[Bioclusters] Gridengine on LinuxPPC

[Rayson Ho]

I know that Reuti+Ron (on the SGE mailing list) and you guys at
terrasoftsolutions were both porting SGE to LinuxPPC... so which
version is now shipping with YDL??

Rayson


--- William Harman <wharman at prism.net> wrote:
> support if required.  Supported are ext3, XFS, PVFS2.
> http://www.terrasoftsolutions.com/products/y-hpc/applications.shtml
> 
> I would also suggest that you might want to check our web site in
> early
> August for an announcement concerning a Bio package which Terra Soft
> will
> release for a PowerPC - Linux platform, as well as some new PowerPC
> products.  www.terrasoftsolutions.com
> 
> 
> Bill Harman,
> Director of Sales
> Terra Soft Solutions
> Salt Lake City office
> P - (801) 572-9252  F - (801) 571-4927
> wharman at terrasoftsolutions.com
> wharman at prism.net
> billharman at comcast.net
> skype: harman8015729252
>  
> 
> -----Original Message-----
> From: bioclusters-bounces+wharman=prism.net at bioinformatics.org
> [mailto:bioclusters-bounces+wharman=prism.net at bioinformatics.org] On
> Behalf
> Of John H. Lee
> Sent: Thursday, July 14, 2005 4:38 PM
> To: Clustering, compute farming & distributed computing in life
> science
> informatics
> Subject: Re: [Bioclusters] OS X and NFS
> 
> 
> Since Juan's system is OS X, can anyone offer a suggestion for OS X? 
>  
> Cluster filesystems like Lustre and PVFS sound promising for Linux,
> but what
> options do we have on Macs?  Any experience with Xsan?  With a fibre
> channel
> limit of 64 endpoints, can Xsan even be considered for systems as
> large as
> Tim's?
> 
> We have a 16-node Xserve cluster with one Xserve RAID.  The RAID is
> connected via FC to one server, which exports the volumes via AFP and
> NFS
> over gigabit ethernet.  As expected, the AFP/NFS server is a
> bottleneck.
> 
> -John
> 
> On Jul 14, 2005, at 1:32 AM, Tim Cutts wrote:
> 
> > On 13 Jul 2005, at 7:01 pm, M. Michael Barmada wrote:
> >
> >
> >> Hi Carlos,
> >>
> >> If its any help, we also had similar problems with our cluster.  
> >> Our solution
> >> was to train the users to include code in their scripts that would
>  
> >> create
> >> local directories (on the compute node - in /tmp) and copy the  
> >> files they
> >> needed to those directories, then do their computing locally and  
> >> copy back
> >> the results.
> >>
> >
> > Absolutely.  And preferably do the copying with something other  
> > than NFS too - rcp or rsync work well, or the scheduler's built-in 
> 
> > mechanism.
> > Most batch schedulers have built in abilities to this - LSF  
> > certainly does, in the form of lsrcp and various options to bsub.  
> 
> > I don't know about SGE - I'm not familiar with it, but I imagine  
> > the same sort of features are available.
> >
> > It really is quite amazing how badly NFS scales.  I remember having
>  
> > serious problems with it on the first Linux cluster I built at  
> > Incyte's UK office about 6 years ago, and that was just 7 dual-CPU 
> 
> > nodes talking to a Sun E3000 NFS server.  It didn't crash, but it  
> > got *really* slow - and that was deliberately caching the data  
> > locally (I wrote wrapper scripts around blastall and other  
> > applications to cache the databases locally, blowing them away by a
>  
> > least-recently-used method if there wasn't room).
> >
> > Sanger's current 1100 node cluster still has NFS in places, and it 
> 
> > regularly causes us grief.  Our medium-term aim is to remove pretty
>  
> > much all NFS from the cluster altogether, with the possible  
> > exception of automounted home directories, and use cluster  
> > filesystems like Lustre for shared data.
> >
> > Tim
> >
> > -- 
> > Dr Tim Cutts
> > Informatics Systems Group, Wellcome Trust Sanger Institute
> > GPG: 1024D/E3134233 FE3D 6C73 BBD6 726A A3F5  860B 3CDD 3F56 E313
> 4233
> >
> > _______________________________________________
> > Bioclusters maillist  -  Bioclusters at bioinformatics.org
> > https://bioinformatics.org/mailman/listinfo/bioclusters
> >
> 
> --
> John H. Lee
> Berkeley Phylogenomics Group
> http://phylogenomics.berkeley.edu
> 
> _______________________________________________
> Bioclusters maillist  -  Bioclusters at bioinformatics.org
> https://bioinformatics.org/mailman/listinfo/bioclusters
> 
> 
> _______________________________________________
> Bioclusters maillist  -  Bioclusters at bioinformatics.org
> https://bioinformatics.org/mailman/listinfo/bioclusters
> 



		
____________________________________________________
Start your day with Yahoo! - make it your home page 
http://www.yahoo.com/r/hs