Hi Charles,

That actually helps.  I don't have any choice in running LSF but knowing that 
it didn't work because LSF is rejecting it helps when I talk to my boss about 
why I couldn't do it.

Shane

On 5/03/2014, at 10:28 pm, Charles Girardot <charles.girar...@embl.de> wrote:

> Hi Shane, 
> 
> We had enabled this feature on our cluster working with PBS but since we 
> switched to LSF, we never managed to have it working again. Same error as 
> yours if I correctly remember. After hours spent looking into LSF, I think we 
> understood that LSF somehow catches the user change and rejects the job. We 
> finally gave up. 
> 
> I am not sure this helps ...
> 
> bw
> 
> Charles
> 
> 
> On 5 Mar 2014, at 02:55, Shane Sturrock wrote:
> 
>> Has anyone had any success in getting cluster jobs running as the real user? 
>>  I've got our server happily working with LSF via drmaa but all jobs run as 
>> the galaxy user and I would like to be able to separate out the jobs on a 
>> per user basis.  I've followed the instructions at 
>> https://wiki.galaxyproject.org/Admin/Config/Performance/Cluster#Submitting_Jobs_as_the_Real_User
>> but I'm having no luck with it so was wondering if someone would know how I 
>> might debug it, like where could I find the script it is trying to execute?  
>> All I'm getting is code 18: invalid LSF job id although it does seem to be 
>> creating files in my databases/tmp directory owned by the user.
>> 
>> Shane
>> 
>> --
>> Dr Shane Sturrock
>> shane.sturr...@biomatters.com
>> Senior Scientist
>> Tel: +64 (0) 9 379 5064
>> 76 Anzac Ave
>> Auckland
>> New Zealand
>> 
>> ___________________________________________________________
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> 
> =====================================
> Charles Girardot
> Head of Genome Biology Computational Support (GBCS)
> European Molecular Biology Laboratory
> Tel: +49 6221 387 -8585
> Fax: +49-(0)6221-387-8166 
> Email: charles.girar...@embl.de
> Room V205
> Meyerhofstra├če 1, 
> 69117 Heidelberg, Germany
> =====================================
> 
> 
> 
> 
> 
> 
> 
> 
> 
> 
> 
> 
> 
> 

--
Dr Shane Sturrock
shane.sturr...@biomatters.com
Senior Scientist
Tel: +64 (0) 9 379 5064
76 Anzac Ave
Auckland
New Zealand

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