Hello, I CC'ed the mail to the community mailing list.
To subscribe: https://lists.sourceforge.net/lists/listinfo/denovoassembler-users On 23/04/13 04:01 PM, Daniel Gruner wrote: > Hi Alison, > > We've noticed you are running a fairly large Ray assembly job, like you > did last Saturday. It turns out that this job causes a high load on the > filesystem, and the effect is to slow down access to file for everybody > on SciNet. > On gpc, right ? > We are not sure why this is, and in fact I'd like to contact the developer of > Ray, Sebastien Boisvert, about it. Perhaps you can tell me some details of > your current calculation, using 1024 cores. > > There is a new version of Ray out, and it is conceivable that some of the > problems > have been addressed. Would you be able to test it? Supposedly it fixes a > number > of issues. The following options can do a lot of input/output operations: -write-kmers -read-write-checkpoints CheckpointDirectory > > It may be useful to be able to tell the developer of Ray what exactly you are > doing > in your calculation, so that he may be able to determine if there is indeed a > problem with his I/O strategy. Can you provide the complete command line ? The file format .fastq.gz has a readahead code implemented too. That may help. > > I am copying Sebastien in this email. > > Thanks and regards, > Danny > ------------------------------------------------------------------------------ Try New Relic Now & We'll Send You this Cool Shirt New Relic is the only SaaS-based application performance monitoring service that delivers powerful full stack analytics. Optimize and monitor your browser, app, & servers with just a few lines of code. Try New Relic and get this awesome Nerd Life shirt! http://p.sf.net/sfu/newrelic_d2d_apr _______________________________________________ Denovoassembler-users mailing list Denovoassembler-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/denovoassembler-users
