Simple UserGuide for MPICH2
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* '''run a MPI program to check the parallel environment''' | * '''run a MPI program to check the parallel environment''' | ||
| - | [pineking@ifp-32 test]$ mpiexec -n 4 ./cpi | + | [pineking@ifp-32 test]$ mpiexec -l -n 4 ./cpi |
| - | Process 0 on ifp-32.ifp.uiuc.edu | + | 0: Process 0 on ifp-32.ifp.uiuc.edu |
| - | Process 1 on compute-1-14.local | + | 1: Process 1 on compute-1-14.local |
| - | Process | + | 2: Process 2 on compute-1-13.local |
| - | Process | + | 3: Process 3 on compute-1-11.local |
| - | pi is approximately 3.1416009869231249, Error is 0.0000083333333318 | + | 0: pi is approximately 3.1416009869231249, Error is 0.0000083333333318 |
| - | wall clock time = 0. | + | 0: wall clock time = 0.005698 |
=Using MPI with qsub on ifp-32= | =Using MPI with qsub on ifp-32= | ||
Revision as of 00:20, 3 May 2010
Contents |
MPICH2 on ifp-32
Version and configure information:
[pineking@ifp-32 mpich2]$ mpich2version MPICH2 Version: 1.2.1 MPICH2 Release date: Unknown, built on Sun Jan 10 18:06:02 CST 2010 MPICH2 Device: ch3:nemesis MPICH2 configure: --prefix=/cworkspace/ifp-32-2/hasegawa/pineking/programs/mpich2/ --enable-cxx --enable-threads=multiple MPICH2 CC: gcc -O2 MPICH2 CXX: g++ -O2 MPICH2 F77: gfortran -O2 MPICH2 F90: f95 -O2
Parallel environment on SGE:
[pineking@ifp-32 test]$ qconf -sp mpich pe_name mpich slots 9999 user_lists NONE xuser_lists NONE start_proc_args /opt/gridengine/mpi/startmpi.sh -catch_rsh $pe_hostfile stop_proc_args /opt/gridengine/mpi/stopmpi.sh allocation_rule $fill_up control_slaves TRUE job_is_first_task FALSE urgency_slots min accounting_summary TRUE
Users
- add MPICH2 binary path to your PATH
export PATH=/cworkspace/ifp-32-2/hasegawa/pineking/programs/mpich2/bin:$PATH
Check we can find them:
which mpd which mpiexec which mpirun
- .mpd.conf
MPI expects the configuration file in your home directory named ~/.mpd.conf (/etc/mpd.conf if root). It should contain one line:
secretword=<secretword>
where <secretword> is a password, that should not be your user password. Make it readable/writable only by you:
chmod 600 .mpd.conf
- check mpd daemon
[pineking@ifp-32 test]$ mpdtrace
ifp-32 compute-1-14 compute-1-13 compute-1-11 compute-1-8 compute-1-12 compute-1-2 compute-1-16 compute-1-15 compute-1-7 compute-1-6 compute-1-1 compute-1-10 compute-1-9 compute-1-3 compute-1-5 compute-1-4
The information above show that mpd daemon is already run on each node.
- run a MPI program to check the parallel environment
[pineking@ifp-32 test]$ mpiexec -l -n 4 ./cpi 0: Process 0 on ifp-32.ifp.uiuc.edu 1: Process 1 on compute-1-14.local 2: Process 2 on compute-1-13.local 3: Process 3 on compute-1-11.local 0: pi is approximately 3.1416009869231249, Error is 0.0000083333333318 0: wall clock time = 0.005698
Using MPI with qsub on ifp-32
- Create a bash file, such as:
#!/bin/bash #$ -cwd #$ -pe mpich 4 /cworkspace/ifp-32-2/hasegawa/pineking/programs/mpich2/bin/mpiexec -n 3 ./cpi
and submit:
qsub ./test.sh
Administrators
- MPI host file: mpd.hosts
Create a host file named "mpd.hosts" in your home directory ~/mpd.hosts , it contains the hosts list, such as:
compute-1-1 compute-1-2 compute-1-3 compute-1-4 compute-1-5 compute-1-6 compute-1-7 compute-1-8 compute-1-9 compute-1-10 compute-1-11 compute-1-12 compute-1-13 compute-1-14 compute-1-15 compute-1-16
