MPICH Users Guide

Version 3.0.4
Mathematics and Computer Science Division
Argonne National Laboratory
Pavan Balaji
Wesley Bland
James Dinan
David Goodell
William Gropp
Rob Latham
Antonio Pe
na
Rajeev Thakur
Past Contributors:
David Ashton
Darius Buntinas
Ralph Butler
Anthony Chan
Jayesh Krishna
Ewing Lusk
Guillaume Mercier
Rob Ross
Brian Toonen
April 24, 2013

This work was supported by the Mathematical, Information, and Computational Sciences Division subprogram of the Office of Advanced Scientific Computing Research, SciDAC Program, Office of Science, U.S. Department of Energy, under Contract DE-AC0206CH11357.

Contents
1 Introduction

2 Getting Started with MPICH

2.1

Default Runtime Environment

. . . . . . . . . . . . . . . . .

2.2

Starting Parallel Jobs . . . . . . . . . . . . . . . . . . . . . .

2.3

Command-Line Arguments in Fortran . . . . . . . . . . . . .

3 Quick Start

4 Compiling and Linking

4.1

Special Issues for C++ . . . . . . . . . . . . . . . . . . . . . .

4.2

Special Issues for Fortran . . . . . . . . . . . . . . . . . . . .

5 Running Programs with mpiexec

5.1

Standard mpiexec . . . . . . . . . . . . . . . . . . . . . . . .

5.2

Extensions for All Process Management Environments . . . .

5.3

mpiexec Extensions for the Hydra Process Manager . . . . .

5.4

Extensions for SMPD Process Management Environment . .

5.4.1

mpiexec arguments for SMPD . . . . . . . . . . . . .

Extensions for the gforker Process Management Environment

5.5.1

5.5

mpiexec arguments for gforker . . . . . . . . . . . . .

5.6

Restrictions of the remshell Process Management Environment 10

5.7

Using MPICH with SLURM and PBS . . . . . . . . . . . . .

10

5.7.1

11

OSC mpiexec . . . . . . . . . . . . . . . . . . . . . . .

6 Debugging
6.1

11

TotalView . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
i

11

7 Checkpointing

12

7.1

Configuring for checkpointing . . . . . . . . . . . . . . . . . .

12

7.2

Taking checkpoints . . . . . . . . . . . . . . . . . . . . . . . .

13

8 Other Tools Provided with MPICH

14

9 MPICH under Windows

14

9.1

Directories . . . . . . . . . . . . . . . . . . . . . . . . . . . . .

14

9.2

Compiling . . . . . . . . . . . . . . . . . . . . . . . . . . . . .

14

9.3

Running . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .

15

A Frequently Asked Questions

16

ii

1 INTRODUCTION

Introduction

This manual assumes that MPICH has already been installed. For instructions on how to install MPICH, see the MPICH Installers Guide, or the
README in the top-level MPICH directory. This manual explains how to
compile, link, and run MPI applications, and use certain tools that come
with MPICH. This is a preliminary version and some sections are not complete yet. However, there should be enough here to get you started with
MPICH.

Getting Started with MPICH

MPICH is a high-performance and widely portable implementation of the

MPI Standard, designed to implement all of MPI-1, MPI-2, and MPI-3 (including dynamic process management, one-sided operations, parallel I/O,
and other extensions). The MPICH Installers Guide provides some information on MPICH with respect to configuring and installing it. Details on
compiling, linking, and running MPI programs are described below.

2.1

Default Runtime Environment

MPICH provides a separation of process management and communication.

The default runtime environment in MPICH is called Hydra. Other process
managers are also available.

2.2

Starting Parallel Jobs

MPICH implements mpiexec and all of its standard arguments, together

with some extensions. See Section 5.1 for standard arguments to mpiexec
and various subsections of Section 5 for extensions particular to various
process management systems.

2.3

Command-Line Arguments in Fortran

MPICH1 (more precisely MPICH1s mpirun) required access to command

line arguments in all application programs, including Fortran ones, and

3 QUICK START

MPICH1s configure devoted some effort to finding the libraries that contained the right versions of iargc and getarg and including those libraries
with which the mpif77 script linked MPI programs. Since MPICH does not
require access to command line arguments to applications, these functions
are optional, and configure does nothing special with them. If you need
them in your applications, you will have to ensure that they are available in
the Fortran environment you are using.

Quick Start

To use MPICH, you will have to know the directory where MPICH has been
installed. (Either you installed it there yourself, or your systems administrator has installed it. One place to look in this case might be /usr/local.
If MPICH has not yet been installed, see the MPICH Installers Guide.)
We suggest that you put the bin subdirectory of that directory into your
path. This will give you access to assorted MPICH commands to compile,
link, and run your programs conveniently. Other commands in this directory
manage parts of the run-time environment and execute tools.
One of the first commands you might run is mpichversion to find out
the exact version and configuration of MPICH you are working with. Some
of the material in this manual depends on just what version of MPICH you
are using and how it was configured at installation time.
You should now be able to run an MPI program. Let us assume that the
directory where MPICH has been installed is /home/you/mpich-installed,
and that you have added that directory to your path, using
setenv PATH /home/you/mpich-installed/bin:$PATH
for tcsh and csh, or
export PATH=/home/you/mpich-installed/bin:$PATH
for bash or sh. Then to run an MPI program, albeit only on one machine,
you can do:
cd /home/you/mpich-installed/examples
mpiexec -n 3 ./cpi

4 COMPILING AND LINKING

Details for these commands are provided below, but if you can successfully execute them here, then you have a correctly installed MPICH and
have run an MPI program.

Compiling and Linking

A convenient way to compile and link your program is by using scripts

that use the same compiler that MPICH was built with. These are mpicc,
mpicxx, mpif77, and mpif90, for C, C++, Fortran 77, and Fortran 90 programs, respectively. If any of these commands are missing, it means that
MPICH was configured without support for that particular language.

4.1

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 standard. You can
try adding
#undef SEEK_SET
#undef SEEK_END
#undef SEEK_CUR
before mpi.h is included, or add the definition
-DMPICH_IGNORE_CXX_SEEK
to the command line (this will cause the MPI versions of SEEK SET etc. to
be skipped).

4.2

Special Issues for Fortran

MPICH provides two kinds of support for Fortran programs. For Fortran 77
programmers, the file mpif.h provides the definitions of the MPI constants

5 RUNNING PROGRAMS WITH MPIEXEC

such as MPI COMM WORLD. Fortran 90 programmers should use the MPI module
instead; this provides all of the definitions as well as interface definitions for
many of the MPI functions. However, this MPI module does not provide
full Fortran 90 support; in particular, interfaces for the routines, such as
MPI Send, that take choice arguments are not provided.

Running Programs with mpiexec

The MPI Standard describes mpiexec as a suggested way to run MPI programs. MPICH implements the mpiexec standard, and also provides some
extensions.

5.1

Standard mpiexec

Here we describe the standard mpiexec arguments from the MPI Standard [1]. The simplest form of a command to start an MPI job is
mpiexec -f machinefile -n 32 a.out
to start the executable a.out with 32 processes (providing an MPI COMM WORLD
of size 32 inside the MPI application). Other options are supported, for
search paths for executables, working directories, and even a more general
way of specifying a number of processes. Multiple sets of processes can be
run with different executables and different values for their arguments, with
: separating the sets of processes, as in:
mpiexec -f machinefile -n 1 ./master : -n 32 ./slave
It is also possible to start a one process MPI job (with a MPI COMM WORLD
whose size is equal to 1), without using mpiexec. This process will become
an MPI process when it calls MPI Init, and it may then call other MPI functions. Currently, MPICH does not fully support calling the dynamic process
routines from the MPI standard (e.g., MPI Comm spawn or MPI Comm accept)
from processes that are not started with mpiexec.

5 RUNNING PROGRAMS WITH MPIEXEC

5.2

Extensions for All Process Management Environments

Some mpiexec arguments are specific to particular communication subsystems (devices) or process management environments (process managers). Our intention is to make all arguments as uniform as possible
across devices and process managers. For the time being we will document
these separately.

5.3

mpiexec Extensions for the Hydra Process Manager

MPICH provides a number of process management systems. Hydra is the

default process manager in MPICH. More details on Hydra and its extensions to mpiexec can be found at http://wiki.mpich.org/mpich/index.
php/Using_the_Hydra_Process_Manager

5.4

Extensions for SMPD Process Management Environment

SMPD is an alternate process manager that runs on both Unix and Windows. It can launch jobs across both platforms if the binary formats match
(big/little endianness and size of C types int, long, void*, etc).
5.4.1

mpiexec arguments for SMPD

mpiexec for smpd accepts the standard MPI mpiexec options. Execute
mpiexec
or
mpiexec -help2
to print the usage options. Typical usage:
mpiexec -n 10 myapp.exe
All options to mpiexec:

5 RUNNING PROGRAMS WITH MPIEXEC

-n x
-np x
launch x processes
-localonly x
-np x -localonly
launch x processes on the local machine
-machinefile filename
use a file to list the names of machines to launch on
-host hostname
launch on the specified host.
-hosts n host1 host2 ...

hostn

-hosts n host1 m1 host2 m2 ... hostn mn

launch on the specified hosts. In the second version the number of
processes = m1 + m2 + ... + mn
-dir drive:\my\working\directory
-wdir /my/working/directory
launch processes with the specified working directory. (-dir and -wdir
are equivalent)
-env var val
set environment variable before launching the processes
-exitcodes
print the process exit codes when each process exits.
-noprompt
prevent mpiexec from prompting for user credentials. Instead errors
will be printed and mpiexec will exit.
-localroot
launch the root process directly from mpiexec if the host is local. (This
allows the root process to create windows and be debugged.)
-port port
-p port
specify the port that smpd is listening on.

5 RUNNING PROGRAMS WITH MPIEXEC

-phrase passphrase
specify the passphrase to authenticate connections to smpd with.
-smpdfile filename
specify the file where the smpd options are stored including the passphrase.
(unix only option)
-path search path
search path for executable, ; separated
-timeout seconds
timeout for the job.
Windows specific options:
-map drive:\\host\share
map a drive on all the nodes this mapping will be removed when the
processes exit
-logon
prompt for user account and password
-pwdfile filename
read the account and password from the file specified.
put the account on the first line and the password on the second
-nopopup debug
disable the system popup dialog if the process crashes
-priority class[:level]
set the process startup priority class and optionally level.
class = 0,1,2,3,4 = idle, below, normal, above, high
level = 0,1,2,3,4,5 = idle, lowest, below, normal, above, highest
the default is -priority 2:3
-register
encrypt a user name and password to the Windows registry.
-remove
delete the encrypted credentials from the Windows registry.
-validate [-host hostname]
validate the encrypted credentials for the current or specified host.

5 RUNNING PROGRAMS WITH MPIEXEC

-delegate
use passwordless delegation to launch processes.
-impersonate
use passwordless authentication to launch processes.
-plaintext
dont encrypt the data on the wire.

5.5

Extensions for the gforker Process Management Environment

gforker is a process management system for starting processes on a single machine, so called because the MPI processes are simply forked from
the mpiexec process. This process manager supports programs that use
MPI Comm spawn and the other dynamic process routines, but does not support the use of the dynamic process routines from programs that are not
started with mpiexec. The gforker process manager is primarily intended
as a debugging aid as it simplifies development and testing of MPI programs
on a single node or processor.
5.5.1

mpiexec arguments for gforker

In addition to the standard mpiexec command-line arguments, the gforker

mpiexec supports the following options:
-np <num> A synonym for the standard -n argument
-env <name> <value> Set the environment variable <name> to <value> for
the processes being run by mpiexec.
-envnone Pass no environment variables (other than ones specified with
other -env or -genv arguments) to the processes being run by mpiexec.
By default, all environment variables are provided to each MPI process
(rationale: principle of least surprise for the user)
-envlist <list> Pass the listed environment variables (names separated
by commas), with their current values, to the processes being run by
mpiexec.

5 RUNNING PROGRAMS WITH MPIEXEC

-genv <name> <value> The

-genv options have the same meaning as their corresponding -env version,
except they apply to all executables, not just the current executable (in
the case that the colon syntax is used to specify multiple execuables).
-genvnone Like -envnone, but for all executables
-genvlist <list> Like -envlist, but for all executables
-usize <n> Specify the value returned for the value of the attribute MPI UNIVERSE SIZE.
-l Label standard out and standard error (stdout and stderr) with the
rank of the process
-maxtime <n> Set a timelimit of <n> seconds.
-exitinfo Provide more information on the reason each process exited if
there is an abnormal exit
In addition to the commandline argments, the gforker mpiexec provides
a number of environment variables that can be used to control the behavior
of mpiexec:
MPIEXEC TIMEOUT Maximum running time in seconds. mpiexec will terminate MPI programs that take longer than the value specified by
MPIEXEC TIMEOUT.
MPIEXEC UNIVERSE SIZE Set the universe size
MPIEXEC PORT RANGE Set the range of ports that mpiexec will use in communicating with the processes that it starts. The format of this is
<low>:<high>. For example, to specify any port between 10000 and
10100, use 10000:10100.
MPICH PORT RANGE Has the same meaning as MPIEXEC PORT RANGE and is
used if MPIEXEC PORT RANGE is not set.
MPIEXEC PREFIX DEFAULT If this environment variable is set, output to standard output is prefixed by the rank in MPI COMM WORLD of the process
and output to standard error is prefixed by the rank and the text
(err); both are followed by an angle bracket (>). If this variable is
not set, there is no prefix.

5 RUNNING PROGRAMS WITH MPIEXEC

10

MPIEXEC PREFIX STDOUT Set the prefix used for lines sent to standard output. A %d is replaced with the rank in MPI COMM WORLD; a %w is replaced with an indication of which MPI COMM WORLD in MPI jobs that
involve multiple MPI COMM WORLDs (e.g., ones that use MPI Comm spawn
or MPI Comm connect).
MPIEXEC PREFIX STDERR Like MPIEXEC PREFIX STDOUT, but for standard error.
MPIEXEC STDOUTBUF Sets the buffering mode for standard output. Valid
values are NONE (no buffering), LINE (buffering by lines), and BLOCK
(buffering by blocks of characters; the size of the block is implementation defined). The default is NONE.
MPIEXEC STDERRBUF Like MPIEXEC STDOUTBUF, but for standard error.

5.6

Restrictions of the remshell Process Management Environment

The remshell process manager provides a very simple version of mpiexec

that makes use of the secure shell command (ssh) to start processes on a
collection of machines. As this is intended primarily as an illustration of
how to build a version of mpiexec that works with other process managers,
it does not implement all of the features of the other mpiexec programs
described in this document. In particular, it ignores the command line
options that control the environment variables given to the MPI programs.
It does support the same output labeling features provided by the gforker
version of mpiexec. However, this version of mpiexec can be used much like
the mpirun for the ch p4 device in MPICH-1 to run programs on a collection
of machines that allow remote shells. A file by the name of machines should
contain the names of machines on which processes can be run, one machine
name per line. There must be enough machines listed to satisfy the requested
number of processes; you can list the same machine name multiple times if
necessary.

5.7

Using MPICH with SLURM and PBS

There are multiple ways of using MPICH with SLURM or PBS. Hydra
provides native support for both SLURM and PBS, and is likely the easiest

6 DEBUGGING

11

way to use MPICH on these systems (see the Hydra documentation above
for more details).
Alternatively, SLURM also provides compatibility with MPICHs internal process management interface. To use this, you need to configure
MPICH with SLURM support, and then use the srun job launching utility
provided by SLURM.
For PBS, MPICH jobs can be launched in two ways: (i) use Hydras
mpiexec with the appropriate options corresponding to PBS, or (ii) using
the OSC mpiexec.
5.7.1

OSC mpiexec

Pete Wyckoff from the Ohio Supercomputer Center provides a alternate utility called OSC mpiexec to launch MPICH jobs on PBS systems. More information about this can be found here: http://www.osc.edu/~pw/mpiexec

Debugging

Debugging parallel programs is notoriously difficult. Here we describe a

number of approaches, some of which depend on the exact version of MPICH
you are using.

6.1

TotalView

MPICH supports use of the TotalView debugger from Etnus. If MPICH has
been configured to enable debugging with TotalView then one can debug an
MPI program using
totalview -a mpiexec -a -n 3 cpi
You will get a popup window from TotalView asking whether you want to
start the job in a stopped state. If so, when the TotalView window appears,
you may see assembly code in the source window. Click on main in the stack
window (upper left) to see the source of the main function. TotalView will
show that the program (all processes) are stopped in the call to MPI Init.

7 CHECKPOINTING

12

If you have TotalView 8.1.0 or later, you can use a TotalView feature
called indirect launch with MPICH. Invoke TotalView as:
totalview <program> -a <program args>
Then select the Process/Startup Parameters command. Choose the Parallel tab in the resulting dialog box and choose MPICH as the parallel system. Then set the number of tasks using the Tasks field and enter other
needed mpiexec arguments into the Additional Starter Arguments field.

Checkpointing

MPICH supports checkpoint/rollback fault tolerance when used with the

Hydra process manager. Currently only the BLCR checkpointing library
is supported. BLCR needs to be installed separately. Below we describe
how to enable the feature in MPICH and how to use it. This information
can also be found on the MPICH Wiki: http://wiki.mpich.org/mpich/
index.php/Checkpointing

7.1

Configuring for checkpointing

First, you need to have BLCR version 0.8.2 installed on your machine. If
its installed in the default system location, add the following two options
to your configure command:
--enable-checkpointing --with-hydra-ckpointlib=blcr

If BLCR is not installed in the default system location, youll need to

tell MPICHs configure where to find it. You might also need to set the
LD LIBRARY PATH environment variable so that BLCRs shared libraries can
be found. In this case add the following options to your configure command:
--enable-checkpointing --with-hydra-ckpointlib=blcr
--with-blcr=BLCR_INSTALL_DIR LD_LIBRARY_PATH=BLCR_INSTALL_DIR/lib

where BLCR INSTALL DIR is the directory where BLCR has been installed
(whatever was specified in --prefix when BLCR was configured). Note,
checkpointing is only supported with the Hydra process manager. Hyrda

7 CHECKPOINTING

13

will used by default, unless you choose something else with the --with-pm=
configure option.
After its configured, compile as usual (e.g., make; make install).

7.2

Taking checkpoints

To use checkpointing, include the -ckpointlib option for mpiexec to specify the checkpointing library to use and -ckpoint-prefix to specify the
directory where the checkpoint images should be written:
shell$ mpiexec -ckpointlib blcr \
-ckpoint-prefix /home/buntinas/ckpts/app.ckpoint \
-f hosts -n 4 ./app

While the application is running, the user can request for a checkpoint at
any time by sending a SIGUSR1 signal to mpiexec. You can also automatically checkpoint the application at regular intervals using the mpiexec option
-ckpoint-interval to specify the number of seconds between checkpoints:
shell$ mpiexec -ckpointlib blcr \
-ckpoint-prefix /home/buntinas/ckpts/app.ckpoint \
-ckpoint-interval 3600 -f hosts -n 4 ./app

The checkpoint/restart parameters can also be controlled with the environment variables HYDRA CKPOINTLIB, HYDRA CKPOINT PREFIX and HYDRA
CKPOINT INTERVAL.
Each checkpoint generates one file per node. Note that checkpoints for
all processes on a node will be stored in the same file. Each time a new
checkpoint is taken an additional set of files are created. The files are numbered by the checkpoint number. This allows the application to be restarted
from checkpoints other than the most recent. The checkpoint number can
be specified with the -ckpoint-num parameter. To restart a process:
shell$ mpiexec -ckpointlib blcr \
-ckpoint-prefix /home/buntinas/ckpts/app.ckpoint \
-ckpoint-num 5 -f hosts -n 4

Note that by default, the process will be restarted from the first checkpoint, so in most cases, the checkpoint number should be specified.

8 OTHER TOOLS PROVIDED WITH MPICH

14

Other Tools Provided with MPICH

MPICH also includes a test suite for MPI functionality; this suite may be
found in the mpich/test/mpi source directory and can be run with the
command make testing. This test suite should work with any MPI implementation, not just MPICH.

MPICH under Windows

9.1

Directories

The default installation of MPICH is in C:\Program Files\MPICH. Under

the installation directory are three sub-directories: include, bin, and lib.
The include and lib directories contain the header files and libraries necessary to compile MPI applications. The bin directory contains the process
manager, smpd.exe, and the MPI job launcher, mpiexec.exe. The dlls that
implement MPICH are copied to the Windows system32 directory.

9.2

Compiling

The libraries in the lib directory were compiled with MS Visual C++ .NET
2003 and Intel Fortran 8.1. These compilers and any others that can link
with the MS .lib files can be used to create user applications. gcc and g77
for cygwin can be used with the libmpich*.a libraries.
For MS Developer Studio users: Create a project and add
C:\Program Files\MPICH\include
to the include path and
C:\Program Files\MPICH\lib
to the library path. Add mpi.lib and cxx.lib to the link command. Add
cxxd.lib to the Debug target link instead of cxx.lib.
Intel Fortran 8 users should add fmpich.lib to the link command.
Cygwin users should use libmpich.a libfmpichg.a.

9 MPICH UNDER WINDOWS

9.3

15

Running

MPI jobs are run from a command prompt using mpiexec.exe. See Section 5.4 on mpiexec for smpd for a description of the options to mpiexec.

A FREQUENTLY ASKED QUESTIONS

16

Frequently Asked Questions

The frequently asked questions are maintained online here:http://wiki.

mpich.org/mpich/index.php/Frequently_Asked_Questions

References
[1] Message Passing Interface Forum. MPI2: A Message Passing Interface
standard. International Journal of High Performance Computing Applications, 12(12):1299, 1998.