Mise a jour de la partie experimentation

[hpcc2014.git] / hpcc.tex

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\begin{document}

\title{Simulation of Asynchronous Iterative Numerical Algorithms Using SimGrid}

\author{%
  \IEEEauthorblockN{%
    Charles Emile Ramamonjisoa\IEEEauthorrefmark{1},
    David Laiymani\IEEEauthorrefmark{1},
    Arnaud Giersch\IEEEauthorrefmark{1},
    Lilia Ziane Khodja\IEEEauthorrefmark{2} and
    Raphaël Couturier\IEEEauthorrefmark{1}
  }
  \IEEEauthorblockA{\IEEEauthorrefmark{1}%
    Femto-ST Institute -- DISC Department\\
    Université de Franche-Comté,
    IUT de Belfort-Montbéliard\\
    19 avenue du Maréchal Juin, BP 527, 90016 Belfort cedex, France\\
    Email: \email{{charles.ramamonjisoa,david.laiymani,arnaud.giersch,raphael.couturier}@univ-fcomte.fr}
  }
  \IEEEauthorblockA{\IEEEauthorrefmark{2}%
    Inria Bordeaux Sud-Ouest\\
    200 avenue de la Vieille Tour, 33405 Talence cedex, France \\
    Email: \email{lilia.ziane@inria.fr}
  }
}

\maketitle

\RC{Ordre des auteurs pas définitif.}
\begin{abstract}
\AG{L'abstract est AMHA incompréhensible et ne donne pas envie de lire la suite.}
In recent years, the scalability of large-scale implementation in a 
distributed environment of algorithms becoming more and more complex has 
always been hampered by the limits of physical computing resources 
capacity. One solution is to run the program in a virtual environment 
simulating a real interconnected computers architecture. The results are 
convincing and useful solutions are obtained with far fewer resources 
than in a real platform. However, challenges remain for the convergence 
and efficiency of a class of algorithms that concern us here, namely 
numerical parallel iterative algorithms executed in asynchronous mode, 
especially in a large scale level. Actually, such algorithm requires a 
balance and a compromise between computation and communication time 
during the execution. Two important factors determine the success of the 
experimentation: the convergence of the iterative algorithm on a large 
scale and the execution time reduction in asynchronous mode. Once again, 
from the current work, a simulated environment like SimGrid provides
accurate results which are difficult or even impossible to obtain in a 
physical platform by exploiting the flexibility of the simulator on the 
computing units clusters and the network structure design. Our 
experimental outputs showed a saving of up to \np[\%]{40} for the algorithm
execution time in asynchronous mode compared to the synchronous one with 
a residual precision up to \np{E-11}. Such successful results open
perspectives on experimentations for running the algorithm on a 
simulated large scale growing environment and with larger problem size. 

\LZK{Long\ldots}

% no keywords for IEEE conferences
% Keywords: Algorithm distributed iterative asynchronous simulation SimGrid
\end{abstract}

\section{Introduction}

Parallel computing and high performance computing (HPC) are becoming  more and more imperative for solving various
problems raised by  researchers on various scientific disciplines but also by industrial in  the field. Indeed, the
increasing complexity of these requested  applications combined with a continuous increase of their sizes lead to  write
distributed and parallel algorithms requiring significant hardware  resources (grid computing, clusters, broadband
network, etc.) but also a non-negligible CPU execution time. We consider in this paper a class of highly efficient
parallel algorithms called \emph{numerical iterative algorithms} executed in a distributed environment. As their name
suggests, these algorithms solve a given problem by successive iterations ($X_{n +1} = f(X_{n})$) from an initial value
$X_{0}$ to find an approximate value $X^*$ of the solution with a very low residual error. Several well-known methods
demonstrate the convergence of these algorithms~\cite{BT89,Bahi07}.

Parallelization of such algorithms generally involve the division of the problem into several \emph{blocks} that will
be solved in parallel on multiple processing units. The latter will communicate each intermediate results before a new
iteration starts and until the approximate solution is reached. These parallel  computations can be performed either in
\emph{synchronous} mode where a new iteration begins only when all nodes communications are completed,
or in \emph{asynchronous} mode where processors can continue independently with few or no synchronization points. For
instance in the \textit{Asynchronous Iterations~-- Asynchronous Communications (AIAC)} model~\cite{bcvc06:ij}, local
computations do not need to wait for required data. Processors can then perform their iterations with the data present
at that time. Even if the number of iterations required before the convergence is generally greater than for the
synchronous case, AIAC algorithms can significantly reduce overall execution times by suppressing idle times due to
synchronizations especially in a grid computing context (see~\cite{Bahi07} for more details).

Parallel numerical applications (synchronous or asynchronous) may have different
configuration and deployment requirements.  Quantifying their resource
allocation policies and application scheduling algorithms in grid computing
environments under varying load, CPU power and network speeds is very costly,
very labor intensive and very time
consuming~\cite{Calheiros:2011:CTM:1951445.1951450}.  The case of AIAC
algorithms is even more problematic since they are very sensible to the
execution environment context. For instance, variations in the network bandwidth
(intra and inter-clusters), in the number and the power of nodes, in the number
of clusters\dots{} can lead to very different number of iterations and so to
very different execution times. Then, it appears that the use of simulation
tools to explore various platform scenarios and to run large numbers of
experiments quickly can be very promising. In this way, the use of a simulation
environment to execute parallel iterative algorithms found some interests in
reducing the highly cost of access to computing resources: (1) for the
applications development life cycle and in code debugging (2) and in production
to get results in a reasonable execution time with a simulated infrastructure
not accessible with physical resources. Indeed, the launch of distributed
iterative asynchronous algorithms to solve a given problem on a large-scale
simulated environment challenges to find optimal configurations giving the best
results with a lowest residual error and in the best of execution time.

To our knowledge, there is no existing work on the large-scale simulation of a
real AIAC application. The aim of this paper is twofold. First we give a first
approach of the simulation of AIAC algorithms using a simulation tool (i.e. the
SimGrid toolkit~\cite{SimGrid}). Second, we confirm the effectiveness of
asynchronous mode algorithms by comparing their performance with the synchronous
mode. More precisely, we had implemented a program for solving large
linear system of equations by numerical method GMRES (Generalized
Minimal Residual) \cite{ref1}. We show, that with minor modifications of the
initial MPI code, the SimGrid toolkit allows us to perform a test campaign of a
real AIAC application on different computing architectures. The simulated
results we obtained are in line with real results exposed in ??\AG[]{ref?}.
SimGrid had allowed us to launch the application from a modest computing
infrastructure by simulating different distributed architectures composed by
clusters nodes interconnected by variable speed networks. In the simulated environment, after setting appropriate 
network and cluster parameters like the network bandwidth, latency or the processors power, 
the experimental results have demonstrated a asynchronous execution time saving up to \np[\%]{40} in
compared to the synchronous mode.
\AG{Il faudrait revoir la phrase précédente (couper en deux?).  Là, on peut
  avoir l'impression que le gain de \np[\%]{40} est entre une exécution réelle
  et une exécution simulée!}
\CER{La phrase a été modifiée}

This article is structured as follows: after this introduction, the next  section will give a brief description of
iterative asynchronous model.  Then, the simulation framework SimGrid is presented with the settings to create various
distributed architectures. The algorithm of  the multisplitting method based on GMRES \LZK{??? GMRES n'utilise pas la méthode de multisplitting! Sinon ne doit on pas expliquer le choix d'une méthode de multisplitting?} \CER{La phrase a été corrigée} written with MPI primitives and
its adaptation to SimGrid with SMPI (Simulated MPI) is detailed in the next section. At last, the experiments results
carried out will be presented before some concluding remarks and future works.
 
\section{Motivations and scientific context}

As exposed in the introduction, parallel iterative methods are now widely used in many scientific domains. They can be
classified in three main classes depending on how iterations and communications are managed (for more details readers
can refer to~\cite{bcvc06:ij}). In the \textit{Synchronous Iterations~-- Synchronous Communications (SISC)} model data
are exchanged at the end of each iteration. All the processors must begin the same iteration at the same time and
important idle times on processors are generated. The \textit{Synchronous Iterations~-- Asynchronous Communications
(SIAC)} model can be compared to the previous one except that data required on another processor are sent asynchronously
i.e.  without stopping current computations. This technique allows to partially overlap communications by computations
but unfortunately, the overlapping is only partial and important idle times remain.  It is clear that, in a grid
computing context, where the number of computational nodes is large, heterogeneous and widely distributed, the idle
times generated by synchronizations are very penalizing. One way to overcome this problem is to use the
\textit{Asynchronous Iterations~-- Asynchronous Communications (AIAC)} model. Here, local computations do not need to
wait for required data. Processors can then perform their iterations with the data present at that time. Figure~\ref{fig:aiac}
illustrates this model where the gray blocks represent the computation phases, the white spaces the idle
times and the arrows the communications.
\AG{There are no ``white spaces'' on the figure.}
With this algorithmic model, the number of iterations required before the
convergence is generally greater than for the two former classes. But, and as detailed in~\cite{bcvc06:ij}, AIAC
algorithms can significantly reduce overall execution times by suppressing idle times due to synchronizations especially
in a grid computing context.\LZK{Répétition par rapport à l'intro}

\begin{figure}[!t]
  \centering
    \includegraphics[width=8cm]{AIAC.pdf}
  \caption{The Asynchronous Iterations~-- Asynchronous Communications model}
  \label{fig:aiac}
\end{figure}


It is very challenging to develop efficient applications for large scale,
heterogeneous and distributed platforms such as computing grids. Researchers and
engineers have to develop techniques for maximizing application performance of
these multi-cluster platforms, by redesigning the applications and/or by using
novel algorithms that can account for the composite and heterogeneous nature of
the platform. Unfortunately, the deployment of such applications on these very
large scale systems is very costly, labor intensive and time consuming. In this
context, it appears that the use of simulation tools to explore various platform
scenarios at will and to run enormous numbers of experiments quickly can be very
promising. Several works\dots{}

\AG{Several works\dots{} what?\\
  Le paragraphe suivant se trouve déjà dans l'intro ?}
In the context of AIAC algorithms, the use of simulation tools is even more
relevant. Indeed, this class of applications is very sensible to the execution
environment context. For instance, variations in the network bandwidth (intra
and inter-clusters), in the number and the power of nodes, in the number of
clusters\dots{} can lead to very different number of iterations and so to very
different execution times.




\section{SimGrid}

SimGrid~\cite{SimGrid,casanova+legrand+quinson.2008.simgrid} is a simulation
framework to study the behavior of large-scale distributed systems.  As its name
says, it emanates from the grid computing community, but is nowadays used to
study grids, clouds, HPC or peer-to-peer systems.  The early versions of SimGrid
date from 1999, but it's still actively developed and distributed as an open
source software.  Today, it's one of the major generic tools in the field of
simulation for large-scale distributed systems.

SimGrid provides several programming interfaces: MSG to simulate Concurrent
Sequential Processes, SimDAG to simulate DAGs of (parallel) tasks, and SMPI to
run real applications written in MPI~\cite{MPI}.  Apart from the native C
interface, SimGrid provides bindings for the C++, Java, Lua and Ruby programming
languages.  SMPI is the interface that has been used for the work exposed in
this paper.  The SMPI interface implements about \np[\%]{80} of the MPI 2.0
standard~\cite{bedaride:hal-00919507}, and supports applications written in C or
Fortran, with little or no modifications.

Within SimGrid, the execution of a distributed application is simulated on a
single machine.  The application code is really executed, but some operations
like the communications are intercepted, and their running time is computed
according to the characteristics of the simulated execution platform.  The
description of this target platform is given as an input for the execution, by
the mean of an XML file.  It describes the properties of the platform, such as
the computing nodes with their computing power, the interconnection links with
their bandwidth and latency, and the routing strategy.  The simulated running
time of the application is computed according to these properties.

To compute the durations of the operations in the simulated world, and to take
into account resource sharing (e.g. bandwidth sharing between competing
communications), SimGrid uses a fluid model.  This allows to run relatively fast
simulations, while still keeping accurate
results~\cite{bedaride:hal-00919507,tomacs13}.  Moreover, depending on the
simulated application, SimGrid/SMPI allows to skip long lasting computations and
to only take their duration into account.  When the real computations cannot be
skipped, but the results have no importance for the simulation results, there is
also the possibility to share dynamically allocated data structures between
several simulated processes, and thus to reduce the whole memory consumption.
These two techniques can help to run simulations at a very large scale.

%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\section{Simulation of the multisplitting method}
%Décrire le problème (algo) traité ainsi que le processus d'adaptation à SimGrid.
Let $Ax=b$ be a large sparse system of $n$ linear equations in $\mathbb{R}$, where $A$ is a sparse square and nonsingular matrix, $x$ is the solution vector and $b$ is the right-hand side vector. We use a multisplitting method based on the block Jacobi splitting to solve this linear system on a large scale platform composed of $L$ clusters of processors~\cite{o1985multi}. In this case, we apply a row-by-row splitting without overlapping  
\begin{equation*}
  \left(\begin{array}{ccc}
      A_{11} & \cdots & A_{1L} \\
      \vdots & \ddots & \vdots\\
      A_{L1} & \cdots & A_{LL}
    \end{array} \right)
  \times
  \left(\begin{array}{c}
      X_1 \\
      \vdots\\
      X_L
    \end{array} \right)
  =
  \left(\begin{array}{c}
      B_1 \\
      \vdots\\
      B_L
    \end{array} \right)
\end{equation*}
in such a way that successive rows of matrix $A$ and both vectors $x$ and $b$
are assigned to one cluster, where for all $\ell,m\in\{1,\ldots,L\}$, $A_{\ell
  m}$ is a rectangular block of $A$ of size $n_\ell\times n_m$, $X_\ell$ and
$B_\ell$ are sub-vectors of $x$ and $b$, respectively, of size $n_\ell$ each,
and $\sum_{\ell} n_\ell=\sum_{m} n_m=n$.

The multisplitting method proceeds by iteration to solve in parallel the linear system on $L$ clusters of processors, in such a way each sub-system
\begin{equation}
  \label{eq:4.1}
  \left\{
    \begin{array}{l}
      A_{\ell\ell}X_\ell = Y_\ell \text{, such that}\\
      Y_\ell = B_\ell - \displaystyle\sum_{\substack{m=1\\ m\neq \ell}}^{L}A_{\ell m}X_m
    \end{array}
  \right.
\end{equation}
is solved independently by a cluster and communications are required to update
the right-hand side sub-vector $Y_\ell$, such that the sub-vectors $X_m$
represent the data dependencies between the clusters. As each sub-system
(\ref{eq:4.1}) is solved in parallel by a cluster of processors, our
multisplitting method uses an iterative method as an inner solver which is
easier to parallelize and more scalable than a direct method. In this work, we
use the parallel algorithm of GMRES method~\cite{ref1} which is one of the most
used iterative method by many researchers.

\begin{figure}[!t]
  %%% IEEE instructions forbid to use an algorithm environment here, use figure
  %%% instead
\begin{algorithmic}[1]
\Input $A_\ell$ (sparse sub-matrix), $B_\ell$ (right-hand side sub-vector)
\Output $X_\ell$ (solution sub-vector)\medskip

\State Load $A_\ell$, $B_\ell$
\State Set the initial guess $x^0$
\For {$k=0,1,2,\ldots$ until the global convergence}
\State Restart outer iteration with $x^0=x^k$
\State Inner iteration: \Call{InnerSolver}{$x^0$, $k+1$}
\State\label{algo:01:send} Send shared elements of $X_\ell^{k+1}$ to neighboring clusters
\State\label{algo:01:recv} Receive shared elements in $\{X_m^{k+1}\}_{m\neq \ell}$
\EndFor

\Statex

\Function {InnerSolver}{$x^0$, $k$}
\State Compute local right-hand side $Y_\ell$:
       \begin{equation*}
         Y_\ell = B_\ell - \sum\nolimits^L_{\substack{m=1\\ m\neq \ell}}A_{\ell m}X_m^0
       \end{equation*}
\State Solving sub-system $A_{\ell\ell}X_\ell^k=Y_\ell$ with the parallel GMRES method
\State \Return $X_\ell^k$
\EndFunction
\end{algorithmic}
\caption{A multisplitting solver with GMRES method}
\label{algo:01}
\end{figure}

Algorithm on Figure~\ref{algo:01} shows the main key points of the
multisplitting method to solve a large sparse linear system. This algorithm is
based on an outer-inner iteration method where the parallel synchronous GMRES
method is used to solve the inner iteration. It is executed in parallel by each
cluster of processors. For all $\ell,m\in\{1,\ldots,L\}$, the matrices and
vectors with the subscript $\ell$ represent the local data for cluster $\ell$,
while $\{A_{\ell m}\}_{m\neq \ell}$ are off-diagonal matrices of sparse matrix
$A$ and $\{X_m\}_{m\neq \ell}$ contain vector elements of solution $x$ shared
with neighboring clusters. At every outer iteration $k$, asynchronous
communications are performed between processors of the local cluster and those
of distant clusters (lines~\ref{algo:01:send} and~\ref{algo:01:recv} in
Figure~\ref{algo:01}). The shared vector elements of the solution $x$ are
exchanged by message passing using MPI non-blocking communication routines.

\begin{figure}[!t]
\centering
  \includegraphics[width=60mm,keepaspectratio]{clustering}
\caption{Example of three clusters of processors interconnected by a virtual unidirectional ring network.}
\label{fig:4.1}
\end{figure}

The global convergence of the asynchronous multisplitting solver is detected
when the clusters of processors have all converged locally. We implemented the
global convergence detection process as follows. On each cluster a master
processor is designated (for example the processor with rank 1) and masters of
all clusters are interconnected by a virtual unidirectional ring network (see
Figure~\ref{fig:4.1}). During the resolution, a Boolean token circulates around
the virtual ring from a master processor to another until the global convergence
is achieved. So starting from the cluster with rank 1, each master processor $i$
sets the token to \textit{True} if the local convergence is achieved or to
\textit{False} otherwise, and sends it to master processor $i+1$. Finally, the
global convergence is detected when the master of cluster 1 receives from the
master of cluster $L$ a token set to \textit{True}. In this case, the master of
cluster 1 broadcasts a stop message to masters of other clusters. In this work,
the local convergence on each cluster $\ell$ is detected when the following
condition is satisfied
\begin{equation*}
  (k\leq \MI) \text{ or } (\|X_\ell^k - X_\ell^{k+1}\|_{\infty}\leq\epsilon)
\end{equation*}
where $\MI$ is the maximum number of outer iterations and $\epsilon$ is the
tolerance threshold of the error computed between two successive local solution
$X_\ell^k$ and $X_\ell^{k+1}$.

%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
We did not encounter major blocking problems when adapting the multisplitting algorithm previously described to a simulation environment like SimGrid unless some code 
debugging. Indeed, apart from the review of the program sequence for asynchronous exchanges between processors within a cluster or between clusters, the algorithm was executed successfully with SMPI and provided identical outputs as those obtained with direct execution under MPI. In synchronous 
mode, the execution of the program raised no particular issue but in asynchronous mode, the review of the sequence of MPI\_Isend, MPI\_Irecv and MPI\_Waitall instructions
and with the addition of the primitive MPI\_Test was needed to avoid a memory fault due to an infinite loop resulting from the non-convergence of the algorithm.
\CER{On voulait en fait montrer la simplicité de l'adaptation de l'algo a SimGrid. Les problèmes rencontrés décrits dans ce paragraphe concerne surtout le mode async}\LZK{OK. J'aurais préféré avoir un peu plus de détails sur l'adaptation de la version async} 
\CER{Le problème majeur sur l'adaptation MPI vers SMPI pour la partie asynchrone de l'algorithme a été le plantage en SMPI de Waitall après un Isend et Irecv. J'avais proposé un workaround en utilisant un MPI\_wait séparé pour chaque échange a la place d'un waitall unique pour TOUTES les échanges, une instruction qui semble bien fonctionner en MPI. Ce workaround aussi fonctionne bien. Mais après, tu as modifié le programme avec l'ajout d'un MPI\_Test, au niveau de la routine de détection de la convergence et du coup, l'échange global avec waitall a aussi fonctionné.}
Note here that the use of SMPI functions optimizer for memory footprint and CPU usage is not recommended knowing that one wants to get real results by simulation.
As mentioned, upon this adaptation, the algorithm is executed as in the real life in the simulated environment after the following minor changes. First, all declared 
global variables have been moved to local variables for each subroutine. In fact, global variables generate side effects arising from the concurrent access of 
shared memory used by threads simulating each computing unit in the SimGrid architecture. Second, the alignment of certain types of variables such as ``long int'' had
also to be reviewed.
\AG{À propos de ces problèmes d'alignement, en dire plus si ça a un intérêt, ou l'enlever.}
\CER{Ce problème fait partie des modifications que j'ai dû faire dans l'adaptation du programme MPI vers SMPI. IL découle de la différence de la taille des mots en mémoire : en 32 bits, pour les variables declarees en long int, on garde dans les instructions de sortie (printf, sprintf, ...) le format \%lu sinon en 64 bits, on le substitue par \%llu.} 
 Finally, some compilation errors on MPI\_Waitall and MPI\_Finalize primitives have been fixed with the latest version of SimGrid.
In total, the initial MPI program running on the simulation environment SMPI gave after a very simple adaptation the same results as those obtained in a real 
environment. We have successfully executed the code in synchronous mode using parallel GMRES algorithm compared with our multisplitting algorithm in asynchronous mode after few modifications. 



\section{Experimental results}

When the \textit{real} application runs in the simulation environment and produces the expected results, varying the input
parameters and the program arguments allows us to compare outputs from the code execution. We have noticed from this
study that the results depend on the following parameters:  
\begin{itemize}
\item At the network level, we found that the most critical values are the
  bandwidth and the network latency.
\item Hosts processors power (GFlops) can also influence on the results.
\item Finally, when submitting job batches for execution, the arguments values
  passed to the program like the maximum number of iterations or the precision are critical. They allow us to ensure not only the convergence of the
  algorithm but also to get the main objective in getting an execution time in asynchronous communication less than in
  synchronous mode. The ratio between the execution time of synchronous
  compared to the asynchronous mode ($t_\text{sync} / t_\text{async}$) is defined as the \emph{relative gain}. So,
  our objective running the algorithm in SimGrid is to obtain a relative gain
  greater than 1.
  \AG{$t_\text{async} / t_\text{sync} > 1$, l'objectif est donc que ça dure plus
    longtemps (que ça aille moins vite) en asynchrone qu'en synchrone ?
    Ce n'est pas plutôt l'inverse ?}
  \CER{J'ai modifie la phrase.}
\end{itemize}

A priori, obtaining a relative gain greater than 1 would be difficult in a local
area network configuration where the synchronous mode will take advantage on the
rapid exchange of information on such high-speed links. Thus, the methodology
adopted was to launch the application on a clustered network. In this
configuration, degrading the inter-cluster network performance will penalize the
synchronous mode allowing to get a relative gain greater than 1.  This action
simulates the case of distant clusters linked with long distance network as in grid computing context.

\AG{Cette partie sur le poisson 3D
  % on sait donc que ce n'est pas une plie ou une sole (/me fatigué)
  n'est pas à sa place.  Elle devrait être placée plus tôt.}
In this paper, we solve the 3D Poisson problem whose the mathematical model is 
\begin{equation}
\left\{
\begin{array}{l}
\nabla^2 u = f \text{~in~} \Omega \\
u =0 \text{~on~} \Gamma =\partial\Omega
\end{array}
\right.
\label{eq:02}
\end{equation}
where $\nabla^2$ is the Laplace operator, $f$ and $u$ are real-valued functions, and $\Omega=[0,1]^3$. The spatial discretization with a finite difference scheme reduces problem~(\ref{eq:02}) to a system of sparse linear equations. The general iteration scheme of our multisplitting method in a 3D domain using a seven point stencil could be written as 
\begin{equation}
\begin{array}{ll}
u^{k+1}(x,y,z)= & u^k(x,y,z) - \frac{1}{6}\times\\
               & (u^k(x-1,y,z) + u^k(x+1,y,z) + \\
               & u^k(x,y-1,z) + u^k(x,y+1,z) + \\
               & u^k(x,y,z-1) + u^k(x,y,z+1)),
\end{array}
\label{eq:03}
\end{equation} 
where the iteration matrix $A$ of size $N_x\times N_y\times N_z$ of the discretized linear system is sparse, symmetric and positive definite. 

The parallel solving of the 3D Poisson problem with our multisplitting method requires a data partitioning of the problem between clusters and between processors within a cluster. We have chosen the 3D partitioning instead of the row-by-row partitioning in order to reduce the data exchanges at sub-domain boundaries. Figure~\ref{fig:4.2} shows an example of the data partitioning of the 3D Poisson problem between two clusters of processors, where each sub-problem is assigned to a processor. In this context, a processor has at most six neighbors within a cluster or in distant clusters with which it shares data at sub-domain boundaries. 

\begin{figure}[!t]
\centering
  \includegraphics[width=80mm,keepaspectratio]{partition}
\caption{Example of the 3D data partitioning between two clusters of processors.}
\label{fig:4.2}
\end{figure}


% As a first step, 
The algorithm was run on a two clusters based network with 50 hosts each, totaling 100 hosts. Various combinations of the above
factors have provided the results shown in Table~\ref{tab.cluster.2x50}. The algorithm convergence with a 3D
matrix size ranging from $N_x = N_y = N_z = \text{62}$ to 150 elements (that is from
$\text{62}^\text{3} = \text{\np{238328}}$ to $\text{150}^\text{3} =
\text{\np{3375000}}$ entries), is obtained in asynchronous in average 2.5 times speeder than the synchronous mode. 
\AG{Expliquer comment lire les tableaux.}
\CER{J'ai reformulé la phrase par la lecture du tableau. Plus de détails seront lus dans la partie Interprétations et commentaires}
% use the same column width for the following three tables
\newlength{\mytablew}\settowidth{\mytablew}{\footnotesize\np{E-11}}
\newenvironment{mytable}[1]{% #1: number of columns for data
  \renewcommand{\arraystretch}{1.3}%
  \begin{tabular}{|>{\bfseries}r%
                  |*{#1}{>{\centering\arraybackslash}p{\mytablew}|}}}{%
    \end{tabular}}

\begin{table}[!t]
  \centering
  \caption{2 clusters, each with 50 nodes}
  \label{tab.cluster.2x50}

  \begin{mytable}{6}
    \hline
    bandwidth (Mbits/s)
    & 5         & 5         & 5         & 5         & 5         & 50 \\
    \hline
    latency (ms)
    & 0.02      & 0.02      & 0.02      & 0.02      & 0.02      & 0.02 \\
    \hline
    power (GFlops)
    & 1         & 1         & 1         & 1.5       & 1.5       & 1.5 \\
    \hline
    size
    & 62        & 62        & 62        & 100       & 100       & 110 \\
    \hline
    Precision
    & \np{E-5}   & \np{E-8}  & \np{E-9}  & \np{E-11} & \np{E-11} & \np{E-11} \\
    \hline
    \hline
    Relative gain
    & 2.52     & 2.55     & 2.52     & 2.57     & 2.54     & 2.53 \\
    \hline
  \end{mytable}

  \bigskip

  \begin{mytable}{6}
    \hline
    bandwidth (Mbits/s)
    & 50        & 50        & 50        & 50 \\ %       & 10        & 10 \\
    \hline
    latency (ms)
    & 0.02      & 0.02      & 0.02      & 0.02 \\ %      & 0.03      & 0.01 \\
    \hline
    Power (GFlops)
    & 1.5       & 1.5       & 1.5       & 1.5 \\ %      & 1         & 1.5 \\
    \hline
    size
    & 120       & 130       & 140       & 150  \\ %     & 171       & 171 \\
    \hline
    Precision
    & \np{E-11} & \np{E-11} & \np{E-11} & \np{E-11} \\ % & \np{E-5}  & \np{E-5} \\
    \hline
    \hline
    Relative gain
    & 2.51     & 2.58     & 2.55     & 2.54   \\ %  & 1.59      & 1.29 \\
    \hline
  \end{mytable}
\end{table}
  
%Then we have changed the network configuration using three clusters containing
%respectively 33, 33 and 34 hosts, or again by on hundred hosts for all the
%clusters. In the same way as above, a judicious choice of key parameters has
%permitted to get the results in Table~\ref{tab.cluster.3x33} which shows the
%relative gains greater than 1 with a matrix size from 62 to 100 elements.

\CER{En accord avec RC, on a pour le moment enlevé les tableaux 2 et 3 sachant que les résultats obtenus sont limites. De même, on a enlevé aussi les deux dernières colonnes du tableau I en attendant une meilleure performance et une meilleure precision}
%\begin{table}[!t]
%  \centering
%  \caption{3 clusters, each with 33 nodes}
%  \label{tab.cluster.3x33}
%
%  \begin{mytable}{6}
%    \hline
%    bandwidth 
%    & 10       & 5        & 4        & 3        & 2        & 6 \\
%    \hline
%    latency
%    & 0.01     & 0.02     & 0.02     & 0.02     & 0.02     & 0.02 \\
%    \hline
%    power
%    & 1        & 1        & 1        & 1        & 1        & 1 \\
%    \hline
%    size
%    & 62       & 100      & 100      & 100      & 100      & 171 \\
%    \hline
%    Prec/Eprec
%    & \np{E-5} & \np{E-5} & \np{E-5} & \np{E-5} & \np{E-5} & \np{E-5} \\
%    \hline
%    \hline
%    Relative gain
%    & 1.003    & 1.01     & 1.08     & 1.19     & 1.28     & 1.01 \\
%    \hline
%  \end{mytable}
%\end{table}

%In a final step, results of an execution attempt to scale up the three clustered
%configuration but increasing by two hundreds hosts has been recorded in
%Table~\ref{tab.cluster.3x67}.

%\begin{table}[!t]
%  \centering
%  \caption{3 clusters, each with 66 nodes}
%  \label{tab.cluster.3x67}
%
%  \begin{mytable}{1}
%    \hline
%    bandwidth  & 1 \\
%    \hline
%    latency    & 0.02 \\
%    \hline
%    power      & 1 \\
%    \hline
%    size       & 62 \\
%    \hline
%    Prec/Eprec & \np{E-5} \\
%    \hline
%    \hline
%    Relative gain    & 1.11 \\
%    \hline
%  \end{mytable}
%\end{table}

Note that the program was run with the following parameters:

\paragraph*{SMPI parameters}

~\\{}\AG{Donner un peu plus de précisions (plateforme en particulier).}
\CER {Précisions ajoutées}

\begin{itemize}
\item HOSTFILE: Text file containing the list of the processors units name. Here 100 hosts;
\item PLATFORM: XML file description of the platform architecture : two clusters (cluster1 and cluster2) with the following characteristics :

        - Processor unit power : 1.5 GFlops;

        - Intracluster network : bandwidth = 1,25 Gbits/s and latency = 5E-05 ms;

        - Intercluster network : bandwidth = 5 Mbits/s and latency = 5E-03 ms;
\end{itemize}


\paragraph*{Arguments of the program}

\begin{itemize}
        \item Description of the cluster architecture matching the format <Number of cluster> <Number of hosts in cluster\_1> <Number of hosts in cluster\_2>;
        \item Maximum number of iterations;
        \item Precisions on the residual error;
        \item Matrix size $N_x$, $N_y$ and $N_z$;
        \item Matrix diagonal value: \np{1.0}   (See (3));
        \item Matrix off-diagonal value: $-\frac{1}{6}$         (See(3));
        \item Communication mode: Asynchronous.
\end{itemize}

\paragraph*{Interpretations and comments}

After analyzing the outputs, generally, for the two clusters including one hundred hosts configuration (Tables~\ref{tab.cluster.2x50}), some combinations of parameters affecting
the results have given a relative gain more than 2.5, showing the effectiveness of the
asynchronous performance compared to the synchronous mode.

With these settings, Table~\ref{tab.cluster.2x50} shows
that after a deterioration of inter cluster network with a bandwidth of \np[Mbit/s]{5} and a latency in order of one hundredth of millisecond and a processor power
of one GFlops, an efficiency of about \np[\%]{40} is
obtained in asynchronous mode for a matrix size of 62 elements. It is noticed that the result remains
stable even we vary the residual error precision from \np{E-5} to \np{E-9}. By
increasing the matrix size up to 100 elements, it was necessary to increase the
CPU power of \np[\%]{50} to \np[GFlops]{1.5} to get the algorithm convergence and the same order of asynchronous mode efficiency.  Maintaining such processor power but increasing network throughput inter cluster up to
\np[Mbit/s]{50}, the result of efficiency with a relative gain of 2.5\AG[]{2.5 ?} is obtained with
high external precision of \np{E-11} for a matrix size from 110 to 150 side
elements.

%For the 3 clusters architecture including a total of 100 hosts,
%Table~\ref{tab.cluster.3x33} shows that it was difficult to have a combination
%which gives a relative gain of asynchronous mode more than 1.2. Indeed, for a
%matrix size of 62 elements, equality between the performance of the two modes
%(synchronous and asynchronous) is achieved with an inter cluster of
%\np[Mbit/s]{10} and a latency of \np[ms]{E-1}. To challenge an efficiency greater than 1.2 with a matrix %size of 100 points, it was necessary to degrade the
%inter cluster network bandwidth from 5 to \np[Mbit/s]{2}.
\AG{Conclusion, on prend une plateforme pourrie pour avoir un bon ratio sync/async ???
  Quelle est la perte de perfs en faisant ça ?}

%A last attempt was made for a configuration of three clusters but more powerful
%with 200 nodes in total. The convergence with a relative gain around 1.1 was
%obtained with a bandwidth of \np[Mbit/s]{1} as shown in
%Table~\ref{tab.cluster.3x67}.

\RC{Est ce qu'on sait expliquer pourquoi il y a une telle différence entre les résultats avec 2 et 3 clusters... Avec 3 clusters, ils sont pas très bons... Je me demande s'il ne faut pas les enlever...}
\RC{En fait je pense avoir la réponse à ma remarque... On voit avec les 2 clusters que le gain est d'autant plus grand qu'on choisit une bonne précision. Donc, plusieurs solutions, lancer rapidement un long test pour confirmer ca, ou enlever des tests... ou on ne change rien :-)}
\LZK{Ma question est: le bandwidth et latency sont ceux inter-clusters ou pour les deux inter et intra cluster??}
\CER{Définitivement, les paramètres réseaux variables ici se rapportent au réseau INTER cluster.}
\section{Conclusion}
The experimental results on executing a parallel iterative algorithm in 
asynchronous mode on an environment simulating a large scale of virtual 
computers organized with interconnected clusters have been presented. 
Our work has demonstrated that using such a simulation tool allow us to 
reach the following three objectives: 

\begin{enumerate}
\item To have a flexible configurable execution platform resolving the 
hard exercise to access to very limited but so solicited physical 
resources;
\item to ensure the algorithm convergence with a reasonable time and
iteration number ;
\item and finally and more importantly, to find the correct combination 
of the cluster and network specifications permitting to save time in 
executing the algorithm in asynchronous mode.
\end{enumerate}
Our results have shown that in certain conditions, asynchronous mode is 
speeder up to \np[\%]{40} than executing the algorithm in synchronous mode
which is not negligible for solving complex practical problems with more 
and more increasing size.

 Several studies have already addressed the performance execution time of 
this class of algorithm. The work presented in this paper has 
demonstrated an original solution to optimize the use of a simulation 
tool to run efficiently an iterative parallel algorithm in asynchronous 
mode in a grid architecture. 

\LZK{Perspectives???}

\section*{Acknowledgment}

This work is partially funded by the Labex ACTION program (contract ANR-11-LABX-01-01).
\todo[inline]{The authors would like to thank\dots{}}

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% LocalWords:  Ramamonjisoa Laiymani Arnaud Giersch Ziane Khodja Raphaël Femto
% LocalWords:  Université Franche Comté IUT Montbéliard Maréchal Juin Inria Sud
% LocalWords:  Ouest Vieille Talence cedex scalability experimentations HPC MPI
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% LocalWords:  Fortran GFlops priori Mbit de du fcomte multisplitting scalable
% LocalWords:  SimGrid Belfort parallelize Labex ANR LABX IEEEabrv hpccBib
% LocalWords:  intra durations nonsingular Waitall discretization discretized
% LocalWords:  InnerSolver Isend Irecv