X-Git-Url: https://bilbo.iut-bm.univ-fcomte.fr/and/gitweb/rce2015.git/blobdiff_plain/6cf9ae48517bcca32ee10fc0e2140e3df0386bd7..1c9222109c2b98b9a8efaf2752f1bb4806f93ddf:/paper.tex?ds=inline

diff --git a/paper.tex b/paper.tex
index 6ac52c3..a21da9a 100644
--- a/paper.tex
+++ b/paper.tex
@@ -21,7 +21,6 @@
 \usepackage{algpseudocode}
 %\usepackage{amsthm}
 \usepackage{graphicx}
-\usepackage[american]{babel}
 % Extension pour les liens intra-documents (tagged PDF)
 % et l'affichage correct des URL (commande \url{http://example.com})
 %\usepackage{hyperref}
@@ -75,23 +74,26 @@
 analysis of simulated grid-enabled numerical iterative algorithms}
 %\itshape{\journalnamelc}\footnotemark[2]}
 
-\author{    Charles Emile Ramamonjisoa and
-    David Laiymani and
-    Arnaud Giersch and
-    Lilia Ziane Khodja and
-    RaphaÃ«l Couturier
+\author{Charles Emile Ramamonjisoa\affil{1},
+    David Laiymani\affil{1},
+    Arnaud Giersch\affil{1},
+    Lilia Ziane Khodja\affil{2} and
+    RaphaÃ«l Couturier\affil{1}
 }
 
 \address{
-	\centering
-    Femto-ST Institute - DISC Department\\
-    UniversitÃ© de Franche-ComtÃ©\\
-    Belfort\\
-    Email: \email{{raphael.couturier,arnaud.giersch,david.laiymani,charles.ramamonjisoa}@univ-fcomte.fr}
+  \affilnum{1}%
+  Femto-ST Institute, DISC Department,
+  University of Franche-ComtÃ©,
+  Belfort, France.
+  Email:~\email{{charles.ramamonjisoa,david.laiymani,arnaud.giersch,raphael.couturier}@univ-fcomte.fr}\break
+  \affilnum{2}
+  Department of Aerospace \& Mechanical Engineering,
+  Non Linear Computational Mechanics,
+  University of Liege, Liege, Belgium.
+  Email:~\email{l.zianekhodja@ulg.ac.be}
 }
 
-%% Lilia Ziane Khodja: Department of Aerospace \& Mechanical Engineering\\ Non Linear Computational Mechanics\\ University of Liege\\ Liege, Belgium. Email: l.zianekhodja@ulg.ac.be
-
 \begin{abstract}   The behavior of multi-core applications is always a challenge
 to predict, especially with a new architecture for which no experiment has been
 performed. With some applications, it is difficult, if not impossible, to build
@@ -134,7 +136,7 @@ are often very important. So, in this context it is difficult to optimize a
 given application for a given  architecture. In this way and in order to reduce
 the access cost to these computing resources it seems very interesting to use a
 simulation environment.  The advantages are numerous: development life cycle,
-code debugging, ability to obtain results quickly~\ldots. In counterpart, the simulation results need to be consistent with the real ones.
+code debugging, ability to obtain results quickly\dots{} In counterpart, the simulation results need to be consistent with the real ones.
 
 In this paper we focus on a class of highly efficient parallel algorithms called
 \emph{iterative algorithms}. The parallel scheme of iterative methods is quite
@@ -163,10 +165,11 @@ application  on   a  given   multi-core  architecture.  Finding   good  resource
 allocations policies under  varying CPU power, network speeds and  loads is very
 challenging and  labor intensive~\cite{Calheiros:2011:CTM:1951445.1951450}. This
 problematic is  even more difficult  for the  asynchronous scheme where  a small
-parameter variation of the execution platform can lead to very different numbers
-of iterations to reach the converge and so to very different execution times. In
-this challenging context we think that the  use of a simulation tool can greatly
-leverage the possibility of testing various platform scenarios.
+parameter variation of the execution platform and of the application data can
+lead to very different numbers of iterations to reach the converge and so to
+very different execution times. In this challenging context we think that the
+use of a simulation tool can greatly leverage the possibility of testing various
+platform scenarios.
 
 The main contribution of this paper is to show that the use of a simulation tool
 (i.e. the SimGrid toolkit~\cite{SimGrid}) in the context of real  parallel
@@ -174,18 +177,23 @@ applications (i.e. large linear system solvers) can help developers to better
 tune their application for a given multi-core architecture. To show the validity
 of this approach we first compare the simulated execution of the multisplitting
 algorithm  with  the  GMRES   (Generalized   Minimal  Residual)
-solver~\cite{saad86} in synchronous mode. 
+solver~\cite{saad86} in synchronous mode. The simulation results allow us to
+determine which method to choose given a specified multi-core architecture.
 
 \LZK{Pas trop convainquant comme argument pour valider l'approche de simulation. \\On peut dire par exemple: on a pu simuler diffÃ©rents algos itÃ©ratifs Ã  large Ã©chelle (le plus connu GMRES et deux variantes de multisplitting) et la simulation nous a permis (sans avoir le vrai matÃ©riel) de dÃ©terminer quelle serait la meilleure solution pour une telle configuration de l'archi ou vice versa.\\A revoir...}
+\DL{OK : ajout d'une phrase prÃ©cisant tout cela}
 
-The obtained results on different
-simulated multi-core architectures confirm the real results previously obtained
-on non simulated architectures.  
+Moreover the obtained results on different simulated multi-core architectures
+confirm the real results previously obtained on non simulated architectures.
+More precisely the simulated results are in accordance (i.e. with the same order
+of magnitude) with the works presented in [], which show that the multisplitting
+method is more efficient than GMRES for large scale clusters.
 
 \LZK{Il n y a pas dans la partie expÃ© cette comparaison et confirmation des rÃ©sultats entre la simulation et l'exÃ©cution rÃ©elle des algos sur les vrais clusters.\\ Sinon on pourrait ajouter dans la partie expÃ© une rÃ©fÃ©rence vers le journal supercomput de krylov multi pour confirmer que cette mÃ©thode est meilleure que GMRES sur les clusters large Ã©chelle.}
+\DL{OK ajout d'une phrase. Par contre je n'ai pas la ref. Merci de la mettre}
 
 We also confirm  the efficiency  of the
-asynchronous  multisplitting algorithm  compared to the synchronous  GMRES. 
+asynchronous  multisplitting algorithm compared to the synchronous  GMRES.
 
 \LZK{P.S.: Pour tout le papier, le principal objectif n'est pas de faire des comparaisons entre des mÃ©thodes itÃ©ratives!!\\Sinon, les deux algorithmes Krylov multisplitting synchrone et multisplitting asynchrone sont plus efficaces que GMRES sur des clusters Ã  large Ã©chelle.\\Et prÃ©ciser, si c'est vraiment le cas, que le multisplitting asynchrone est plus efficace et adaptÃ© aux clusters distants par rapport aux deux autres algos (je n'ai pas encore lu la partie expÃ©)}
 
@@ -235,7 +243,7 @@ for the asynchronous scheme (this number depends depends on  the delay of the
 messages). Note that, it is not the case in the synchronous mode where the
 number of iterations is the same than in the sequential mode. In this way, the
 set of the parameters  of the  platform (number  of nodes,  power of nodes,
-inter and  intra clusters  bandwidth  and  latency \ldots) and  of  the
+inter and  intra clusters  bandwidth  and  latency, \ldots) and  of  the
 application can drastically change the number of iterations required to get the
 convergence. It follows that asynchronous iterative algorithms are difficult to
 optimize since the financial and deployment costs on large scale multi-core
@@ -246,9 +254,61 @@ by simulation are in accordance with reality i.e. of the same order of
 magnitude. To our knowledge, there is no study on this problematic.
 
 \section{SimGrid}
- \label{sec:simgrid}
+\label{sec:simgrid}
+SimGrid~\cite{SimGrid,casanova+legrand+quinson.2008.simgrid,casanova+giersch+legrand+al.2014.versatile} is a discrete event simulation framework to study the behavior of large-scale distributed computing platforms as Grids, Peer-to-Peer systems, Clouds and High Performance Computation systems. It is widely used to simulate and evaluate heuristics, prototype applications or even assess legacy MPI applications. It is still actively developed by the scientific community and distributed as an open source software.
 
 %%%%%%%%%%%%%%%%%%%%%%%%%
+% SimGrid~\cite{SimGrid,casanova+legrand+quinson.2008.simgrid,casanova+giersch+legrand+al.2014.versatile}
+% is a simulation framework to study the behavior of large-scale distributed
+% systems.  As its name suggests, 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 back from 1999, but it is still actively
+% developed and distributed as an open source software.  Today, it is 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 described in
+this paper.  The SMPI interface implements about \np[\%]{80} of the MPI 2.0
+standard~\cite{bedaride+degomme+genaud+al.2013.toward}, and supports
+applications written in C or Fortran, with little or no modifications (cf Section IV - paragraph B).
+
+Within SimGrid, the execution of a distributed application is simulated by a
+single process.  The application code is really executed, but some operations,
+like 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
+means 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 scheduling of the
+simulated processes, as well as the simulated running time of the application
+are 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 users to run relatively fast
+simulations, while still keeping accurate
+results~\cite{bedaride+degomme+genaud+al.2013.toward,
+  velho+schnorr+casanova+al.2013.validity}.  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 are unimportant for the simulation results, it is
+also possible 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 on a very large scale.
+
+The validity of simulations with SimGrid has been asserted by several studies.
+See, for example, \cite{velho+schnorr+casanova+al.2013.validity} and articles
+referenced therein for the validity of the network models.  Comparisons between
+real execution of MPI applications on the one hand, and their simulation with
+SMPI on the other hand, are presented in~\cite{guermouche+renard.2010.first,
+  clauss+stillwell+genaud+al.2011.single,
+  bedaride+degomme+genaud+al.2013.toward}.  All these works conclude that
+SimGrid is able to simulate pretty accurately the real behavior of the
+applications.
 %%%%%%%%%%%%%%%%%%%%%%%%%
 
 \section{Two-stage multisplitting methods}
@@ -519,7 +579,8 @@ architectures and scaling up the input matrix size}
  Input matrix size & N$_{x}$ x N$_{y}$ x N$_{z}$ =150 x 150 x 150\\ %\hline
  - &  N$_{x}$ x N$_{y}$ x N$_{z}$  =170 x 170 x 170    \\ \hline
  \end{tabular}
-\caption{Test conditions: various grid configurations with the input matix size N$_{x}$=150 or N$_{x}$=170 \RC{N2 n'est pas dÃ©fini..}\RC{Nx est dÃ©fini, Ny? Nz?}}
+\caption{Test conditions: various grid configurations with the input matix size N$_{x}$=150 or N$_{x}$=170 \RC{N2 n'est pas dÃ©fini..}\RC{Nx est dÃ©fini, Ny? Nz?}
+\AG{La lettre 'x' n'est pas le symbole de la multiplication. Utiliser \texttt{\textbackslash times}.  Idem dans le texte, les figures, etc.}}
 \label{tab:01}
 \end{center}
 \end{table}
@@ -542,7 +603,8 @@ multisplitting method.
   \begin{center}
     \includegraphics[width=100mm]{cluster_x_nodes_nx_150_and_nx_170.pdf}
   \end{center}
-  \caption{Various grid configurations with the input matrix size N$_{x}$=150 and N$_{x}$=170\RC{idem}}
+  \caption{Various grid configurations with the input matrix size N$_{x}$=150 and N$_{x}$=170\RC{idem}
+\AG{Utiliser le point comme sÃ©parateur dÃ©cimal et non la virgule.  Idem dans les autres figures.}}
   \label{fig:01}
 \end{figure}
 
@@ -584,7 +646,8 @@ the  network speed  drops down (variation of 12.5\%), the  difference between  t
 \begin{figure} [ht!]
 \centering
 \includegraphics[width=100mm]{cluster_x_nodes_n1_x_n2.pdf}
-\caption{Grid 2x16 and 4x8 with networks N1 vs N2}
+\caption{Grid 2x16 and 4x8 with networks N1 vs N2
+\AG{\np{8E-6}, \np{5E-6} au lieu de 8E-6, 5E-6}}
 \label{fig:02}
 \end{figure}
 %\end{wrapfigure}
@@ -609,20 +672,22 @@ the  network speed  drops down (variation of 12.5\%), the  difference between  t
 \begin{figure} [ht!]
 \centering
 \includegraphics[width=100mm]{network_latency_impact_on_execution_time.pdf}
-\caption{Network latency impacts on execution time}
+\caption{Network latency impacts on execution time
+\AG{\np{E-6}}}
 \label{fig:03}
 \end{figure}
 
 
-According to the results  of  Figure~\ref{fig:03}, a  degradation  of the  network
-latency from $8.10^{-6}$  to $6.10^{-5}$ implies an absolute  time increase of more
-than $75\%$  (resp. $82\%$) of the  execution for the classical  GMRES (resp. Krylov
-multisplitting)   algorithm.   In   addition,   it  appears   that  the   Krylov
-multisplitting method tolerates  more the network latency variation  with a less
-rate  increase  of  the  execution   time.   Consequently,  in  the  worst  case
-($lat=6.10^{-5 }$), the  execution time for GMRES is almost  the double than the
-time of the Krylov multisplitting, even  though, the performance was on the same
-order of magnitude with a latency of $8.10^{-6}$.
+According to  the results of  Figure~\ref{fig:03}, a degradation of  the network
+latency from  $8.10^{-6}$ to  $6.10^{-5}$ implies an  absolute time  increase of
+more  than $75\%$  (resp.  $82\%$)  of the  execution  for  the classical  GMRES
+(resp.  Krylov multisplitting)  algorithm.   In addition,  it  appears that  the
+Krylov multisplitting method tolerates more the network latency variation with a
+less  rate increase  of  the  execution time.\RC{Les  2  prÃ©cÃ©dentes phrases  me
+  semblent en contradiction....}  Consequently, in the worst case ($lat=6.10^{-5
+}$), the  execution time for  GMRES is  almost the double  than the time  of the
+Krylov multisplitting,  even though, the  performance was  on the same  order of
+magnitude with a latency of $8.10^{-6}$.
 
 \subsubsection{Network bandwidth impacts on performance}
 \ \\
@@ -634,7 +699,7 @@ order of magnitude with a latency of $8.10^{-6}$.
  Network & N1 : bw=1Gbs - lat=5.10$^{-5}$ \\ %\hline
  Input matrix size & N$_{x}$ x N$_{y}$ x N$_{z}$ =150 x 150 x 150\\ \hline \\
  \end{tabular}
-\caption{Test conditions: Network bandwidth impacts}
+\caption{Test conditions: Network bandwidth impacts\RC{Qu'est ce qui varie ici? Il n'y a pas de variation dans le tableau}}
 \label{tab:04}
 \end{table}
 
@@ -642,7 +707,8 @@ order of magnitude with a latency of $8.10^{-6}$.
 \begin{figure} [ht!]
 \centering
 \includegraphics[width=100mm]{network_bandwith_impact_on_execution_time.pdf}
-\caption{Network bandwith impacts on execution time}
+\caption{Network bandwith impacts on execution time
+\AG{``Execution time'' avec un 't' minuscule}. Idem autres figures.}
 \label{fig:04}
 \end{figure}
 
@@ -680,9 +746,9 @@ In these experiments, the input matrix size  has been set from $N_{x} = N_{y}
 time for  both algorithms increases when  the input matrix size  also increases.
 But the interesting results are:
 \begin{enumerate}
-  \item the drastic increase ($10$ times) \RC{Je ne vois pas cela sur la figure}
-\RCE{Corrige} of the  number of  iterations needed  to reach the  convergence for  the classical
-GMRES algorithm when  the matrix size go beyond $N_{x}=150$;
+  \item the drastic increase ($10$ times)  of the number of iterations needed to
+    reach the convergence for the classical GMRES algorithm when the matrix size
+    go beyond $N_{x}=150$; \RC{C'est toujours pas clair... ok le nommbre d'itÃ©rations est 10 fois plus long mais la suite de la phrase ne veut rien dire}
 \item the  classical GMRES execution time  is almost the double  for $N_{x}=140$
   compared with the Krylov multisplitting method.
 \end{enumerate}
@@ -810,7 +876,8 @@ geographically distant clusters through the internet.
     \hline
   \end{mytable}
 %\end{table}
- \caption{Relative gain of the multisplitting algorithm compared with the classical GMRES}
+ \caption{Relative gain of the multisplitting algorithm compared with the classical GMRES
+\AG{C'est un tableau, pas une figure}}
  \label{fig:07}
 \end{figure}
 
@@ -819,13 +886,15 @@ geographically distant clusters through the internet.
 CONCLUSION
 
 
-\section*{Acknowledgment}
-
+%\section*{Acknowledgment}
+\ack
 This work is partially funded by the Labex ACTION program (contract ANR-11-LABX-01-01).
 
-
 \bibliographystyle{wileyj}
 \bibliography{biblio}
+\AG{Warning bibtex Ã  corriger (%
+  \texttt{empty booktitle in Bru95}%
+).}
 
 \end{document}
 
