+
+%% bare_conf.tex
+%% V1.3
+%% 2007/01/11
+%% by Michael Shell
+%% See:
+%% http://www.michaelshell.org/
+%% for current contact information.
+%%
+%% This is a skeleton file demonstrating the use of IEEEtran.cls
+%% (requires IEEEtran.cls version 1.7 or later) with an IEEE conference paper.
+%%
+%% Support sites:
+%% http://www.michaelshell.org/tex/ieeetran/
+%% http://www.ctan.org/tex-archive/macros/latex/contrib/IEEEtran/
+%% and
+%% http://www.ieee.org/
+
+%%*************************************************************************
+%% Legal Notice:
+%% This code is offered as-is without any warranty either expressed or
+%% implied; without even the implied warranty of MERCHANTABILITY or
+%% FITNESS FOR A PARTICULAR PURPOSE!
+%% User assumes all risk.
+%% In no event shall IEEE or any contributor to this code be liable for
+%% any damages or losses, including, but not limited to, incidental,
+%% consequential, or any other damages, resulting from the use or misuse
+%% of any information contained here.
+%%
+%% All comments are the opinions of their respective authors and are not
+%% necessarily endorsed by the IEEE.
+%%
+%% This work is distributed under the LaTeX Project Public License (LPPL)
+%% ( http://www.latex-project.org/ ) version 1.3, and may be freely used,
+%% distributed and modified. A copy of the LPPL, version 1.3, is included
+%% in the base LaTeX documentation of all distributions of LaTeX released
+%% 2003/12/01 or later.
+%% Retain all contribution notices and credits.
+%% ** Modified files should be clearly indicated as such, including **
+%% ** renaming them and changing author support contact information. **
+%%
+%% File list of work: IEEEtran.cls, IEEEtran_HOWTO.pdf, bare_adv.tex,
+%% bare_conf.tex, bare_jrnl.tex, bare_jrnl_compsoc.tex
+%%*************************************************************************
+
+% *** Authors should verify (and, if needed, correct) their LaTeX system ***
+% *** with the testflow diagnostic prior to trusting their LaTeX platform ***
+% *** with production work. IEEE's font choices can trigger bugs that do ***
+% *** not appear when using other class files. ***
+% The testflow support page is at:
+% http://www.michaelshell.org/tex/testflow/
+
+
+
+% Note that the a4paper option is mainly intended so that authors in
+% countries using A4 can easily print to A4 and see how their papers will
+% look in print - the typesetting of the document will not typically be
+% affected with changes in paper size (but the bottom and side margins will).
+% Use the testflow package mentioned above to verify correct handling of
+% both paper sizes by the user's LaTeX system.
+%
+% Also note that the "draftcls" or "draftclsnofoot", not "draft", option
+% should be used if it is desired that the figures are to be displayed in
+% draft mode.
+%
+\documentclass[10pt, conference, compsocconf]{IEEEtran}
+% Add the compsocconf option for Computer Society conferences.
+%
+% If IEEEtran.cls has not been installed into the LaTeX system files,
+% manually specify the path to it like:
+% \documentclass[conference]{../sty/IEEEtran}
+
+
+
+
+
+% Some very useful LaTeX packages include:
+% (uncomment the ones you want to load)
+
+
+% *** MISC UTILITY PACKAGES ***
+%
+%\usepackage{ifpdf}
+% Heiko Oberdiek's ifpdf.sty is very useful if you need conditional
+% compilation based on whether the output is pdf or dvi.
+% usage:
+% \ifpdf
+% % pdf code
+% \else
+% % dvi code
+% \fi
+% The latest version of ifpdf.sty can be obtained from:
+% http://www.ctan.org/tex-archive/macros/latex/contrib/oberdiek/
+% Also, note that IEEEtran.cls V1.7 and later provides a builtin
+% \ifCLASSINFOpdf conditional that works the same way.
+% When switching from latex to pdflatex and vice-versa, the compiler may
+% have to be run twice to clear warning/error messages.
+
+
+
+
+
+
+% *** CITATION PACKAGES ***
+%
+%\usepackage{cite}
+% cite.sty was written by Donald Arseneau
+% V1.6 and later of IEEEtran pre-defines the format of the cite.sty package
+% \cite{} output to follow that of IEEE. Loading the cite package will
+% result in citation numbers being automatically sorted and properly
+% "compressed/ranged". e.g., [1], [9], [2], [7], [5], [6] without using
+% cite.sty will become [1], [2], [5]--[7], [9] using cite.sty. cite.sty's
+% \cite will automatically add leading space, if needed. Use cite.sty's
+% noadjust option (cite.sty V3.8 and later) if you want to turn this off.
+% cite.sty is already installed on most LaTeX systems. Be sure and use
+% version 4.0 (2003-05-27) and later if using hyperref.sty. cite.sty does
+% not currently provide for hyperlinked citations.
+% The latest version can be obtained at:
+% http://www.ctan.org/tex-archive/macros/latex/contrib/cite/
+% The documentation is contained in the cite.sty file itself.
+
+
+
+
+
+
+% *** GRAPHICS RELATED PACKAGES ***
+%
+\ifCLASSINFOpdf
+ % \usepackage[pdftex]{graphicx}
+ % declare the path(s) where your graphic files are
+ % \graphicspath{{../pdf/}{../jpeg/}}
+ % and their extensions so you won't have to specify these with
+ % every instance of \includegraphics
+ % \DeclareGraphicsExtensions{.pdf,.jpeg,.png}
+\else
+ % or other class option (dvipsone, dvipdf, if not using dvips). graphicx
+ % will default to the driver specified in the system graphics.cfg if no
+ % driver is specified.
+ % \usepackage[dvips]{graphicx}
+ % declare the path(s) where your graphic files are
+ % \graphicspath{{../eps/}}
+ % and their extensions so you won't have to specify these with
+ % every instance of \includegraphics
+ % \DeclareGraphicsExtensions{.eps}
+\fi
+% graphicx was written by David Carlisle and Sebastian Rahtz. It is
+% required if you want graphics, photos, etc. graphicx.sty is already
+% installed on most LaTeX systems. The latest version and documentation can
+% be obtained at:
+% http://www.ctan.org/tex-archive/macros/latex/required/graphics/
+% Another good source of documentation is "Using Imported Graphics in
+% LaTeX2e" by Keith Reckdahl which can be found as epslatex.ps or
+% epslatex.pdf at: http://www.ctan.org/tex-archive/info/
+%
+% latex, and pdflatex in dvi mode, support graphics in encapsulated
+% postscript (.eps) format. pdflatex in pdf mode supports graphics
+% in .pdf, .jpeg, .png and .mps (metapost) formats. Users should ensure
+% that all non-photo figures use a vector format (.eps, .pdf, .mps) and
+% not a bitmapped formats (.jpeg, .png). IEEE frowns on bitmapped formats
+% which can result in "jaggedy"/blurry rendering of lines and letters as
+% well as large increases in file sizes.
+%
+% You can find documentation about the pdfTeX application at:
+% http://www.tug.org/applications/pdftex
+
+
+
+
+
+% *** MATH PACKAGES ***
+%
+%\usepackage[cmex10]{amsmath}
+% A popular package from the American Mathematical Society that provides
+% many useful and powerful commands for dealing with mathematics. If using
+% it, be sure to load this package with the cmex10 option to ensure that
+% only type 1 fonts will utilized at all point sizes. Without this option,
+% it is possible that some math symbols, particularly those within
+% footnotes, will be rendered in bitmap form which will result in a
+% document that can not be IEEE Xplore compliant!
+%
+% Also, note that the amsmath package sets \interdisplaylinepenalty to 10000
+% thus preventing page breaks from occurring within multiline equations. Use:
+%\interdisplaylinepenalty=2500
+% after loading amsmath to restore such page breaks as IEEEtran.cls normally
+% does. amsmath.sty is already installed on most LaTeX systems. The latest
+% version and documentation can be obtained at:
+% http://www.ctan.org/tex-archive/macros/latex/required/amslatex/math/
+
+
+
+
+
+% *** SPECIALIZED LIST PACKAGES ***
+%
+%\usepackage{algorithmic}
+% algorithmic.sty was written by Peter Williams and Rogerio Brito.
+% This package provides an algorithmic environment fo describing algorithms.
+% You can use the algorithmic environment in-text or within a figure
+% environment to provide for a floating algorithm. Do NOT use the algorithm
+% floating environment provided by algorithm.sty (by the same authors) or
+% algorithm2e.sty (by Christophe Fiorio) as IEEE does not use dedicated
+% algorithm float types and packages that provide these will not provide
+% correct IEEE style captions. The latest version and documentation of
+% algorithmic.sty can be obtained at:
+% http://www.ctan.org/tex-archive/macros/latex/contrib/algorithms/
+% There is also a support site at:
+% http://algorithms.berlios.de/index.html
+% Also of interest may be the (relatively newer and more customizable)
+% algorithmicx.sty package by Szasz Janos:
+% http://www.ctan.org/tex-archive/macros/latex/contrib/algorithmicx/
+
+
+
+
+% *** ALIGNMENT PACKAGES ***
+%
+%\usepackage{array}
+% Frank Mittelbach's and David Carlisle's array.sty patches and improves
+% the standard LaTeX2e array and tabular environments to provide better
+% appearance and additional user controls. As the default LaTeX2e table
+% generation code is lacking to the point of almost being broken with
+% respect to the quality of the end results, all users are strongly
+% advised to use an enhanced (at the very least that provided by array.sty)
+% set of table tools. array.sty is already installed on most systems. The
+% latest version and documentation can be obtained at:
+% http://www.ctan.org/tex-archive/macros/latex/required/tools/
+
+
+%\usepackage{mdwmath}
+%\usepackage{mdwtab}
+% Also highly recommended is Mark Wooding's extremely powerful MDW tools,
+% especially mdwmath.sty and mdwtab.sty which are used to format equations
+% and tables, respectively. The MDWtools set is already installed on most
+% LaTeX systems. The lastest version and documentation is available at:
+% http://www.ctan.org/tex-archive/macros/latex/contrib/mdwtools/
+
+
+% IEEEtran contains the IEEEeqnarray family of commands that can be used to
+% generate multiline equations as well as matrices, tables, etc., of high
+% quality.
+
+
+%\usepackage{eqparbox}
+% Also of notable interest is Scott Pakin's eqparbox package for creating
+% (automatically sized) equal width boxes - aka "natural width parboxes".
+% Available at:
+% http://www.ctan.org/tex-archive/macros/latex/contrib/eqparbox/
+
+
+
+
+
+% *** SUBFIGURE PACKAGES ***
+%\usepackage[tight,footnotesize]{subfigure}
+% subfigure.sty was written by Steven Douglas Cochran. This package makes it
+% easy to put subfigures in your figures. e.g., "Figure 1a and 1b". For IEEE
+% work, it is a good idea to load it with the tight package option to reduce
+% the amount of white space around the subfigures. subfigure.sty is already
+% installed on most LaTeX systems. The latest version and documentation can
+% be obtained at:
+% http://www.ctan.org/tex-archive/obsolete/macros/latex/contrib/subfigure/
+% subfigure.sty has been superceeded by subfig.sty.
+
+
+
+%\usepackage[caption=false]{caption}
+%\usepackage[font=footnotesize]{subfig}
+% subfig.sty, also written by Steven Douglas Cochran, is the modern
+% replacement for subfigure.sty. However, subfig.sty requires and
+% automatically loads Axel Sommerfeldt's caption.sty which will override
+% IEEEtran.cls handling of captions and this will result in nonIEEE style
+% figure/table captions. To prevent this problem, be sure and preload
+% caption.sty with its "caption=false" package option. This is will preserve
+% IEEEtran.cls handing of captions. Version 1.3 (2005/06/28) and later
+% (recommended due to many improvements over 1.2) of subfig.sty supports
+% the caption=false option directly:
+%\usepackage[caption=false,font=footnotesize]{subfig}
+%
+% The latest version and documentation can be obtained at:
+% http://www.ctan.org/tex-archive/macros/latex/contrib/subfig/
+% The latest version and documentation of caption.sty can be obtained at:
+% http://www.ctan.org/tex-archive/macros/latex/contrib/caption/
+
+
+
+
+% *** FLOAT PACKAGES ***
+%
+%\usepackage{fixltx2e}
+% fixltx2e, the successor to the earlier fix2col.sty, was written by
+% Frank Mittelbach and David Carlisle. This package corrects a few problems
+% in the LaTeX2e kernel, the most notable of which is that in current
+% LaTeX2e releases, the ordering of single and double column floats is not
+% guaranteed to be preserved. Thus, an unpatched LaTeX2e can allow a
+% single column figure to be placed prior to an earlier double column
+% figure. The latest version and documentation can be found at:
+% http://www.ctan.org/tex-archive/macros/latex/base/
+
+
+
+%\usepackage{stfloats}
+% stfloats.sty was written by Sigitas Tolusis. This package gives LaTeX2e
+% the ability to do double column floats at the bottom of the page as well
+% as the top. (e.g., "\begin{figure*}[!b]" is not normally possible in
+% LaTeX2e). It also provides a command:
+%\fnbelowfloat
+% to enable the placement of footnotes below bottom floats (the standard
+% LaTeX2e kernel puts them above bottom floats). This is an invasive package
+% which rewrites many portions of the LaTeX2e float routines. It may not work
+% with other packages that modify the LaTeX2e float routines. The latest
+% version and documentation can be obtained at:
+% http://www.ctan.org/tex-archive/macros/latex/contrib/sttools/
+% Documentation is contained in the stfloats.sty comments as well as in the
+% presfull.pdf file. Do not use the stfloats baselinefloat ability as IEEE
+% does not allow \baselineskip to stretch. Authors submitting work to the
+% IEEE should note that IEEE rarely uses double column equations and
+% that authors should try to avoid such use. Do not be tempted to use the
+% cuted.sty or midfloat.sty packages (also by Sigitas Tolusis) as IEEE does
+% not format its papers in such ways.
+
+
+
+
+
+% *** PDF, URL AND HYPERLINK PACKAGES ***
+%
+%\usepackage{url}
+% url.sty was written by Donald Arseneau. It provides better support for
+% handling and breaking URLs. url.sty is already installed on most LaTeX
+% systems. The latest version can be obtained at:
+% http://www.ctan.org/tex-archive/macros/latex/contrib/misc/
+% Read the url.sty source comments for usage information. Basically,
+% \url{my_url_here}.
+
+
+
+
+
+% *** Do not adjust lengths that control margins, column widths, etc. ***
+% *** Do not use packages that alter fonts (such as pslatex). ***
+% There should be no need to do such things with IEEEtran.cls V1.6 and later.
+% (Unless specifically asked to do so by the journal or conference you plan
+% to submit to, of course. )
+
+
+% correct bad hyphenation here
+\hyphenation{op-tical net-works semi-conduc-tor}
+
+
+
+\usepackage{algorithm}
+\usepackage{algpseudocode}
+\usepackage{amsmath}
+\usepackage{amssymb}
+\usepackage{multirow}
+\usepackage{graphicx}
+
+\algnewcommand\algorithmicinput{\textbf{Input:}}
+\algnewcommand\Input{\item[\algorithmicinput]}
+
+\algnewcommand\algorithmicoutput{\textbf{Output:}}
+\algnewcommand\Output{\item[\algorithmicoutput]}
+
+
+
+\begin{document}
+%
+% paper title
+% can use linebreaks \\ within to get better formatting as desired
+\title{TSARM: A Two-Stage Algorithm with least-square Residual Minimization to solve large sparse linear systems}
+%où
+%\title{A two-stage algorithm with error minimization to solve large sparse linear systems}
+%où
+%\title{???}
+
+
+
+
+
+% author names and affiliations
+% use a multiple column layout for up to two different
+% affiliations
+
+\author{\IEEEauthorblockN{Rapha\"el Couturier\IEEEauthorrefmark{1}, Lilia Ziane Khodja \IEEEauthorrefmark{2} and Christophe Guyeux\IEEEauthorrefmark{1}}
+\IEEEauthorblockA{\IEEEauthorrefmark{1} Femto-ST Institute, University of Franche Comte, France\\
+Email: \{raphael.couturier,christophe.guyeux\}@univ-fcomte.fr}
+\IEEEauthorblockA{\IEEEauthorrefmark{2} INRIA Bordeaux Sud-Ouest, France\\
+Email: lilia.ziane@inria.fr}
+}
+
+
+
+% conference papers do not typically use \thanks and this command
+% is locked out in conference mode. If really needed, such as for
+% the acknowledgment of grants, issue a \IEEEoverridecommandlockouts
+% after \documentclass
+
+% for over three affiliations, or if they all won't fit within the width
+% of the page, use this alternative format:
+%
+%\author{\IEEEauthorblockN{Michael Shell\IEEEauthorrefmark{1},
+%Homer Simpson\IEEEauthorrefmark{2},
+%James Kirk\IEEEauthorrefmark{3},
+%Montgomery Scott\IEEEauthorrefmark{3} and
+%Eldon Tyrell\IEEEauthorrefmark{4}}
+%\IEEEauthorblockA{\IEEEauthorrefmark{1}School of Electrical and Computer Engineering\\
+%Georgia Institute of Technology,
+%Atlanta, Georgia 30332--0250\\ Email: see http://www.michaelshell.org/contact.html}
+%\IEEEauthorblockA{\IEEEauthorrefmark{2}Twentieth Century Fox, Springfield, USA\\
+%Email: homer@thesimpsons.com}
+%\IEEEauthorblockA{\IEEEauthorrefmark{3}Starfleet Academy, San Francisco, California 96678-2391\\
+%Telephone: (800) 555--1212, Fax: (888) 555--1212}
+%\IEEEauthorblockA{\IEEEauthorrefmark{4}Tyrell Inc., 123 Replicant Street, Los Angeles, California 90210--4321}}
+
+
+
+
+% use for special paper notices
+%\IEEEspecialpapernotice{(Invited Paper)}
+
+
+
+
+% make the title area
+\maketitle
+
+
+\begin{abstract}
+In this paper we propose a two stage iterative method which increases the
+convergence of Krylov iterative methods, typically those of GMRES variants. The
+principle of our approach is to build an external iteration over the Krylov
+method and to save the current residual frequently (for example, for each
+restart of GMRES). Then after a given number of outer iterations, a minimization
+step is applied on the matrix composed of the saved residuals in order to
+compute a better solution and make a new iteration if necessary. We prove that
+our method has the same convergence property than the inner method used. Some
+experiments using up to 16,394 cores show that compared to GMRES our algorithm
+can be around 7 times faster.
+\end{abstract}
+
+\begin{IEEEkeywords}
+Iterative Krylov methods; sparse linear systems; residual minimization; PETSc; %à voir...
+\end{IEEEkeywords}
+
+
+% For peer review papers, you can put extra information on the cover
+% page as needed:
+% \ifCLASSOPTIONpeerreview
+% \begin{center} \bfseries EDICS Category: 3-BBND \end{center}
+% \fi
+%
+% For peerreview papers, this IEEEtran command inserts a page break and
+% creates the second title. It will be ignored for other modes.
+\IEEEpeerreviewmaketitle
+
+
+
+
+% An example of a floating figure using the graphicx package.
+% Note that \label must occur AFTER (or within) \caption.
+% For figures, \caption should occur after the \includegraphics.
+% Note that IEEEtran v1.7 and later has special internal code that
+% is designed to preserve the operation of \label within \caption
+% even when the captionsoff option is in effect. However, because
+% of issues like this, it may be the safest practice to put all your
+% \label just after \caption rather than within \caption{}.
+%
+% Reminder: the "draftcls" or "draftclsnofoot", not "draft", class
+% option should be used if it is desired that the figures are to be
+% displayed while in draft mode.
+%
+%\begin{figure}[!t]
+%\centering
+%\includegraphics[width=2.5in]{myfigure}
+% where an .eps filename suffix will be assumed under latex,
+% and a .pdf suffix will be assumed for pdflatex; or what has been declared
+% via \DeclareGraphicsExtensions.
+%\caption{Simulation Results}
+%\label{fig_sim}
+%\end{figure}
+
+% Note that IEEE typically puts floats only at the top, even when this
+% results in a large percentage of a column being occupied by floats.
+
+
+% An example of a double column floating figure using two subfigures.
+% (The subfig.sty package must be loaded for this to work.)
+% The subfigure \label commands are set within each subfloat command, the
+% \label for the overall figure must come after \caption.
+% \hfil must be used as a separator to get equal spacing.
+% The subfigure.sty package works much the same way, except \subfigure is
+% used instead of \subfloat.
+%
+%\begin{figure*}[!t]
+%\centerline{\subfloat[Case I]\includegraphics[width=2.5in]{subfigcase1}%
+%\label{fig_first_case}}
+%\hfil
+%\subfloat[Case II]{\includegraphics[width=2.5in]{subfigcase2}%
+%\label{fig_second_case}}}
+%\caption{Simulation results}
+%\label{fig_sim}
+%\end{figure*}
+%
+% Note that often IEEE papers with subfigures do not employ subfigure
+% captions (using the optional argument to \subfloat), but instead will
+% reference/describe all of them (a), (b), etc., within the main caption.
+
+
+% An example of a floating table. Note that, for IEEE style tables, the
+% \caption command should come BEFORE the table. Table text will default to
+% \footnotesize as IEEE normally uses this smaller font for tables.
+% The \label must come after \caption as always.
+%
+%\begin{table}[!t]
+%% increase table row spacing, adjust to taste
+%\renewcommand{\arraystretch}{1.3}
+% if using array.sty, it might be a good idea to tweak the value of
+% \extrarowheight as needed to properly center the text within the cells
+%\caption{An Example of a Table}
+%\label{table_example}
+%\centering
+%% Some packages, such as MDW tools, offer better commands for making tables
+%% than the plain LaTeX2e tabular which is used here.
+%\begin{tabular}{|c||c|}
+%\hline
+%One & Two\\
+%\hline
+%Three & Four\\
+%\hline
+%\end{tabular}
+%\end{table}
+
+
+% Note that IEEE does not put floats in the very first column - or typically
+% anywhere on the first page for that matter. Also, in-text middle ("here")
+% positioning is not used. Most IEEE journals/conferences use top floats
+% exclusively. Note that, LaTeX2e, unlike IEEE journals/conferences, places
+% footnotes above bottom floats. This can be corrected via the \fnbelowfloat
+% command of the stfloats package.
+
+
+
+%%%*********************************************************
+%%%*********************************************************
+\section{Introduction}
+% no \IEEEPARstart
+% You must have at least 2 lines in the paragraph with the drop letter
+% (should never be an issue)
+
+Iterative methods became more attractive than direct ones to solve very large
+sparse linear systems. Iterative methods are more effecient in a parallel
+context, with thousands of cores, and require less memory and arithmetic
+operations than direct methods. A number of iterative methods are proposed and
+adapted by many researchers and the increased need for solving very large sparse
+linear systems triggered the development of efficient iterative techniques
+suitable for the parallel processing.
+
+Most of the successful iterative methods currently available are based on Krylov
+subspaces which consist in forming a basis of a sequence of successive matrix
+powers times an initial vector for example the residual. These methods are based
+on orthogonality of vectors of the Krylov subspace basis to solve linear
+systems. The most well-known iterative Krylov subspace methods are Conjugate
+Gradient method and GMRES method (generalized minimal residual).
+
+However, iterative methods suffer from scalability problems on parallel
+computing platforms with many processors due to their need for reduction
+operations and collective communications to perform matrix-vector
+multiplications. The communications on large clusters with thousands of cores
+and large sizes of messages can significantly affect the performances of
+iterative methods. In practice, Krylov subspace iteration methods are often used
+with preconditioners in order to increase their convergence and accelerate their
+performances. However, most of the good preconditioners are not scalable on
+large clusters.
+
+In this paper we propose a two-stage algorithm based on two nested iterations
+called inner-outer iterations. This algorithm consists in solving the sparse
+linear system iteratively with a small number of inner iterations and restarts
+the outer step with a new solution minimizing some error functions over some
+previous residuals. This algorithm is iterative and easy to parallelize on large
+clusters and the minimization technique improves its convergence and
+performances.
+
+The present paper is organized as follows. In Section~\ref{sec:02} some related
+works are presented. Section~\ref{sec:03} presents our two-stage algorithm using
+a least-square residual minimization. Section~\ref{sec:04} describes some
+convergence results on this method. Section~\ref{sec:05} shows some experimental
+results obtained on large clusters of our algorithm using routines of PETSc
+toolkit. Finally Section~\ref{sec:06} concludes and gives some perspectives.
+%%%*********************************************************
+%%%*********************************************************
+
+
+
+%%%*********************************************************
+%%%*********************************************************
+\section{Related works}
+\label{sec:02}
+%Wherever Times is specified, Times Roman or Times New Roman may be used. If neither is available on your system, please use the font closest in appearance to Times. Avoid using bit-mapped fonts if possible. True-Type 1 or Open Type fonts are preferred. Please embed symbol fonts, as well, for math, etc.
+%%%*********************************************************
+%%%*********************************************************
+
+
+
+%%%*********************************************************
+%%%*********************************************************
+\section{Two-stage algorithm with least-square residuals minimization}
+\label{sec:03}
+A two-stage algorithm is proposed to solve large sparse linear systems of the
+form $Ax=b$, where $A\in\mathbb{R}^{n\times n}$ is a sparse and square
+nonsingular matrix, $x\in\mathbb{R}^n$ is the solution vector and
+$b\in\mathbb{R}^n$ is the right-hand side. The algorithm is implemented as an
+inner-outer iteration solver based on iterative Krylov methods. The main key
+points of our solver are given in Algorithm~\ref{algo:01}.
+
+In order to accelerate the convergence, the outer iteration periodically applies
+a least-square minimization on the residuals computed by the inner solver. The
+inner solver is based on a Krylov method which does not require to be changed.
+
+At each outer iteration, the sparse linear system $Ax=b$ is solved, only for $m$
+iterations, using an iterative method restarting with the previous solution. For
+example, the GMRES method~\cite{Saad86} or some of its variants can be used as a
+inner solver. The current solution of the Krylov method is saved inside a matrix
+$S$ composed of successive solutions computed by the inner iteration.
+
+Periodically, every $s$ iterations, the minimization step is applied in order to
+compute a new solution $x$. For that, the previous residuals are computed with
+$(b-AS)$. The minimization of the residuals is obtained by
+\begin{equation}
+ \underset{\alpha\in\mathbb{R}^{s}}{min}\|b-R\alpha\|_2
+\label{eq:01}
+\end{equation}
+with $R=AS$. Then the new solution $x$ is computed with $x=S\alpha$.
+
+
+In practice, $R$ is a dense rectangular matrix in $\mathbb{R}^{n\times s}$,
+$s\ll n$. In order to minimize~(\ref{eq:01}), a least-square method such as
+CGLS ~\cite{Hestenes52} or LSQR~\cite{Paige82} is used. Those methods are more
+appropriate than a direct method in a parallel context.
+
+\begin{algorithm}[t]
+\caption{TSARM}
+\begin{algorithmic}[1]
+ \Input $A$ (sparse matrix), $b$ (right-hand side)
+ \Output $x$ (solution vector)\vspace{0.2cm}
+ \State Set the initial guess $x^0$
+ \For {$k=1,2,3,\ldots$ until convergence (error$<\epsilon_{tsarm}$)} \label{algo:conv}
+ \State $x^k=Solve(A,b,x^{k-1},max\_iter_{kryl})$ \label{algo:solve}
+ \State retrieve error
+ \State $S_{k~mod~s}=x^k$ \label{algo:store}
+ \If {$k$ mod $s=0$ {\bf and} error$>\epsilon_{tsarm}$}
+ \State $R=AS$ \Comment{compute dense matrix} \label{algo:matrix_mul}
+ \State Solve least-squares problem $\underset{\alpha\in\mathbb{R}^{s}}{min}\|b-R\alpha\|_2$ \label{algo:}
+ \State $x^k=S\alpha$ \Comment{compute new solution}
+ \EndIf
+ \EndFor
+\end{algorithmic}
+\label{algo:01}
+\end{algorithm}
+
+Algorithm~\ref{algo:01} summarizes the principle of our method. The outer
+iteration is inside the for loop. Line~\ref{algo:solve}, the Krylov method is
+called for a maximum of $max\_iter_{kryl}$ iterations. In practice, we suggest to set this parameter
+equals to the restart number of the GMRES-like method. Moreover, a tolerance
+threshold must be specified for the solver. In practice, this threshold must be
+much smaller than the convergence threshold of the TSARM algorithm (i.e.
+$\epsilon_{tsarm}$). Line~\ref{algo:store}, $S_{k~ mod~ s}=x^k$ consists in copying the
+solution $x_k$ into the column $k~ mod~ s$ of the matrix $S$. After the
+minimization, the matrix $S$ is reused with the new values of the residuals. To
+solve the minimization problem, an iterative method is used. Two parameters are
+required for that: the maximum number of iteration and the threshold to stop the
+method.
+
+To summarize, the important parameters of TSARM are:
+\begin{itemize}
+\item $\epsilon_{tsarm}$ the threshold to stop the TSARM method
+\item $max\_iter_{kryl}$ the maximum number of iterations for the krylov method
+\item $s$ the number of outer iterations before applying the minimization step
+\item $max\_iter_{ls}$ the maximum number of iterations for the iterative least-square method
+\item $\epsilon_{ls}$ the threshold to stop the least-square method
+\end{itemize}
+
+
+The parallelisation of TSARM relies on the parallelization of all its
+parts. More precisely, except the least-square step, all the other parts are
+obvious to achieve out in parallel. In order to develop a parallel version of
+our code, we have chosen to use PETSc~\cite{petsc-web-page}. For
+line~\ref{algo:matrix_mul} the matrix-matrix multiplication is implemented and
+efficient since the matrix $A$ is sparse and since the matrix $S$ contains few
+colums in practice. As explained previously, at least two methods seem to be
+interesting to solve the least-square minimization, CGLS and LSQR.
+
+In the following we remind the CGLS algorithm. The LSQR method follows more or
+less the same principle but it take more place, so we briefly explain the parallelization of CGLS which is similar to LSQR.
+
+\begin{algorithm}[t]
+\caption{CGLS}
+\begin{algorithmic}[1]
+ \Input $A$ (matrix), $b$ (right-hand side)
+ \Output $x$ (solution vector)\vspace{0.2cm}
+ \State $r=b-Ax$
+ \State $p=A'r$
+ \State $s=p$
+ \State $g=||s||^2_2$
+ \For {$k=1,2,3,\ldots$ until convergence (g$<\epsilon_{ls}$)} \label{algo2:conv}
+ \State $q=Ap$
+ \State $\alpha=g/||q||^2_2$
+ \State $x=x+alpha*p$
+ \State $r=r-alpha*q$
+ \State $s=A'*r$
+ \State $g_{old}=g$
+ \State $g=||s||^2_2$
+ \State $\beta=g/g_{old}$
+ \EndFor
+\end{algorithmic}
+\label{algo:02}
+\end{algorithm}
+
+
+In each iteration of CGLS, there is two matrix-vector multiplications and some
+classical operations: dots, norm, multiplication and addition on vectors. All
+these operations are easy to implement in PETSc or similar environment.
+
+
+
+%%%*********************************************************
+%%%*********************************************************
+
+\section{Convergence results}
+\label{sec:04}
+
+
+
+
+%%%*********************************************************
+%%%*********************************************************
+\section{Experiments using petsc}
+\label{sec:05}
+
+
+In order to see the influence of our algorithm with only one processor, we first
+show a comparison with the standard version of GMRES and our algorithm. In
+table~\ref{tab:01}, we show the matrices we have used and some of them
+characteristics. For all the matrices, the name, the field, the number of rows
+and the number of nonzero elements is given.
+
+\begin{table*}
+\begin{center}
+\begin{tabular}{|c|c|r|r|r|}
+\hline
+Matrix name & Field &\# Rows & \# Nonzeros \\\hline \hline
+crashbasis & Optimization & 160,000 & 1,750,416 \\
+parabolic\_fem & Computational fluid dynamics & 525,825 & 2,100,225 \\
+epb3 & Thermal problem & 84,617 & 463,625 \\
+atmosmodj & Computational fluid dynamics & 1,270,432 & 8,814,880 \\
+bfwa398 & Electromagnetics problem & 398 & 3,678 \\
+torso3 & 2D/3D problem & 259,156 & 4,429,042 \\
+\hline
+
+\end{tabular}
+\caption{Main characteristics of the sparse matrices chosen from the Davis collection}
+\label{tab:01}
+\end{center}
+\end{table*}
+
+The following parameters have been chosen for our experiments. As by default
+the restart of GMRES is performed every 30 iterations, we have chosen to stop
+the GMRES every 30 iterations, $max\_iter_{kryl}=30$). $s$ is set to 8. CGLS is
+chosen to minimize the least-squares problem with the following parameters:
+$\epsilon_{ls}=1e-40$ and $max\_iter_{ls}=20$. The external precision is set to
+$1e-10$ (i.e. ). Those experiments
+have been performed on a Intel(R) Core(TM) i7-3630QM CPU @ 2.40GHz with the
+version 3.5.1 of PETSc.
+
+
+In Table~\ref{tab:02}, some experiments comparing the solving of the linear
+systems obtained with the previous matrices with a GMRES variant and with out 2
+stage algorithm are given. In the second column, it can be noticed that either
+gmres or fgmres is used to solve the linear system. According to the matrices,
+different preconditioner is used. With the 2 stage algorithm, the same solver
+and the same preconditionner is used. This Table shows that the 2 stage
+algorithm can drastically reduce the number of iterations to reach the
+convergence when the number of iterations for the normal GMRES is more or less
+greater than 500. In fact this also depends on tow parameters: the number of
+iterations to stop GMRES and the number of iterations to perform the
+minimization.
+
+
+\begin{table}
+\begin{center}
+\begin{tabular}{|c|c|r|r|r|r|}
+\hline
+
+ \multirow{2}{*}{Matrix name} & Solver / & \multicolumn{2}{c|}{GMRES} & \multicolumn{2}{c|}{TSARM CGLS} \\
+\cline{3-6}
+ & precond & Time & \# Iter. & Time & \# Iter. \\\hline \hline
+
+crashbasis & gmres / none & 15.65 & 518 & 14.12 & 450 \\
+parabolic\_fem & gmres / ilu & 1009.94 & 7573 & 401.52 & 2970 \\
+epb3 & fgmres / sor & 8.67 & 600 & 8.21 & 540 \\
+atmosmodj & fgmres / sor & 104.23 & 451 & 88.97 & 366 \\
+bfwa398 & gmres / none & 1.42 & 9612 & 0.28 & 1650 \\
+torso3 & fgmres / sor & 37.70 & 565 & 34.97 & 510 \\
+\hline
+
+\end{tabular}
+\caption{Comparison of (F)GMRES and 2 stage (F)GMRES algorithms in sequential with some matrices, time is expressed in seconds.}
+\label{tab:02}
+\end{center}
+\end{table}
+
+
+
+
+
+In the following we describe the applications of PETSc we have
+experimented. Those applications are available in the ksp part which is suited
+for scalable linear equations solvers:
+\begin{itemize}
+\item ex15 is an example which solves in parallel an operator using a finite
+ difference scheme. The diagonal is equals to 4 and 4 extra-diagonals
+ representing the neighbors in each directions is equal to -1. This example is
+ used in many physical phenomena , for exemple, heat and fluid flow, wave
+ propagation...
+\item ex54 is another example based on 2D problem discretized with quadrilateral
+ finite elements. For this example, the user can define the scaling of material
+ coefficient in embedded circle, it is called $\alpha$.
+\end{itemize}
+For more technical details on these applications, interested reader are invited
+to read the codes available in the PETSc sources. Those problem have been
+chosen because they are scalable with many cores. We have tested other problem
+but they are not scalable with many cores.
+
+
+
+
+\begin{table*}
+\begin{center}
+\begin{tabular}{|r|r|r|r|r|r|r|r|r|}
+\hline
+
+ nb. cores & precond & \multicolumn{2}{c|}{GMRES} & \multicolumn{2}{c|}{TSARM CGLS} & \multicolumn{2}{c|}{TSARM LSQR} & best gain \\
+\cline{3-8}
+ & & Time & \# Iter. & Time & \# Iter. & Time & \# Iter. & \\\hline \hline
+ 2,048 & mg & 403.49 & 18,210 & 73.89 & 3,060 & 77.84 & 3,270 & 5.46 \\
+ 2,048 & sor & 745.37 & 57,060 & 87.31 & 6,150 & 104.21 & 7,230 & 8.53 \\
+ 4,096 & mg & 562.25 & 25,170 & 97.23 & 3,990 & 89.71 & 3,630 & 6.27 \\
+ 4,096 & sor & 912.12 & 70,194 & 145.57 & 9,750 & 168.97 & 10,980 & 6.26 \\
+ 8,192 & mg & 917.02 & 40,290 & 148.81 & 5,730 & 143.03 & 5,280 & 6.41 \\
+ 8,192 & sor & 1,404.53 & 106,530 & 212.55 & 12,990 & 180.97 & 10,470 & 7.76 \\
+ 16,384 & mg & 1,430.56 & 63,930 & 237.17 & 8,310 & 244.26 & 7,950 & 6.03 \\
+ 16,384 & sor & 2,852.14 & 216,240 & 418.46 & 21,690 & 505.26 & 23,970 & 6.82 \\
+\hline
+
+\end{tabular}
+\caption{Comparison of FGMRES and 2 stage FGMRES algorithms for ex15 of Petsc with 25000 components per core on Juqueen (threshold 1e-3, restart=30, s=12), time is expressed in seconds.}
+\label{tab:03}
+\end{center}
+\end{table*}
+
+
+\begin{figure}
+\centering
+ \includegraphics[width=0.45\textwidth]{nb_iter_sec_ex15_juqueen}
+\caption{Number of iterations per second with ex15 and the same parameters than in Table~\ref{tab:03}}
+\label{fig:01}
+\end{figure}
+
+
+
+
+
+\begin{table*}
+\begin{center}
+\begin{tabular}{|r|r|r|r|r|r|r|r|r|}
+\hline
+
+ nb. cores & threshold & \multicolumn{2}{c|}{GMRES} & \multicolumn{2}{c|}{TSARM CGLS} & \multicolumn{2}{c|}{TSARM LSQR} & best gain \\
+\cline{3-8}
+ & & Time & \# Iter. & Time & \# Iter. & Time & \# Iter. & \\\hline \hline
+ 2,048 & 8e-5 & 108.88 & 16,560 & 23.06 & 3,630 & 22.79 & 3,630 & 4.77 \\
+ 2,048 & 6e-5 & 194.01 & 30,270 & 35.50 & 5,430 & 27.74 & 4,350 & 6.99 \\
+ 4,096 & 7e-5 & 160.59 & 22,530 & 35.15 & 5,130 & 29.21 & 4,350 & 5.49 \\
+ 4,096 & 6e-5 & 249.27 & 35,520 & 52.13 & 7,950 & 39.24 & 5,790 & 6.35 \\
+ 8,192 & 6e-5 & 149.54 & 17,280 & 28.68 & 3,810 & 29.05 & 3,990 & 5.21 \\
+ 8,192 & 5e-5 & 785.04 & 109,590 & 76.07 & 10,470 & 69.42 & 9,030 & 11.30 \\
+ 16,384 & 4e-5 & 718.61 & 86,400 & 98.98 & 10,830 & 131.86 & 14,790 & 7.26 \\
+\hline
+
+\end{tabular}
+\caption{Comparison of FGMRES and 2 stage FGMRES algorithms for ex54 of Petsc (both with the MG preconditioner) with 25000 components per core on Curie (restart=30, s=12), time is expressed in seconds.}
+\label{tab:04}
+\end{center}
+\end{table*}
+
+
+
+
+
+\begin{table*}
+\begin{center}
+\begin{tabular}{|r|r|r|r|r|r|r|r|r|r|r|}
+\hline
+
+ nb. cores & \multicolumn{2}{c|}{GMRES} & \multicolumn{2}{c|}{TSARM CGLS} & \multicolumn{2}{c|}{TSARM LSQR} & best gain & \multicolumn{3}{c|}{efficiency} \\
+\cline{2-7} \cline{9-11}
+ & Time & \# Iter. & Time & \# Iter. & Time & \# Iter. & & GMRES & TS CGLS & TS LSQR\\\hline \hline
+ 512 & 3,969.69 & 33,120 & 709.57 & 5,790 & 622.76 & 5,070 & 6.37 & 1 & 1 & 1 \\
+ 1024 & 1,530.06 & 25,860 & 290.95 & 4,830 & 307.71 & 5,070 & 5.25 & 1.30 & 1.21 & 1.01 \\
+ 2048 & 919.62 & 31,470 & 237.52 & 8,040 & 194.22 & 6,510 & 4.73 & 1.08 & .75 & .80\\
+ 4096 & 405.60 & 28,380 & 111.67 & 7,590 & 91.72 & 6,510 & 4.42 & 1.22 & .79 & .84 \\
+ 8192 & 785.04 & 109,590 & 76.07 & 10,470 & 69.42 & 9,030 & 11.30 & .32 & .58 & .56 \\
+
+\hline
+
+\end{tabular}
+\caption{Comparison of FGMRES and 2 stage FGMRES algorithms for ex54 of Petsc (both with the MG preconditioner) with 204,919,225 components on Curie with different number of cores (restart=30, s=12, threshol 5e-5), time is expressed in seconds.}
+\label{tab:05}
+\end{center}
+\end{table*}
+
+%%%*********************************************************
+%%%*********************************************************
+
+
+
+%%%*********************************************************
+%%%*********************************************************
+\section{Conclusion}
+\label{sec:06}
+%The conclusion goes here. this is more of the conclusion
+%%%*********************************************************
+%%%*********************************************************
+
+
+future plan : \\
+- study other kinds of matrices, problems, inner solvers\\
+- test the influence of all the parameters\\
+- adaptative number of outer iterations to minimize\\
+- other methods to minimize the residuals?\\
+- implement our solver inside PETSc
+
+
+% conference papers do not normally have an appendix
+
+
+
+% use section* for acknowledgement
+%%%*********************************************************
+%%%*********************************************************
+\section*{Acknowledgment}
+This paper is partially funded by the Labex ACTION program (contract
+ANR-11-LABX-01-01). We acknowledge PRACE for awarding us access to resource
+Curie and Juqueen respectively based in France and Germany.
+
+
+
+% 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
+%\IEEEtriggeratref{8}
+% The "triggered" command can be changed if desired:
+%\IEEEtriggercmd{\enlargethispage{-5in}}
+
+% references section
+
+% can use a bibliography generated by BibTeX as a .bbl file
+% BibTeX documentation can be easily obtained at:
+% http://www.ctan.org/tex-archive/biblio/bibtex/contrib/doc/
+% The IEEEtran BibTeX style support page is at:
+% http://www.michaelshell.org/tex/ieeetran/bibtex/
+\bibliographystyle{IEEEtran}
+% argument is your BibTeX string definitions and bibliography database(s)
+\bibliography{biblio}
+%
+% <OR> manually copy in the resultant .bbl file
+% set second argument of \begin to the number of references
+% (used to reserve space for the reference number labels box)
+%% \begin{thebibliography}{1}
+
+%% \bibitem{saad86} Y.~Saad and M.~H.~Schultz, \emph{GMRES: A Generalized Minimal Residual Algorithm for Solving Nonsymmetric Linear Systems}, SIAM Journal on Scientific and Statistical Computing, 7(3):856--869, 1986.
+
+%% \bibitem{saad96} Y.~Saad, \emph{Iterative Methods for Sparse Linear Systems}, PWS Publishing, New York, 1996.
+
+%% \bibitem{hestenes52} M.~R.~Hestenes and E.~Stiefel, \emph{Methods of conjugate gradients for solving linear system}, Journal of Research of National Bureau of Standards, B49:409--436, 1952.
+
+%% \bibitem{paige82} C.~C.~Paige and A.~M.~Saunders, \emph{LSQR: An Algorithm for Sparse Linear Equations and Sparse Least Squares}, ACM Trans. Math. Softw. 8(1):43--71, 1982.
+%% \end{thebibliography}
+
+
+
+
+% that's all folks
+\end{document}
+
+
