Hello, Charles Taylor wrote: > Anyone have any experience with MpiBlast and Lustre. We have > MpiBlast-1.4.0-pio and lustre-1.6.3 and we are seeing some pretty > poor performance with most of the mpiblast threads spending 20% to > 50% of their time in disk wait. We have the genbank nt database > split into 24 fragments (one for each of our OSTs, 3 per OSS). The > individual fragments are not striped due to the ldlm_poold issue so > that should not be the problem. > > Should we not be using the PIO (ROM-IO) version of MPIBlast w/ lustre? > I am not familiar with MpiBlast implementation. Does it use collective I/O ? Could you please specify its I/O pattern here? And also it is always worth trying to adjust these hints, if you use MPI I/O.
disable/enable romio_cb_write disable/enable romio_ds_write ind_wr_buffer_size and ind_rd_buffer_size Thanks WangDi > I'm wondering if there are some already discovered guidelines for > using MPIBlast on top of Lustre that I'm not finding via google. > > Thanks, > > Charlie Taylor > UF HPC Center > > _______________________________________________ > Lustre-discuss mailing list > [email protected] > https://mail.clusterfs.com/mailman/listinfo/lustre-discuss > _______________________________________________ Lustre-discuss mailing list [email protected] https://mail.clusterfs.com/mailman/listinfo/lustre-discuss
