This project contains the wide area MPI used in the eSalsa project.
DISCLAIMER: This code is still experimental!!
The goal of eSalsa-MPI is to allow traditional MPI applications to be run on a -combination- of multiple supercomputers or clusters, without changing a single line of code in the application.
eSalsa-MPI is capable of merging several distict MPI jobs running on different supercomputers and present it to the application a a single set of MPI tasks. This way, the application "thinks" it is running on a single supercomputer, while in reality it it running on two or more.
eSalsa-MPI consists of three components, an MPI wrapper, gateways and a server, as shown in the example below:
The eMPI wrapper implements (part of) the regular MPI interface. This allows applications to be compiled against, and linked with, eSalsa-MPI instead of a "normal" MPI implementation. This way, all MPI calls performed by the application are intercepted by eSalsa-MPI.
However, eSalsa-MPI is -not- a complete MPI implementation. Instead, most MPI calls are simple forwarded to a local MPI implementation by using the MPI profiling interface. Only MPI calls that require wide area communication are handled differently.
The server acts as a central contact point that allows the distict eSalsa-MPI jobs running on different supercomputers to locate each other. In addition, the server provides support for operations on communicators and groups. For example, it is up to the server to create an MPI_COMM_WORLD communicator that contains all tasks on all particiating machines.
It is the tasks of the gateways to forward (local) MPI messages over the wide area links and vice versa. To do so, a gateway is connected to a peer gateway in a remote site via one or more TCP streams. Each site may use multiple gateways.
For each MPI call intercepted by eSalsa-MPI a decision is made if the call can be handled locally (for example, an MPI_Send to a different process in the same cluster) or if it must be forwarded to a local gateway that will forward it to a remote site (for example an MPI_Send between clusters or a collective operation that involves all processes).
As mentioned above, this code is still experimental. However, its has already been used to run both the Parallel Ocean Program (POP) and the Community Earth System Model (CESM) in a multicluster setting.
POP can be found at http://climate.lanl.gov/Models/POP/
CESM can be found at http://www2.cesm.ucar.edu/
First of all make sure you have defined the EMPI_HOME environent variable. For example:
export EMPI_HOME=/home/jason/eSalsa-MPI
Next, set the CC and FC variables in $EMPI_HOME/empi.config to refer
to the C and fortran compilers you which to use. Also set the MPICC
variable to refer to an mpi compiler (script) provided by the local
MPI you wish to use. For example:
CC=gcc
FC=gfortran
MPICC=mpicc
In addition, you will need to set the MPI_HOME variable to point to
the location of the MPI installation you wish to use. For example:
MPI_HOME=/usr/lib/openmpi
Also, the MPI_INCLUDE, MPI_LIBS and MPI_LIB variables may need to
be changed (although their default setting is often correct).
MPI_INCLUDE=$MPI_HOME/include
MPI_LIBS=$MPI_HOME/lib
MPI_LIB=mpi
Next, build eSalsa-MPI like this:
cd $EMPI_HOME
make
See example for an example on how to use eSalsa-MPI in an application.
The eSalsa Project is a cooperation between the Netherlands eScience Center (NLeSC), the Institute for Marine and Atmospheric Research (IMAU) at Utrecht University, and the Vrije Universiteit Amsterdam (VU).
The goal of the eSalsa project is to determine to what extent regional sea level in the eastern North Atlantic will be affected by changes in ocean circulation over the next decades.
During the project we will improve and extend POP with support for distributed computing techniques and accelerators (GPUs).
For more information on the eSalsa project see:
http://www.esciencecenter.nl/projects/project-portfolio/climate-research
Details of the latest version can be found on the eSalsa MPI project web site at:
https://github.com/NLeSC/eSalsa-MPI
Xenon is copyrighted by the Netherlands eScience Center and releases under the Apache License, Version 2.0.
See http://www.esciencecenter.nl for more information on the Netherlands eScience Center.
See the "LICENSE" file for more information.