Index: sm/workshop/2012/Talks/06_Mesh_generation/06_Mesh_generation.tex =================================================================== --- /issm/workshop/2012/Talks/06_Mesh_generation/06_Mesh_generation.tex (revision 14032) +++ (revision ) @@ -1,345 +1,0 @@ -%Preamble {{{ -\documentclass[9pt,notes=hide]{beamer} % Document class: beamer %8 pts is also a good option -\usetheme[jpl,headstyle=institute,fnolabel=,sidebar=.15\paperwidth,footstyle=low,footsep={ $\cdot$ },TPomitframeno]{Pasadena} -\useinnertheme{MLHacks} % ISSM bonuses (ghostframes for example) -\usepackage[T1]{fontenc} % T1 encoding is better for foreign langages -\usepackage{aeguill,aecompl} % Virtual fonts -\usepackage{amsmath,amssymb,amsfonts}% Mathematical symbols (useful for equations) -\usepackage{bm} % maths letters, real = IR -\usepackage{xcolor} % We can define new colors -\usepackage{graphicx} % Include pictures -\usepackage{times} % Use Times Font instead of default -\usepackage{appendixnumberbeamer} -\usepackage[framed,numbered,autolinebreaks,useliterate]{mcode} -\usepackage{booktabs} %nice tables (toprule, bottomrule,...) -\graphicspath{ % directories where the pictures are located -{Images/} -} -\hypersetup{pdfstartview={Fit}} % Acrobat reader: open fit to screen - -\setbeamercovered{invisible} %invisible, transparent, dynamic, highly dynamic -%}}} -%Newcommands {{{ -%%Automatically insert outline slide at the begining of each new section (very nice!) -%\AtBeginSection[]{ -%\begin{frame} -% \ghostframe %do not count slide -% \frametitle{Outline} % title of the slide -% \tableofcontents[currentsection] -%\end{frame} -%} -%}}} -%Presentation properties{{{ -%between brackets []: shown on headers and footers of every slide (must be short) -%between parenthesis (): shown on title page only (long) -\title[Mesh generation]{Ice Sheet System model} -\subtitle{Mesh Generation} -\author[]{ -Eric \textsc{Larour}\inst{1}, -Eric \textsc{Rignot}\inst{1,3}, -\textbf{Mathieu \textsc{Morlighem}}\inst{1,2}, -H\'el\`ene \textsc{Seroussi}\inst{1,2} -Chris \textsc{Borstad}\inst{1}, -Feras \textsc{Habbal}\inst{1,3}, -Daria \textsc{Halkides}\inst{1,4}, -Behnaz \textsc{Khakbaz}\inst{1}, -John \textsc{Schiermeier}\inst{1}, -Nicole \textsc{Schlegel}\inst{1} -\vspace{1em} -} -\institute[Jet Propulsion Laboratory]{ -\inst{1}Jet Propulsion Laboratory - California Institute of Technology\\ -\inst{2}Laboratoire MSSMat, \'Ecole Centrale Paris, France\\ -\inst{3}University of California, Irvine\\ -\inst{4}Joint Institute for Regional Earth System Science \& Engineering, UCLA -} -\conference[ISSM Workshop 2011]{ISSM Workshop 2011} -\date[]{\hspace{-15em}December 2011\hspace{3em}\copyright Copyright 2011. All rights reserved} -\logo{\includegraphics[width=8em]{ISSMlogo}} -%}}} -\begin{document} - -%Title slide %{{{ -\begin{frame}[plain] %No headers or footers - %Do not change, this page is automatically generated - \ghostframe - \titlepage -\end{frame} %}}} -\begin{frame}{Outline}%{{{ - \tableofcontents -\end{frame}%}}} -\section{Introduction} -\begin{frame}\frametitle{Mesh generation in ISSM}%{{{ - \begin{itemize}\itemsep=+1em - \item Mesh generation is crucial for ice sheet modeling - \item[$\rightarrow$] controls the space of solutions - \item Finer mesh more precise but more computationally intensive - \end{itemize} - \begin{itemize}\itemsep=+1em - \item ISSM has 3 main meshers: - \begin{enumerate}\itemsep=+.7em - \item squaremesh (for ISMIP tests) - \item triangle (from J. Shewchuk) - \item bamg (adapted from F. Hecht) - \end{enumerate} - \end{itemize} -\end{frame} -%}}} - -\section{Squaremesh} -\subsection{Usage} -\begin{frame}\frametitle{Usage}%{{{ - {\tt squaremesh} generates structured uniform meshes for rectangular domain - \begin{itemize} - \item[$\rightarrow$] needed for ISMIP tests - \end{itemize} - \lstinputlisting[firstline=7,lastline=7]{Code/ex1.m} - Arguments: - \begin{enumerate} - \item model - \item x-length - \item y-length - \item number of nodes along the x axis - \item number of nodes along the y axis - \end{enumerate} -\end{frame} -%}}} -\subsection{Example} -\begin{frame}\frametitle{Example}%{{{ - \lstinputlisting[firstline=7,lastline=7]{Code/ex1.m} - \begin{center} - \includegraphics[height=0.7\textheight]{Mesh_sq1} - \end{center} -\end{frame} -%}}} - -\section{Triangle} -\subsection{Usage} -\begin{frame}\frametitle{Usage}%{{{ - {\tt triangle} is a very fast algorithm for mesh generation - \begin{itemize} - \item[+] excellent for uniform mesh - \item[-] bad at mesh refinement - \end{itemize} - \lstinputlisting[firstline=1,lastline=1]{Code/ex1.m} - Arguments: - \begin{enumerate} - \item model - \item ARGUS file of the domain outline - \lstinputlisting[frame=none,numbers=none]{Code/Square.exp} - \item average element size - \end{enumerate} -\end{frame} -%}}} -\subsection{Example} -\begin{frame}\frametitle{Example}%{{{ - \lstinputlisting[firstline=1,lastline=1]{Code/ex1.m} - \begin{center} - \includegraphics[height=0.3\textheight]{Mesh1} - \end{center} - \lstinputlisting[firstline=3,lastline=3]{Code/ex1.m} - \begin{center} - \includegraphics[height=0.3\textheight]{Mesh2} - \end{center} -\end{frame} -%}}} - -\section{Bamg} -\begin{frame}\frametitle{History}%{{{ - Initial software: - \begin{itemize} - \item BAMG: Bidimensional Anisotropic Mesh Generator - \item developed by Fr\'ed\'eric Hecht (INRIA/universit\'e de Jussieux) - \item released in 2006 after more than 10 years of development - \item now part of FreeFEM++ - \end{itemize} - \vspace{2em} - - In ISSM: - \begin{itemize} - \item almost entirely rewritten - \item usual ISSM interface - \end{itemize} - \vspace{2em} - - Advantages: - \begin{itemize} - \item[+] anisotropic mesh adaptation capability - \item[-] not good for uniform meshes - \end{itemize} -\end{frame} -%}}} -\subsection{Uniform mesh} -\begin{frame}\frametitle{Usage}%{{{ - Arguments: - \begin{enumerate} - \item model - \item pair of options (see help) - \end{enumerate} - To create a uniform mesh: - \begin{enumerate} - \item {\tt 'domain'} followed by the domain name - \item {\tt 'hmax'} followed by the triangle size - \end{enumerate} - \lstinputlisting[firstline=5,lastline=5]{Code/ex1.m} - \begin{center} - \includegraphics[height=0.3\textheight]{Mesh_bamg1} - \end{center} - \begin{itemize} - \item Not as randomly distributed as {\tt triangle} - \end{itemize} -\end{frame} -%}}} -\subsection{Non-uniform mesh} -\begin{frame}\frametitle{Usage}%{{{ - To create a non-uniform mesh: - \begin{enumerate} - \item {\tt 'domain'} followed by the domain name - \item {\tt 'hvertices'} followed by the element size for each vertex of the domain outline - \end{enumerate} - \lstinputlisting[firstline=9,lastline=10]{Code/ex1.m} - \begin{center} - \includegraphics[height=0.4\textheight]{Mesh_bamg2} - \end{center} -\end{frame} -%}}} - -\section{Mesh adaptation} -\begin{frame}\frametitle{Finite element method}%{{{ - \begin{equation} - v = \sum_{i=1}^N v_i \, \Phi_i\left(x,y\right) - \end{equation} - \begin{center} - \includegraphics[width=0.8\textwidth]{ShapeFunction} - \end{center} -\end{frame} -%}}} -\begin{frame}\frametitle{Interpolation error}%{{{ - \begin{itemize} - \item We generally use piecewise linear elements ($P1$) - \item[$\rightarrow$] How to minimize interpolation error and the number of elements at the - same time? - \end{itemize} - \begin{center} - \includegraphics[width=0.8\textwidth]{error1d} - \end{center} -\end{frame} -%}}} -\subsection{Mesh refinement strategy} -\begin{frame}\frametitle{Costant field}%{{{ - \begin{center} - \only<1>{\includegraphics[width=0.6\textwidth]{Interp1}} - \only<2>{\includegraphics[width=0.6\textwidth]{Interp2}} - \end{center} - \uncover<2>{ - \begin{itemize} - \item Coarse elements OK for constant field - \end{itemize} - } -\end{frame} -%}}} -\begin{frame}\frametitle{Linear field}%{{{ - \begin{center} - \only<1>{\includegraphics[width=0.4\textwidth]{Interp3}} - \only<2>{\includegraphics[width=0.4\textwidth]{Interp4}} - \end{center} - \uncover<2>{ - \begin{itemize} - \item Coarse elements OK for linear field - \end{itemize} - } -\end{frame} -%}}} -\begin{frame}\frametitle{Non-Linear field}%{{{ - \begin{center} - \only<1>{\includegraphics[width=0.8\textwidth]{Interp5}} - \only<2>{\includegraphics[width=0.8\textwidth]{Interp5b}} - \only<3>{\includegraphics[width=0.8\textwidth]{Interp6}} - \only<4>{\includegraphics[width=0.8\textwidth]{Interp7}} - \only<5>{\includegraphics[width=0.8\textwidth]{Interp8}} - \end{center} -\end{frame} -%}}} -\begin{frame}\frametitle{Anisotropic mesh refinement}%{{{ - Strategy: - \begin{itemize} - \item Minimize the interpolation error for a given field - \item Metric based on field's Hessian matrix (second derivative) - \end{itemize} - \pause - \begin{center} - \includegraphics[width=0.9\textwidth]{JksBamg} - \end{center} -\end{frame} -%}}} -\subsection{Hands-on example} -\begin{frame}\frametitle{Field to capture}%{{{ - \scriptsize - \begin{equation*} - \begin{array}{r l} - f\left(x,y\right) & - = \exp\left( - \left(\dfrac{r - 0.75}{\varepsilon}\right)^2 \right) + 0.5 r^2 \\ - & - \quad \text{ with }\quad \varepsilon=0.25 \quad \text{ and }\quad r=\left(x+0.1\right)^2 + - \left(y+0.1\right)^2 - \end{array} - \end{equation*} - \begin{center} - \includegraphics[width=0.5\textwidth]{Bamgshock0} - \end{center} -\end{frame} -%}}} -\begin{frame}\frametitle{Uniform mesh}%{{{ - \lstinputlisting[firstline=9,lastline=11,basicstyle=\lstbasicfont\tiny]{Code/ex2.m} - \begin{center} - \includegraphics[width=0.45\textwidth]{Bamgshock1}\hspace{1em} - \includegraphics[width=0.45\textwidth]{Bamgshock1b} - \end{center} -\end{frame} -%}}} -\begin{frame}\frametitle{Mesh refinement}%{{{ - \lstinputlisting[firstline=16,lastline=20,basicstyle=\lstbasicfont\tiny]{Code/ex2.m} - \begin{center} - \includegraphics[width=0.45\textwidth]{Bamgshock2}\hspace{1em} - \includegraphics[width=0.45\textwidth]{Bamgshock2b} - \end{center} -\end{frame} -%}}} -\begin{frame}\frametitle{Mesh refinement}%{{{ - \lstinputlisting[firstline=25,lastline=29,basicstyle=\lstbasicfont\tiny]{Code/ex2.m} - \begin{center} - \includegraphics[width=0.45\textwidth]{Bamgshock3}\hspace{1em} - \includegraphics[width=0.45\textwidth]{Bamgshock3b} - \end{center} -\end{frame} -%}}} -\begin{frame}\frametitle{Mesh refinement}%{{{ - \lstinputlisting[firstline=34,lastline=38,basicstyle=\lstbasicfont\tiny]{Code/ex2.m} - \begin{center} - \includegraphics[width=0.45\textwidth]{Bamgshock4}\hspace{1em} - \includegraphics[width=0.45\textwidth]{Bamgshock4b} - \end{center} -\end{frame} -%}}} -\begin{frame}\frametitle{Mesh refinement}%{{{ - \lstinputlisting[firstline=43,lastline=47,basicstyle=\lstbasicfont\tiny]{Code/ex2.m} - \begin{center} - \includegraphics[width=0.45\textwidth]{Bamgshock5}\hspace{1em} - \includegraphics[width=0.45\textwidth]{Bamgshock5b} - \end{center} -\end{frame} -%}}} - -%Thanks slide{{{ -\usebackgroundtemplate{\includegraphics[width=\paperwidth,height=\paperheight]{Thanksbg}} -\begin{frame}[plain] - \ghostframe - \begin{center} - \vspace*{-0.1\paperheight} - \hspace*{-0.15\paperwidth}\Huge{Thanks!} - \end{center} - \note{Thank you very much for your attention} -\end{frame} -\usebackgroundtemplate{} -%}}} -\end{document} Index: sm/workshop/2012/Talks/06_Mesh_generation/Makefile =================================================================== --- /issm/workshop/2012/Talks/06_Mesh_generation/Makefile (revision 14032) +++ (revision ) @@ -1,40 +1,0 @@ -#Makefile for beamer -TARGET=06_Mesh_generation - -export TEXINPUTS=$(JPL_SVN)/publications/templates/beamer/Theme/Pasadena//: - -all: one - -one: - pdflatex -halt-on-error -file-line-error $(TARGET).tex - open $(TARGET).pdf - -complete: - pdflatex -halt-on-error -file-line-error -draftmode $(TARGET).tex -# bibtex $(TARGET) - pdflatex -halt-on-error -file-line-error -draftmode $(TARGET).tex - pdflatex -halt-on-error -file-line-error $(TARGET).tex - open $(TARGET).pdf - -bib: - bibtex $(TARGET) - -links: - ln -s $(ISSM_DIR)/publications/templates/beamer/Theme/Pasadena/*.sty . - ln -s $(ISSM_DIR)/publications/templates/beamer/Theme/Pasadena/general/*.sty . - ln -s $(ISSM_DIR)/publications/templates/beamer/Theme/Pasadena/subtheme/*.sty . - ln -s $(ISSM_DIR)/publications/templates/beamer/Theme/Pasadena/ML/*.sty . - ln -s $(ISSM_DIR)/publications/templates/beamer/Theme/Pasadena/graphics/JPL/*.pdf . - -unlinks: - find . -maxdepth 1 -type l -print | xargs rm - -open: - open -a /Applications/Adobe\ Reader\ 9/Adobe\ Reader.app/ $(TARGET).pdf - -clean: - rm -f ${TARGET}.{dvi,ps,pdf,toc,log,aux,out,nav,snm,bbl,blg,vrb} - -allclean: - make clean - make unlinks Index: sm/workshop/2012/Talks/06_Mesh_generation/mcode.sty =================================================================== --- /issm/workshop/2012/Talks/06_Mesh_generation/mcode.sty (revision 14032) +++ (revision ) @@ -1,280 +1,0 @@ -%% -%% This is file `mcode.sty' -%% -%% It is supposed to help you easily include MATLAB source code -%% into LaTeX document, but have it nicely highlighted, using -%% the great listings package. -%% -%% PLEASE NOTE that this package does nothing but save you from -%% figuring out some configurations in setting up the LISTINGS -%% package. ALL the work is done by that package! Thus, please -%% refer your questions to the listings package documentation. -%% -%% Usage: You have three ways of including your MATLAB code. As -%% environment, as inline object and directly from an external -%% file. -%% -%% 1) Environment: -%% -%% \begin{lstlisting} -%% YOUR CODE HERE -%% \end{lstlisting} -%% -%% -%% 2) Inline object: -%% -%% Bla bla \mcode{CODEFRAGMENT} bla bla. -%% -%% -%% 3) Include external file (in environment form) -%% -%% \lstinputlisting{YOUR-FILE.m} -%% -%% -%% For your convenience this package has the following options: -%% -%% - bw if you intend to print the document (highlighting done -%% via text formatting (bold, italic) and shades of gray) -%% -%% - numbered if you want line numbers -%% -%% - autolinebreaks if you want the package to automatically -%% wrap your code. 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For ex. §text and some math: $x^2$§, which is -%% especially useful in comments for putting nicely typeset -%% equations etc. To get the same colour/style as in the rest -%% of the comment use \mcommentfont, i.e. §\mcommentfont $x^2$§ -%% -%% To change the font used, edit the first line in the "custo- -%% mise below" section. And feel free to edit other things as -%% well. Refer to the documentation of the listings package to -%% see what else you could do. 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