relecture de la partie OpenMP

diff --git a/paper.tex b/paper.tex
index 6d33e40b95eeeb3c7030e831ba35ae51c8a650bd..ba790c16b1a7d689250071a85fbaf05f550082e4 100644 (file)
--- a/paper.tex
+++ b/paper.tex
@@ -400,7 +400,7 @@ Fax: (888) 555--1212}}
 % As a general rule, do not put math, special symbols or citations
 % in the abstract
 \begin{abstract}
 % As a general rule, do not put math, special symbols or citations
 % in the abstract
 \begin{abstract}

-\LZK{J'ai un peu modifié l'abstract. Sinon à revoir pour le degré max des polynômes testés après les tests de raph.}
+\LZK{J'ai un peu modifié l'abstract. Sinon à revoir pour le degré max des polynômes après les tests de raph.}

 Finding roots of polynomials is a very important part of solving real-life problems but it is not so easy for polynomials of high degrees. In this paper, we present two different parallel algorithms of the Ehrlich-Aberth method to find roots of sparse and fully defined polynomials of high degrees. Both algorithms are based on CUDA technology to be implemented on multi-GPU computing platforms but each using different parallel paradigms: OpenMP or MPI. The experiments show a quasi-linear speedup by using up-to 4 GPU devices to find roots of polynomials of degree up-to 1.4 billion. To our knowledge, this is the first paper to present this technology mix to solve such a highly demanding problem in parallel programming. \LZK{Je n'ai pas bien saisi la dernière phrase.}
 \end{abstract}
 
 Finding roots of polynomials is a very important part of solving real-life problems but it is not so easy for polynomials of high degrees. In this paper, we present two different parallel algorithms of the Ehrlich-Aberth method to find roots of sparse and fully defined polynomials of high degrees. Both algorithms are based on CUDA technology to be implemented on multi-GPU computing platforms but each using different parallel paradigms: OpenMP or MPI. The experiments show a quasi-linear speedup by using up-to 4 GPU devices to find roots of polynomials of degree up-to 1.4 billion. To our knowledge, this is the first paper to present this technology mix to solve such a highly demanding problem in parallel programming. \LZK{Je n'ai pas bien saisi la dernière phrase.}
 \end{abstract}
 


@@ -420,12 +420,16 @@ Finding roots of polynomials is a very important part of solving real-life probl
 \IEEEpeerreviewmaketitle
 
 
 \IEEEpeerreviewmaketitle
 
 

-
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

 \section{Introduction}
 \section{Introduction}

-Polynomials are mathematical algebraic structures that play an important role in science and engineering by capturing physical phenomena and expressing any outcome as a function of some unknown variables. Formally speaking, a polynomial $p(x)$ of degree $n$ having $n$ coefficients in the complex plane $\mathbb{C}$ is: \begin{equation}p(x)=\sum_{i=0}^{n}{a_ix^i}.\end{equation}
-\LZK{Dans ce cas le polynôme est de degré $n-1$!}
+Polynomials are mathematical algebraic structures that play an important role in science and engineering by capturing physical phenomena and expressing any outcome as a function of some unknown variables. Formally speaking, a polynomial $p(x)$ of degree $n$ having $n$ coefficients in the complex plane $\mathbb{C}$ is:
+\begin{equation}
+p(x)=\sum_{i=0}^{n}{a_ix^i}.
+\end{equation}
+\LZK{Dans ce cas le polynôme a $n+1$ coefficients !}

 
 

-The root-finding problem consists in finding the $n$ different values of the unknown variable $x$ for which $p(x)=0$. Such values are called zeros of $p$ (\textit{i.e.} roots). If zeros are $\alpha_{i}$, $i=1,\ldots,n$, then $p(x)$ can be written as :
+The root-finding problem consists in finding the $n$ different values of the unknown variable $x$ for which $p(x)=0$. Such values are called zeros or roots of $p$. If zeros are $\{\alpha_{i}\}_{1\leq i\leq n}$, then $p(x)$ can be written as :

 \begin{equation}
  p(x)=a_n\prod_{i=1}^n(x-\alpha_i), a_0 a_n\neq 0.
 \end{equation}
 \begin{equation}
  p(x)=a_n\prod_{i=1}^n(x-\alpha_i), a_0 a_n\neq 0.
 \end{equation}


@@ -443,31 +447,33 @@ where $z_i^k$ is the $i^{th}$ root of the polynomial $p$ at the iteration $k$. A
  EA: z_i^{k+1}=z_i^{k}-\frac{1}{{\frac {P'(z_i^{k})} {P(z_i^{k})}}-{\sum_{i\neq j}\frac{1}{(z_i^{k}-z_j^{k})}}}, i = 1, \ldots, n,
 \end{equation}
 %%\end{center}
  EA: z_i^{k+1}=z_i^{k}-\frac{1}{{\frac {P'(z_i^{k})} {P(z_i^{k})}}-{\sum_{i\neq j}\frac{1}{(z_i^{k}-z_j^{k})}}}, i = 1, \ldots, n,
 \end{equation}
 %%\end{center}

-where $p'(z)$ is the polynomial derivative of $p$ evaluated in the
-point $z$.
+where $p'(z)$ is the polynomial derivative of $p$ evaluated in the point $z$.

 
 %Aberth, Ehrlich and Farmer-Loizou~\cite{Loizou83} have proved that
 %the Ehrlich-Aberth method (EA) has a cubic order of convergence for simple roots whereas the Durand-Kerner has a quadratic order of %convergence.
 
 
 %Aberth, Ehrlich and Farmer-Loizou~\cite{Loizou83} have proved that
 %the Ehrlich-Aberth method (EA) has a cubic order of convergence for simple roots whereas the Durand-Kerner has a quadratic order of %convergence.
 

-The main problem of the simultaneous methods is that the necessary time needed for the convergence increases with the increasing of the polynomial's degree. Many authors have treated the problem of implementing  simultaneous methods in parallel. Freeman~\cite{Freeman89} implemented and compared DK, EA and another method of the fourth order proposed by Farmer and Loizou~\cite{Loizou83} \LZK{of the fourth order ?? \color{red}{of convergence} \\ Sinon peut on donner et citer le nom de la 3ième méthode?\color{red}{Farmer-Loizou method}} on a 8-processor linear chain, for polynomials of degree up-to 8.
-The third method often diverges, \LZK{C'est mieux de donner le nom de cette 3ième méthode} but the first two methods have a speed-up equals to 5.5. Later, Freeman and Bane~\cite{Freemanall90} considered asynchronous algorithms, in which each processor continues to update its approximations even though the latest values of other $z^{k}_{i}$ have not been received from the other processors, in contrast with synchronous algorithms where it would wait those values before making a new iteration. Couturier et al.~\cite{Raphaelall01} proposed two methods of parallelization for a shared memory architecture with \textit{OpenMP} and for a distributed memory one with \textit{MPI}. They are able to compute the roots of sparse polynomials of degree 10,000 in 116 seconds with \textit{OpenMP} and 135 seconds with \textit{MPI} only by using 8 personal computers and 2 communications per iteration. \LZK{je suppose que c'est pour la version mpi (only by using 8 personal computers and 2 communications per iteration). A t on utilisé le même nombre de procs pour les deux versions openmp et mpi} The authors showed an interesting speedup comparing to the sequential implementation that takes up-to 3,300 seconds to obtain same results.
+The main problem of the simultaneous methods is that the necessary time needed for the convergence increases with the increasing of the polynomial's degree. Many authors have treated the problem of implementing  simultaneous methods in parallel. Freeman~\cite{Freeman89} implemented and compared DK, EA and another method of the fourth order of convergence proposed by Farmer and Loizou~\cite{Loizou83} on a 8-processor linear chain, for polynomials of degree up-to 8. The method of Farmer and Loizou~\cite{Loizou83} often diverges, but the first two methods (DK and EA) have a speed-up equals to 5.5. Later, Freeman and Bane~\cite{Freemanall90} considered asynchronous algorithms in which each processor continues to update its approximations even though the latest values of other $z^{k}_{i}$ have not been received from the other processors, in contrast with synchronous algorithms where it would wait those values before making a new iteration. Couturier et al.~\cite{Raphaelall01} proposed two methods of parallelization for a shared memory architecture with \textit{OpenMP} and for a distributed memory one with \textit{MPI}. They are able to compute the roots of sparse polynomials of degree 10,000 in 116 seconds with \textit{OpenMP} and 135 seconds with \textit{MPI} only by using 8 personal computers and 2 communications per iteration. \LZK{je suppose que c'est pour la version mpi (only by using 8 personal computers and 2 communications per iteration). A t on utilisé le même nombre de procs pour les deux versions openmp et mpi} The authors showed an interesting speedup comparing to the sequential implementation that takes up-to 3,300 seconds to obtain same results.
+
+Very few work had been performed since then until the appearing of the Compute Unified Device Architecture (CUDA)~\cite{CUDA10}, a parallel computing platform and a programming model invented by NVIDIA. The computing power of GPUs (Graphics Processing Units) has exceeded that of CPUs. However, CUDA adopts a totally new computing architecture to use the hardware resources provided by the GPU in order to offer a stronger computing ability to the massive data computing. Ghidouche and al~\cite{Kahinall14} proposed an implementation of the Durand-Kerner method on a single GPU. Their main results showed that a parallel CUDA implementation is about 10 times faster than the sequential implementation on a single CPU for sparse polynomials of degree 48,000.

 
 

-Very few work had been performed since then until the appearing of the Compute Unified Device Architecture (CUDA)~\cite{CUDA10}, a parallel computing platform and a programming model invented by NVIDIA. The computing power of GPUs (Graphics Processing Unit) has exceeded that of CPUs. However, CUDA adopts a totally new computing architecture to use the hardware resources provided by the GPU in order to offer a stronger computing ability to the massive data computing. Ghidouche and al~\cite{Kahinall14} proposed an implementation of the Durand-Kerner method on a single GPU. Their main results showed that a parallel CUDA implementation is about 10 times faster than the sequential implementation on a single CPU for sparse polynomials of degree 48,000.
+%Finding polynomial roots rapidly and accurately is the main objective of our work. We consider two architectures: shared-memory computers with OpenMP API and distributed-memory computers with MPI API. The first approach is based on threads from the same system process, with each thread attached to one GPU and after the various memory allocations, each thread launches its part of computations. To do this we must first load on the GPU required data and after the computations are carried, repatriate the result on the host. The second approach i.e distributed memory with MPI relies on the MPI library which is often used for parallel programming~\cite{Peter96} in cluster systems because it is a message-passing programming language. Each GPU is attached to one MPI process, and a loop is in charge of the distribution of tasks between the MPI processes. This solution can be used on one GPU, or executed on a distributed cluster of GPUs, employing the Message Passing Interface (MPI) to communicate between separate CUDA cards. This solution permits scaling of the problem size to larger classes than would be possible on a single device and demonstrates the performance which users might expect from future HPC architectures where accelerators are deployed.

 
 

-Finding polynomial roots rapidly and accurately is the main objective of our work. In this paper we propose the parallelization of Ehrlich-Aberth method using two parallel programming paradigms OpenMP and MPI on multi-GPU platforms. {\color{red}{We consider two architectures: shared-memory computers with OpenMP API and distributed-memory computers with MPI API. The first approach is based on threads from the same system process, with each thread attached to one GPU and after the various memory allocations, each thread launches its part of computations. To do this we must first load on the GPU required data and after the computations are carried, repatriate the result on the host. The second approach i.e distributed memory with MPI relies on the MPI library which is often used for parallel programming~\cite{Peter96} in
-cluster systems because it is a message-passing programming language. Each GPU is attached to one MPI process, and a loop is in charge of the distribution of tasks between the MPI processes. This solution can be used on one GPU, or executed on a distributed cluster of GPUs, employing the Message Passing Interface (MPI) to communicate between separate CUDA cards. This solution permits scaling of the problem size to larger classes than would be possible on a single device and demonstrates the performance which users might expect from future HPC architectures where accelerators are deployed.}}
-\LZK{Trop détaillé et mal expliqué. \\ We consider two architectures: shared-memory and distributed-memory computers. The first parallel algorithm is implemented on shared-memory computers by using OpenMP API. It is based on threads created from the same system process, such that each thread is attached to one GPU. In this case the communications between GPUs are done by OpenMP threads through shared memory. The second parallel algorithm uses the MPI API, such that each GPU is attached and managed by a MPI process. The GPUs exchange their data by message-passing communications. This latter approach is more used on distributed-memory clusters to solve very complex problems that are too large for traditional supercomputers, which are very expensive to build and run.}
+Finding polynomial roots rapidly and accurately is the main objective of our work. In this paper we propose the parallelization of Ehrlich-Aberth method using two parallel programming paradigms OpenMP and MPI on multi-GPU platforms. We consider two architectures: shared memory and distributed memory computers. The first parallel algorithm is implemented on shared memory computers by using OpenMP API. It is based on threads created from the same system process, such that each thread is attached to one GPU. In this case the communications between GPUs are done by OpenMP threads through shared memory. The second parallel algorithm uses the MPI API, such that each GPU is attached and managed by a MPI process. The GPUs exchange their data by message-passing communications. This latter approach is more used on distributed memory clusters to solve very complex problems that are too large for traditional supercomputers, which are very expensive to build and run.
+\LZK{Cette partie est réécrite. \\ Sinon qu'est ce qui a été fait pour l'accuracy dans ce papier (Finding polynomial roots rapidly and accurately is the main objective of our work.)?}

  
 {\color{red}{This paper is organized as follows. In Section~\ref{sec2} we recall the Ehrlich-Aberth method. In section~\ref{sec3} we present EA algorithm on single GPU. In section~\ref{sec4} we propose the EA algorithm implementation on Multi-GPU for (OpenMP-CUDA) approach and (MPI-CUDA) approach. In sectioné\ref{sec5} we present our experiments and discus it. Finally, Section~\ref{sec6} concludes this paper and gives some hints for future research directions in this topic.}}\LZK{A revoir toute cette organization}
  
 {\color{red}{This paper is organized as follows. In Section~\ref{sec2} we recall the Ehrlich-Aberth method. In section~\ref{sec3} we present EA algorithm on single GPU. In section~\ref{sec4} we propose the EA algorithm implementation on Multi-GPU for (OpenMP-CUDA) approach and (MPI-CUDA) approach. In sectioné\ref{sec5} we present our experiments and discus it. Finally, Section~\ref{sec6} concludes this paper and gives some hints for future research directions in this topic.}}\LZK{A revoir toute cette organization}

+
+The paper is organized as follows. In Section~\ref{sec2} we present three parallel programming models OpenMP, MPI and CUDA.
+
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

  
  

- 
-\section{Parallel Programmings Model}
+\section{Parallel programming models}

 \label{sec2}
 \label{sec2}

+In this section we present the parallel programming models OpenMP, MPI and CUDA.

  
 \subsection{OpenMP}
  
 \subsection{OpenMP}

-Open Multi-Processing (OpenMP) is a shared memory architecture API that provides multi thread capacity~\cite{openmp13}. OpenMP is
-a portable approach for parallel programming on shared memory systems based on compiler directives, that can be included in order
-to parallelize a loop. In this way, a set of loops can be distributed along the different threads that will access to different data allocated in local shared memory. One of the advantages of OpenMP is its global view of application memory address space that allows relatively fast development of parallel applications with easier maintenance. However, it is often difficult to get high rates of performance in large scale applications. Although usage of OpenMP  threads and managed data explicitly done with MPI can be considered, this approcache undermines the advantages of OpenMP.
+%Open Multi-Processing (OpenMP) is a shared memory architecture API that provides multi thread capacity~\cite{openmp13}. OpenMP is a portable approach for parallel programming on shared memory systems based on compiler directives, that can be included in order to parallelize a loop. In this way, a set of loops can be distributed along the different threads that will access to different data allocated in local shared memory. One of the advantages of OpenMP is its global view of application memory address space that allows relatively fast development of parallel applications with easier maintenance. However, it is often difficult to get high rates of performance in large scale applications. Although usage of OpenMP  threads and managed data explicitly done with MPI can be considered, this approcache undermines the advantages of OpenMP.

 
 %\subsection{OpenMP} 
 %OpenMP is a shared memory programming API based on threads from
 
 %\subsection{OpenMP} 
 %OpenMP is a shared memory programming API based on threads from


@@ -479,6 +485,9 @@ to parallelize a loop. In this way, a set of loops can be distributed along the
 %Sequential natively. Threads share some or all of the available memory and can
 %have private memory areas [6].
 
 %Sequential natively. Threads share some or all of the available memory and can
 %have private memory areas [6].
 

+OpenMP (Open Multi-processing) is an application programming interface for shared memory parallel programming~\cite{openmp13}. It is a portable approach based on the multithreading designed for shared memory computers, where a master thread forks a number of slave threads which execute blocks of code in parallel. An OpenMP program alternates sequential regions and parallel regions of code, where the sequential regions are executed by the master thread and the parallel ones may be executed by multiple threads. During the execution of an OpenMP program the threads communicate their data (read and modified) in the shared memory. One advantage of OpenMP is the global view of the memory address space of an application. This allows relatively a fast development of parallel applications with easier maintenance. However, it is often difficult to get high rates of performances in large scale-applications.
+\LZK{Cette partie est réécrite. A relire et à améliorer si possible.}  
+

 \subsection{MPI} 
 The MPI (Message Passing Interface) library allows to create computer programs that run on a distributed memory architecture. The various processes have their own environment of execution and execute their code in a asynchronous way, according to the MIMD model  (Multiple Instruction streams, Multiple Data streams); they communicate and synchronize by exchanging messages~\cite{Peter96}. MPI messages are explicitly sent, while the exchanges are implicit within the framework of a multi-thread programming environment like OpenMP or Pthreads.
  
 \subsection{MPI} 
 The MPI (Message Passing Interface) library allows to create computer programs that run on a distributed memory architecture. The various processes have their own environment of execution and execute their code in a asynchronous way, according to the MIMD model  (Multiple Instruction streams, Multiple Data streams); they communicate and synchronize by exchanging messages~\cite{Peter96}. MPI messages are explicitly sent, while the exchanges are implicit within the framework of a multi-thread programming environment like OpenMP or Pthreads.