Hostfile should look like: master slots=4 max-slots=4 compute-0-0 slots=4 max-slots=4 compute-0-1 slots=4 max-slots=4 compute-0-2 slots=4 max-slots=4 compute-0-3 slots=4 max-slots=4 compute-0-4 slots=4 max-slots=4 compute-0-5 slots=4 max-slots=4 compute-0-6 slots=4 max-slots=4
so its format is: node name, #cpus or cores you want to use on that node, maximum number of cpus or cores on that node. You can locate openmpi-default-hostfile file and put this info in it or you can create your own file (say hfile), put it in some directory and then run mpirun -np 8 -hostfile hfile mdrun ... see the openMPI web site for more info http://www.open-mpi.org/ Jim -----Original Message----- From: [email protected] [mailto:[email protected]] On Behalf Of Thamu Sent: Thursday, June 11, 2009 10:54 AM To: [email protected] Subject: [gmx-users] Re: gromacs-4.0.5 parallel run in 8 cpu: slow speed Hi, i am using openmpi, how to build hostfile and where keep that file thamu _______________________________________________ gmx-users mailing list [email protected] http://lists.gromacs.org/mailman/listinfo/gmx-users Please search the archive at http://www.gromacs.org/search before posting! Please don't post (un)subscribe requests to the list. Use the www interface or send it to [email protected]. Can't post? Read http://www.gromacs.org/mailing_lists/users.php
