X-Git-Url: https://bilbo.iut-bm.univ-fcomte.fr/and/gitweb/rce2015.git/blobdiff_plain/239f7fccc1064a9fccc94e25ce91e23a297402c1..354a667741453335193cea49b706c13237c5c8ab:/paper.tex?ds=inline

diff --git a/paper.tex b/paper.tex
index 0ec97f3..94c5125 100644
--- a/paper.tex
+++ b/paper.tex
@@ -1,4 +1,3 @@
-%\documentclass[conference]{IEEEtran}
 \documentclass[times]{cpeauth}
 
 \usepackage{moreverb}
@@ -53,7 +52,12 @@
 \algnewcommand\algorithmicoutput{\textbf{Output:}}
 \algnewcommand\Output{\item[\algorithmicoutput]}
 
-\newcommand{\MI}{\mathit{MaxIter}}
+\newcommand{\TOLG}{\mathit{tol_{gmres}}}
+\newcommand{\MIG}{\mathit{maxit_{gmres}}}
+\newcommand{\TOLM}{\mathit{tol_{multi}}}
+\newcommand{\MIM}{\mathit{maxit_{multi}}}
+\newcommand{\TOLC}{\mathit{tol_{cgls}}}
+\newcommand{\MIC}{\mathit{maxit_{cgls}}}
 
 \usepackage{array}
 \usepackage{color, colortbl}
@@ -85,6 +89,8 @@
     Email: \email{{raphael.couturier,arnaud.giersch,david.laiymani,charles.ramamonjisoa}@univ-fcomte.fr}
 }
 
+%% 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}
 ABSTRACT
 \end{abstract}
@@ -99,12 +105,131 @@ ABSTRACT
 
 \section{SimGrid}
 
-\section{Simulation of the multisplitting method}
+%%%%%%%%%%%%%%%%%%%%%%%%%
+%%%%%%%%%%%%%%%%%%%%%%%%%
+
+\section{Two-stage multisplitting methods}
+\label{sec:04}
+\subsection{Synchronous and asynchronous two-stage methods for sparse linear systems}
+\label{sec:04.01}
+In this paper we focus on two-stage multisplitting methods in their both versions synchronous and asynchronous~\cite{Frommer92,Szyld92,Bru95}. These iterative methods are based on multisplitting methods~\cite{O'leary85,White86,Alefeld97} and use two nested iterations: the outer iteration and the inner iteration. Let us consider the following sparse linear system of $n$ equations in $\mathbb{R}$
+\begin{equation}
+Ax=b,
+\label{eq:01}
+\end{equation}
+where $A$ is a sparse square and nonsingular matrix, $b$ is the right-hand side and $x$ is the solution of the system. Our work in this paper is restricted to the block Jacobi splitting method. This approach of multisplitting consists in partitioning the matrix $A$ into $L$ horizontal band matrices of order $\frac{n}{L}\times n$ without overlapping (i.e. sub-vectors $\{x_\ell\}_{1\leq\ell\leq L}$ are disjoint). The two-stage multisplitting methods solve the linear system~(\ref{eq:01}) iteratively as follows
+\begin{equation}
+x_\ell^{k+1} = A_{\ell\ell}^{-1}(b_\ell - \displaystyle\sum^{L}_{\substack{m=1\\m\neq\ell}}{A_{\ell m}x^k_m}),\mbox{~for~}\ell=1,\ldots,L\mbox{~and~}k=1,2,3,\ldots
+\label{eq:02}
+\end{equation}
+where $x_\ell$ are sub-vectors of the solution $x$, $b_\ell$ are the sub-vectors of the right-hand side $b$, and $A_{\ell\ell}$ and $A_{\ell m}$ are diagonal and off-diagonal blocks of matrix $A$ respectively. The iterations of these methods can naturally be computed in parallel such that each processor or cluster of processors is responsible for solving one splitting as a linear sub-system 
+\begin{equation}
+A_{\ell\ell} x_\ell = c_\ell,\mbox{~for~}\ell=1,\ldots,L,
+\label{eq:03}
+\end{equation}
+where right-hand sides $c_\ell=b_\ell-\sum_{m\neq\ell}A_{\ell m}x_m$ are computed using the shared vectors $x_m$. In this paper, we use the well-known iterative method GMRES ({\it Generalized Minimal RESidual})~\cite{saad86} as an inner iteration to approximate the solutions of the different splittings arising from the block Jacobi multisplitting of matrix $A$. The algorithm in Figure~\ref{alg:01} shows the main key points of our block Jacobi two-stage method executed by a cluster of processors. In line~\ref{solve}, the linear sub-system~(\ref{eq:03}) is solved in parallel using GMRES method where $\MIG$ and $\TOLG$ are the maximum number of inner iterations and the tolerance threshold for GMRES respectively. The convergence of the two-stage multisplitting methods, based on synchronous or asynchronous iterations, is studied by many authors for example~\cite{Bru95,bahi07}. 
+
+\begin{figure}[t]
+%\begin{algorithm}[t]
+%\caption{Block Jacobi two-stage multisplitting method}
+\begin{algorithmic}[1]
+  \Input $A_\ell$ (sparse matrix), $b_\ell$ (right-hand side)
+  \Output $x_\ell$ (solution vector)\vspace{0.2cm}
+  \State Set the initial guess $x^0$
+  \For {$k=1,2,3,\ldots$ until convergence}
+    \State $c_\ell=b_\ell-\sum_{m\neq\ell}A_{\ell m}x_m^{k-1}$
+    \State $x^k_\ell=Solve_{gmres}(A_{\ell\ell},c_\ell,x^{k-1}_\ell,\MIG,\TOLG)$\label{solve}
+    \State Send $x_\ell^k$ to neighboring clusters\label{send}
+    \State Receive $\{x_m^k\}_{m\neq\ell}$ from neighboring clusters\label{recv}
+  \EndFor
+\end{algorithmic}
+\caption{Block Jacobi two-stage multisplitting method}
+\label{alg:01}
+%\end{algorithm} 
+\end{figure}
+
+In this paper, we propose two algorithms of two-stage multisplitting methods. The first algorithm is based on asynchronous model which allows the communications to be overlapped by computations and reduces the idle times resulting from the synchronizations. So in the asynchronous mode, our two-stage algorithm uses asynchronous outer iterations and asynchronous communications between clusters. The communications (i.e. lines~\ref{send} and~\ref{recv} in Figure~\ref{alg:01}) are performed by message passing using MPI non-blocking communication routines. The convergence of the asynchronous iterations is detected when all clusters have locally converged
+\begin{equation}
+k\geq\MIM\mbox{~or~}\|x_\ell^{k+1}-x_\ell^k\|_{\infty }\leq\TOLM,
+\label{eq:04}
+\end{equation}    
+where $\MIM$ is the maximum number of outer iterations and $\TOLM$ is the tolerance threshold for the two-stage algorithm. 
+
+The second two-stage algorithm is based on synchronous outer iterations. We propose to use the Krylov iteration based on residual minimization to improve the slow convergence of the multisplitting methods. In this case, a $n\times s$ matrix $S$ is set using solutions issued from the inner iteration 
+\begin{equation}
+S=[x^1,x^2,\ldots,x^s],~s\ll n.
+\label{eq:05}
+\end{equation}   
+At each $s$ outer iterations, the algorithm computes a new approximation $\tilde{x}=S\alpha$ which minimizes the residual
+\begin{equation}
+\min_{\alpha\in\mathbb{R}^s}{\|b-AS\alpha\|_2}.
+\label{eq:06}
+\end{equation} 
+The algorithm in Figure~\ref{alg:02} includes the procedure of the residual minimization and the outer iteration is restarted with a new approximation $\tilde{x}$ at every $s$ iterations. The least-squares problem~(\ref{eq:06}) is solved in parallel by all clusters using CGLS method~\cite{Hestenes52} such that $\MIC$ is the maximum number of iterations and $\TOLC$ is the tolerance threshold for this method (line~\ref{cgls} in Figure~\ref{alg:02}).
+ 
+\begin{figure}[t]
+%\begin{algorithm}[t]
+%\caption{Krylov two-stage method using block Jacobi multisplitting}
+\begin{algorithmic}[1]
+  \Input $A_\ell$ (sparse matrix), $b_\ell$ (right-hand side)
+  \Output $x_\ell$ (solution vector)\vspace{0.2cm}
+  \State Set the initial guess $x^0$
+  \For {$k=1,2,3,\ldots$ until convergence}
+    \State $c_\ell=b_\ell-\sum_{m\neq\ell}A_{\ell m}x_m^{k-1}$
+    \State $x^k_\ell=Solve_{gmres}(A_{\ell\ell},c_\ell,x^{k-1}_\ell,\MIG,\TOLG)$
+    \State $S_{\ell,k\mod s}=x_\ell^k$
+    \If{$k\mod s = 0$}
+       \State $\alpha = Solve_{cgls}(AS,b,\MIC,\TOLC)$\label{cgls}
+       \State $\tilde{x_\ell}=S_\ell\alpha$
+       \State Send $\tilde{x_\ell}$ to neighboring clusters
+       \Else 
+         \State Send $x_\ell^k$ to neighboring clusters
+    \EndIf
+    \State Receive $\{x_m^k\}_{m\neq\ell}$ from neighboring clusters
+  \EndFor
+\end{algorithmic}
+\caption{Krylov two-stage method using block Jacobi multisplitting}
+\label{alg:02}
+%\end{algorithm} 
+\end{figure}
+
+\subsection{Simulation of two-stage methods using SimGrid framework}
+\label{sec:04.02}
+
+One of our objectives when simulating the application in SIMGRID is, as in real life, to get accurate results (solutions of the problem) but also ensure the test reproducibility under the same conditions.According our experience, very few modifications are required to adapt a MPI program to run in SIMGRID simulator using SMPI (Simulator MPI).The first modification is to include SMPI libraries and related header files (smpi.h). The second and important modification is to eliminate all global variables in moving them to local subroutine or using a Simgrid selector called "runtime automatic switching" (smpi/privatize\_global\_variables). Indeed, global variables can generate side effects on runtime between the threads running in the same process, generated by the Simgrid to simulate the grid environment.The last modification on the MPI program pointed out for some cases, the review of the sequence of the MPI\_Isend, MPI\_Irecv and MPI\_Waitall instructions which might cause an infinite loop.     
+
+
+\paragraph{SIMGRID Simulator parameters}
+
+\begin{itemize}
+	\item HOSTFILE: Hosts description file.
+	\item PLATFORM: File describing the platform architecture : clusters (CPU power,
+\dots{}), intra cluster network description, inter cluster network (bandwidth bw,
+lat latency, \dots{}).
+	\item ARCHI   : Grid computational description (Number of clusters, Number of 
+nodes/processors for each cluster). 
+\end{itemize}
+
+
+In addition, the following arguments are given to the programs at runtime:
+
+\begin{itemize}
+	\item Maximum number of inner and outer iterations;
+	\item Inner and outer precisions;
+	\item Matrix size (NX, NY and NZ);
+	\item Matrix diagonal value = 6.0;
+	\item Execution Mode: synchronous or asynchronous.
+\end{itemize}
+
+At last, note that the two solver algorithms have been executed with the Simgrid selector --cfg=smpi/running\_power which determine the computational power (here 19GFlops) of the simulator host machine.  
+
+%%%%%%%%%%%%%%%%%%%%%%%%%
+%%%%%%%%%%%%%%%%%%%%%%%%%
 
 \section{Experimental, Results and Comments}
 
 
-\textbf{V.1. Setup study and Methodology}
+\subsection{Setup study and Methodology}
 
 To conduct our study, we have put in place the following methodology 
 which can be reused with any grid-enabled applications.
@@ -115,8 +240,7 @@ have been chosen for the study in the paper.
 
 \textbf{Step 2} : Collect the software materials needed for the 
 experimentation. In our case, we have three variants algorithms for the 
-resolution of three 3D-Poisson problem: (1) using the classical GMRES 
-\textit{(Generalized Minimal RESidual Method)} alias Algo-1 in this 
+resolution of three 3D-Poisson problem: (1) using the classical GMRES alias Algo-1 in this 
 paper, (2) using the multisplitting method alias Algo-2 and (3) an 
 enhanced version of the multisplitting method as Algo-3. In addition, 
 SIMGRID simulator has been chosen to simulate the behaviors of the 
@@ -145,9 +269,9 @@ the CPU power capacity, the network parameters and also the size of the
 input matrix. Note that some parameters should be invariant to allow the 
 comparison like some program input arguments.
 
-\textbf{Step 6} : Collect and analyze the output results.
+{Step 6} : Collect and analyze the output results.
 
-\textbf{ V.2. Factors impacting distributed applications performance in 
+\subsection{Factors impacting distributed applications performance in 
 a grid environment}
 
 From our previous experience on running distributed application in a 
@@ -183,7 +307,7 @@ networks components thru internet with a lower speed. The network
 between distant clusters might be a bottleneck for the global 
 performance of the application. 
 
-\textbf{V.3 Comparing GMRES and Multisplitting algorithms in 
+\subsection{Comparing GMRES and Multisplitting algorithms in 
 synchronous mode}
 
 In the scope of this paper, our first objective is to demonstrate the 
@@ -219,21 +343,21 @@ architecture scaling up the input matrix size}
 
  Table 1 : Clusters x Nodes with NX=150 or NX=170
 
-\RCE{J'ai voulu mettre les tableaux des donnÃ©es mais je pense que c'est inutile et Ã§a va surcharger}
+%\RCE{J'ai voulu mettre les tableaux des donnÃ©es mais je pense que c'est inutile et Ã§a va surcharger}
 
 
 The results in figure 1 show the non-variation of the number of 
 iterations of classical GMRES for a given input matrix size; it is not 
 the case for the multisplitting method. 
 
-%%\begin{wrapfigure}{l}{60mm}
+%\begin{wrapfigure}{l}{60mm}
 \begin{figure} [ht!]
 \centering
-\includegraphics[width=60mm]{Cluster_x_Nodes_NX=150_and_NX=170.jpg}
-\caption{Cluster x Nodes NX=150 and NX=170 \label{overflow}}
+\includegraphics[width=60mm]{cluster_x_nodes_nx_150_and_nx_170.pdf}
+\caption{Cluster x Nodes NX=150 and NX=170} 
+%\label{overflow}}
 \end{figure}
-%%\end{wrapfigure}
-
+%\end{wrapfigure}
 
 Unless the 8x8 cluster, the time 
 execution difference between the two algorithms is important when 
@@ -260,11 +384,14 @@ matrix size.
 %\RCE{idem pour tous les tableaux de donnees}
 
 
+%\begin{wrapfigure}{l}{60mm}
 \begin{figure} [ht!]
 \centering
-\includegraphics[width=60mm]{Cluster_x_Nodes_N1_x_N2.jpg}
-\caption{Cluster x Nodes N1 x N2\label{overflow}}
+\includegraphics[width=60mm]{cluster_x_nodes_n1_x_n2.pdf}
+\caption{Cluster x Nodes N1 x N2}
+%\label{overflow}}
 \end{figure}
+%\end{wrapfigure}
 
 The experiments compare the behavior of the algorithms running first on 
 speed inter- cluster network (N1) and a less performant network (N2). 
@@ -274,7 +401,7 @@ performance was increased in a factor of 2. The results depict also that
 when the network speed drops down, the difference between the execution 
 times can reach more than 25\%. 
 
-\textit{\\\\\\\\\\\\\\\\\\3.c Network latency impacts on performance}
+\textit{3.c Network latency impacts on performance}
 
 % environment
 \begin{footnotesize}
@@ -291,8 +418,9 @@ Table 3 : Network latency impact
 
 \begin{figure} [ht!]
 \centering
-\includegraphics[width=60mm]{Network_latency_impact_on_execution_time.jpg}
-\caption{Network latency impact on execution time\label{overflow}}
+\includegraphics[width=60mm]{network_latency_impact_on_execution_time.pdf}
+\caption{Network latency impact on execution time}
+%\label{overflow}}
 \end{figure}
 
 
@@ -322,8 +450,9 @@ Table 4 : Network bandwidth impact
 
 \begin{figure} [ht!]
 \centering
-\includegraphics[width=60mm]{Network_bandwith_impact_on_execution_time.jpg}
-\caption{Network bandwith impact on execution time\label{overflow}}
+\includegraphics[width=60mm]{network_bandwith_impact_on_execution_time.pdf}
+\caption{Network bandwith impact on execution time}
+%\label{overflow}
 \end{figure}
 
 
@@ -350,8 +479,9 @@ Table 5 : Input matrix size impact
 
 \begin{figure} [ht!]
 \centering
-\includegraphics[width=60mm]{Pb_size_impact_on_execution_time.jpg}
-\caption{Pb size impact on execution time\label{overflow}}
+\includegraphics[width=60mm]{pb_size_impact_on_execution_time.pdf}
+\caption{Pb size impact on execution time}
+%\label{overflow}}
 \end{figure}
 
 In this experimentation, the input matrix size has been set from 
@@ -384,8 +514,9 @@ Table 6 : CPU Power impact
 
 \begin{figure} [ht!]
 \centering
-\includegraphics[width=60mm]{CPU_Power_impact_on_execution_time.jpg}
-\caption{CPU Power impact on execution time\label{overflow}}
+\includegraphics[width=60mm]{cpu_power_impact_on_execution_time.pdf}
+\caption{CPU Power impact on execution time}
+%\label{overflow}}
 \end{figure}
 
 Using the SIMGRID simulator flexibility, we have tried to determine the 
@@ -395,7 +526,7 @@ confirm the performance gain, around 95\% for both of the two methods,
 after adding more powerful CPU. Note that the execution time axis in the 
 figure is in logarithmic scale.
 
- \textbf{V.4 Comparing GMRES in native synchronous mode and 
+\subsection{Comparing GMRES in native synchronous mode and 
 Multisplitting algorithms in asynchronous mode}
 
 The previous paragraphs put in evidence the interests to simulate the 
@@ -461,27 +592,27 @@ internet.
   \centering
   \caption{Relative gain of the multisplitting algorithm compared with 
 the classical GMRES}
-  \label{tab.cluster.2x50}
+  \label{"Table 7"}
 
   \begin{mytable}{6}
     \hline
-    bw
-    & 5         & 5         & 5         & 5         & 5         & 50 \\
+    bandwidth (Mbit/s)
+    & 5         & 5         & 5         & 5         & 5 \\
     \hline
-    lat
-    & 0.02      & 0.02      & 0.02      & 0.02      & 0.02      & 0.02 \\
+    latency (ms)
+    & 20      & 20      & 20      & 20      & 20 \\
     \hline
-    power
-    & 1         & 1         & 1         & 1.5       & 1.5       & 1.5 \\
+    power (GFlops)
+    & 1         & 1         & 1         & 1.5       & 1.5 \\
     \hline
-    size
-    & 62        & 62        & 62        & 100       & 100       & 110 \\
+    size (N)
+    & 62        & 62        & 62        & 100       & 100 \\
     \hline
-    Prec/Eprec
-    & \np{E-5}  & \np{E-8}  & \np{E-9}  & \np{E-11} & \np{E-11} & \np{E-11} \\
+    Precision
+    & \np{E-5}  & \np{E-8}  & \np{E-9}  & \np{E-11} & \np{E-11} \\
     \hline
-    speedup
-    & 0.396     & 0.392     & 0.396     & 0.391     & 0.393     & 0.395 \\
+    Relative gain
+    & 2.52     & 2.55     & 2.52     & 2.57     & 2.54 \\
     \hline
   \end{mytable}
 
@@ -489,23 +620,23 @@ the classical GMRES}
 
   \begin{mytable}{6}
     \hline
-    bw
-    & 50        & 50        & 50        & 50        & 10        & 10 \\
+    bandwidth (Mbit/s)
+    & 50        & 50        & 50        & 50        & 50 \\
     \hline
-    lat
-    & 0.02      & 0.02      & 0.02      & 0.02      & 0.03      & 0.01 \\
+    latency (ms)
+    & 20      & 20      & 20      & 20      & 20 \\
     \hline
-    power
-    & 1.5       & 1.5       & 1.5       & 1.5       & 1         & 1.5 \\
+    power (GFlops)
+    & 1.5         & 1.5         & 1         & 1.5       & 1.5 \\
     \hline
-    size
-    & 120       & 130       & 140       & 150       & 171       & 171 \\
+    size (N)
+    & 110       & 120       & 130       & 140       & 150 \\
     \hline
-    Prec/Eprec
-    & \np{E-11} & \np{E-11} & \np{E-11} & \np{E-11} & \np{E-5}  & \np{E-5} \\
+    Precision
+    & \np{E-11} & \np{E-11} & \np{E-11} & \np{E-11} & \np{E-11}\\
     \hline
-    speedup
-    & 0.398     & 0.388     & 0.393     & 0.394     & 0.63      & 0.778 \\
+    Relative gain
+    & 2.53     & 2.51     & 2.58     & 2.55     & 2.54 \\
     \hline
   \end{mytable}
 \end{table}
@@ -520,12 +651,8 @@ CONCLUSION
 The authors would like to thank\dots{}
 
 
-% trigger a \newpage just before the given reference
-% number - used to balance the columns on the last page
-% adjust value as needed - may need to be readjusted if
-% the document is modified later
-\bibliographystyle{IEEEtran}
-\bibliography{hpccBib}
+\bibliographystyle{wileyj}
+\bibliography{biblio}
 
 \end{document}
 
