| Version 5 (modified by jazz, 16 years ago) (diff) |
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Some Notes from MPICH2 Installation Guide
Offical User's Guide
- MPICH2 test examples - cpi
- in Offical User's Guide
mpd & cd /home/you/mpich2-installed/examples mpiexec -n 3 cpi mpdallexit
- in Debian environment
jazz@bio-cluster-12:~$ mpd & [1] 3551 jazz@bio-cluster-12:~$ mpiexec -n 3 /usr/share/mpich2/examples/cpi Process 1 of 3 is on bio-cluster-12 Process 2 of 3 is on bio-cluster-12 Process 0 of 3 is on bio-cluster-12 pi is approximately 3.1415926544231318, Error is 0.0000000008333387 wall clock time = 0.001213 jazz@bio-cluster-12:~$ mpdallexit
- in Offical User's Guide
- Compiling and Linking
- 4.3 Special Issues for C++
- Some users may get error messages such as
SEEK_SET is #defined but must not be for the C++ binding of MPI
- The problem is that both stdio.h and the MPI C++ interface use SEEK SET, SEEK CUR, and SEEK END. This is really a bug in the MPI-2 standard. You can try adding following definition to the command line
-DMPICH_IGNORE_CXX_SEEK
- Some users may get error messages such as
- 4.3 Special Issues for C++
- 5.1 Standard mpiexec
- Currently, MPICH2 does not fully support calling the dynamic process routines from MPI-2 (e.g., MPI_Comm_spawn or MPI_Comm_accept) from processes that are not started with mpiexec.
- Note: this might be the reason why we encounter R-MPI mpi.spawn.Rslaves() problem.
- 5.3.1 Basic mpiexec arguments for MPD
- You can use mpiexec to run non-MPI programs as well. This is sometimes useful in making sure all the machines are up and ready for use. Useful examples include
mpiexec -n 10 hostname mpiexec -n 10 printenv
- You can use mpiexec to run non-MPI programs as well. This is sometimes useful in making sure all the machines are up and ready for use. Useful examples include
- 5.3.2 Other Command-Line Arguments to mpiexec for MPD
- This section describe machinefile format to specifying hosts, number of processes and interface host name(ifhn)
- i.e, ${hostname}:${number of processors} ifhn=${name of network interface}
# comment line hosta hostb:2 hostc ifhn=hostc-gige hostd:4 ifhn=hostd-gige
- 5.7.1 MPD in the PBS environment
- One way to convert the node file to the MPD format is as follows:
sort $PBS_NODEFILE | uniq -C | awk ’{ printf(”%s:%s”, $2, $1); }’ > mpd.nodes
- One way to convert the node file to the MPD format is as follows:
-
tty1: jazz@bio-cluster-12:~$ mpiexec -n 2 /home/jazz/demo1 This is machine 0 of 2 name = bio-cluster-12 This is machine 1 of 2 name = bio-cluster-08 ================================================================= tty2: jazz@bio-cluster-12:~$ mpdlistjobs jobid = 4@bio-cluster-12_48909 jobalias = username = jazz host = bio-cluster-12 pid = 3619 sid = 3618 rank = 0 pgm = /home/jazz/demo1 jobid = 4@bio-cluster-12_48909 jobalias = username = jazz host = bio-cluster-08 pid = 6187 sid = 6186 rank = 1 pgm = /home/jazz/demo1
