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 >> >> ___________________________________________________________ >> Please keep all replies on the list by using "reply all" >> in your mail client. To manage your subscriptions to this >> and other Galaxy lists, please use the interface at: >> http://lists.bx.psu.edu/ >> >> To search Galaxy mailing lists use the unified search at: >> http://galaxyproject.org/search/mailinglists/ > > ===================================== > 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 > Meyerhofstraße 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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