Hello, thanks for taking a look at this again... No, not a single core... We have OpenMPI set to use a hostfile which specifies the nodes and processors per node. We specified 4 nodes, 4 processors each node, so 16 ranks total.
Thanks, Robert -----Original Message----- From: Sébastien Boisvert [mailto:sebastien.boisver...@ulaval.ca] Sent: Monday, November 11, 2013 2:34 PM To: Tyx, Robert (CDC/ONDIEH/NCEH) Cc: denovoassembler-users@lists.sourceforge.net Subject: Re: [Denovoassembler-users] error in running Ray with communities...need help On 08/11/13 03:02 PM, Tyx, Robert (CDC/ONDIEH/NCEH) wrote: > Hello, > The command was > > mpiexec --hostfile /home/openmpi-1.6.5/hosts.txt Ray -s >navy/XXXX_Meta_Small.fastq -o /home/rayOutputMPI_again/ -search >scripts/NCBI-Taxonomy/NCBI-taxonomy/NCBI-Finished-Bacterial-Genomes/ >-with-taxonomy scripts/NCBI-Taxonomy/NCBI-taxonomy/Genome-to-Taxon.tsv >scripts/NCBI-Taxonomy/NCBI-taxonomy/TreeOfLife-Edges.tsv >scripts/NCBI-Taxonomy/Tax NCBI-taxonomy/Taxon-Names.tsv I don't see the number of MPI ranks in your command. Are you running your test on one single computing core ? /home/rayOutputMPI_again/ is inside /home. Does the user that run Ray have the rights to create that directory? > > Thanks, > -Robert > ------------------------------------------------------------------------------ DreamFactory - Open Source REST & JSON Services for HTML5 & Native Apps OAuth, Users, Roles, SQL, NoSQL, BLOB Storage and External API Access Free app hosting. Or install the open source package on any LAMP server. Sign up and see examples for AngularJS, jQuery, Sencha Touch and Native! http://pubads.g.doubleclick.net/gampad/clk?id=63469471&iu=/4140/ostg.clktrk _______________________________________________ Denovoassembler-users mailing list Denovoassembler-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/denovoassembler-users
