[Bioclusters] Questions about setting up InterProScan on clusters

Bernard Li bli at bcgsc.ca
Wed Sep 6 16:53:02 EDT 2006

Hi Sarah:

I'm not sure if there are already documentations/HOWTO on how to setup
InterProScan with SGE/PBS, but if there aren't, perhaps we can have
someone host a wiki and have these documentations available and linked
directly from your page - in that case at least folks have some idea on
how to get started.

Just my $0.02.



> -----Original Message-----
> From: bioclusters-bounces+bli=bcgsc.ca at bioinformatics.org 
> [mailto:bioclusters-bounces+bli=bcgsc.ca at bioinformatics.org] 
> On Behalf Of Sarah Hunter
> Sent: Tuesday, September 05, 2006 3:59
> To: bioclusters at bioinformatics.org
> Subject: [Bioclusters] Questions about setting up 
> InterProScan on clusters
> Hi everyone,
> I just wanted to post a quick message to the mailing list to 
> firstly apologise if there have been 
> any problems with setting up InterProScan on your clusters - 
> unfortunately, we only have LSF 
> in-house and we therefore can't test on other systems like 
> SGE or PBS.  However, I always try to 
> hazard a guess when we get questions about those systems. 
> Specifically, the SGE configuration files 
> themselves were re-written for SGE6 by me having remote 
> access to a user's installation (thank you 
> Jenny!) although I soon discovered that that installation had 
> its own quirks which were not standard 
> for other systems.
> The fact that you guys are here supporting each other when 
> installing the software on these atypical 
> (to EBI, anyway) set-ups is a great help - particularly 
> because we only have a limited number of 
> people who can answer support emails (i.e. mainly me).
> I just want to reiterate that if you have any questions about 
> setting InterProScan on your local 
> clusters, please email support (at) ebi.ac.uk or interhelp 
> (at) ebi.ac.uk.  If you don't get a reply 
> within a couple of days, hassle us again :-)
> At the same time, it would be nice to encourage the 
> development of a community of InterProScan users 
> who have the program installed on different clusters, so that 
> if anyone has a question about a 
> queue-specific issue, the community could be consulted and 
> alterations tested, rather than relying 
> on our limited resources at EBI.  What do people think about this?
> Sorry if you emailed and didn't get a satisfactory response.  
> And thanks for all the hard work you 
> have evidentially put in in order to get InterProScan working.
> Best regards,
> Sarah Hunter
> -----------------------------------------
>   InterPro Programming Coordinator
>   E.B.I.
>   Wellcome Trust Genome Campus
>   Hinxton
>   CB10 1SD
> -----------------------------------------
> _______________________________________________
> Bioclusters maillist  -  Bioclusters at bioinformatics.org
> https://bioinformatics.org/mailman/listinfo/bioclusters

More information about the Bioclusters mailing list