What did the plugin do/add? Was it more for metahenomics/phylogeny?
Thanks I'll check that. Louis Sébastien Boisvert <sebastien.boisver...@ulaval.ca> wrote: Hello, You are using Ray v2.0-rc5. I recently disabled the plugin GenomeNeighbourhood altogether. There is v2.0-rc6 via git, but I am still working on some bugs. But this problem has been solved. Le 2012-05-16 04:41, Louis Letourneau a écrit : > Hello Ray users, > I'm trying to assemble a 300MB eukaryote genome that has a mix of pairs > and mates at about 100x. > > I'm running on the mammouth cluster in canada if you know it. > I asked for 10nodes 24cores each. After 120hours it was still at 'fetching > contig path neighbours 50/567' > > I hava assembled this genome with about half the reads on a small 48core > server in a few hours previously (not the same cluster) with Ray 1.x > > Do you know what could be the culprit? I'm not an mpi expert but it's either > something in Ray2.0 (I doubt) or something with mpi. > > I used module openmpi_gcc1.4.3_ofed. > > Thanks > Louis > ------------------------------------------------------------------------------ > Live Security Virtual Conference > Exclusive live event will cover all the ways today's security and > threat landscape has changed and how IT managers can respond. Discussions > will include endpoint security, mobile security and the latest in malware > threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ > _______________________________________________ > Denovoassembler-users mailing list > Denovoassembler-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/denovoassembler-users ------------------------------------------------------------------------------ Live Security Virtual Conference Exclusive live event will cover all the ways today's security and threat landscape has changed and how IT managers can respond. Discussions will include endpoint security, mobile security and the latest in malware threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ _______________________________________________ Denovoassembler-users mailing list Denovoassembler-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/denovoassembler-users ------------------------------------------------------------------------------ Live Security Virtual Conference Exclusive live event will cover all the ways today's security and threat landscape has changed and how IT managers can respond. Discussions will include endpoint security, mobile security and the latest in malware threats. http://www.accelacomm.com/jaw/sfrnl04242012/114/50122263/ _______________________________________________ Denovoassembler-users mailing list Denovoassembler-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/denovoassembler-users
