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
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"
i
] 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 prob
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 getti
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. Everyth
yes, i think galaxy already grabs these files. i seem to recall this
process would get stuck if the output was too large (i was running
something with a --debug/verbose option and galaxy would not finish the job
even though it was off the cluster -- had to redirect to a log file).
so i guess othe
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
>> wrote:
>>> Ed,
>>>
>>> we had the classic goof on our cluster with this. 4 nodes could not see the
>>> /home/galaxy folder due to a
On Nov 29, 2011, at 3:13 AM, Peter Cock wrote:
> On Monday, November 28, 2011, Joseph Hargitai
> 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 (w
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 go
joe
>
>
> From: Nate Coraor [n...@bx.psu.edu<mailto:n...@bx.psu.edu>]
> Sent: Friday, October 21, 2011 10:26 AM
> To: Joseph Hargitai
> Cc: galaxy-dev@lists.bx.psu.edu<mailto:galaxy-dev@lists.bx.psu.edu>
> Subject: Re: [galaxy-de
>
> >
> > thanks,
> > joe
> >
> >
> > From: Nate Coraor [n...@bx.psu.edu]
> > Sent: Friday, October 21, 2011 10:26 AM
> > To: Joseph Hargitai
> > Cc: galaxy-dev@lists.bx.psu.edu
> > Subject: Re: [ga
;
> From: Nate Coraor [n...@bx.psu.edu]
> Sent: Friday, 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:
> >
> >
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 ru
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 a
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 o
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 the
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"
O
On Fri, Jul 29, 2011 at 1:01 AM, Ka Ming Nip 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 out how to
: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 ic
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 develop
22 matches
Mail list logo
