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