaxy-dev] Job output not returned from cluster
Joseph Hargitai wrote:
Hi,
i was browsing through the list and found many entries
, October 21, 2011 10:26 AM
To: Joseph Hargitai
Cc: galaxy-dev@lists.bx.psu.edu
Subject: Re: [galaxy-dev] Job output not returned from cluster
Joseph Hargitai wrote:
Hi,
i was browsing through the list and found many entries for this issue but
not a definite answer.
We
Joseph Hargitai wrote:
Hi,
i was browsing through the list and found many entries for this issue but not
a definite answer.
We are actually running into this error for simple file uploads from the
internal filesystem.
Hi Joe,
This error occurs when the job's standard output and
AM
To: Joseph Hargitai
Cc: galaxy-dev@lists.bx.psu.edu
Subject: Re: [galaxy-dev] Job output not returned from cluster
Joseph Hargitai wrote:
Hi,
i was browsing through the list and found many entries for this issue but not
a definite answer.
We are actually running into this error
Hi,
i was browsing through the list and found many entries for this issue but not a
definite answer.
We are actually running into this error for simple file uploads from the
internal filesystem.
thanks,
joe
___
Please keep all replies
On Fri, Jul 29, 2011 at 1:01 AM, Ka Ming Nip km...@bcgsc.ca wrote:
My jobs have this problem when the command for the tool is wrapped by the
stderr wrapper script.
Ka Ming
Which stderr wrapper script? I think there is more than one...
I've also had this error message (I'm currently working
It was the one on the wiki page.
Ka Ming
From: Peter Cock [p.j.a.c...@googlemail.com]
Sent: July 29, 2011 2:42 AM
To: Ka Ming Nip
Cc: Edward Kirton; galaxy-dev@lists.bx.psu.edu
Subject: Re: [galaxy-dev] Job output not returned from cluster
On Fri, Jul 29
thanks for your comments, fellas.
permissions would certainly cause this problem, but that's not the cause for
me.
most wrappers just serve to redirect stderr, so i don't think it's the
wrapper script itself, but the stdout/stderr files are part of the problem.
the error message is thrown in
I've been getting these errors sometimes lately, particularly when the
cluster is heavily loaded. The jobs have completed successfully, as I can
see the output if I click the pen icon, but the job is in a failed state.
Have any other sites been experiencing this problem?
Or can the galaxy
:41 PM
To: galaxy-dev@lists.bx.psu.edu
Subject: [galaxy-dev] Job output not returned from cluster
I've been getting these errors sometimes lately, particularly when the cluster
is heavily loaded. The jobs have completed successfully, as I can see the
output if I click the pen icon, but the job
20 matches
Mail list logo
