318 lines
10 KiB
TeX
318 lines
10 KiB
TeX
\documentclass[10pt,table]{beamer}
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\usepackage{pgfpages}
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%\includeonlyframes{this one}
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%[,label=this one]
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\usepackage{polyglossia}
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\setmainlanguage{french}
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\setotherlanguage{english}
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% Do this BEFORE unicode-math
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\usepackage{amsfonts}
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\usepackage{amsmath}
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\usepackage{mathrsfs}
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\usepackage{amssymb}
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\usepackage{siunitx}
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\usefonttheme{professionalfonts}
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\usepackage{unicode-math}
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% Do this AFTER any math font package (see fontspec doc)
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\usepackage{fontspec}
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\defaultfontfeatures{Scale=MatchLowercase,Mapping=tex-text}
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\setromanfont{Fontin}[
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Path = fonts/ ,
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Extension = .ttf ,
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UprightFont = *-Regular ,
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BoldFont = *-Bold ,
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ItalicFont = *-Italic ,
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SmallCapsFont = *-SmallCaps ]
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\setsansfont{Fontin-Sans}[
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Path = fonts/ ,
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Extension = .otf ,
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UprightFont = *-Regular ,
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BoldFont = *-Bold ,
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ItalicFont = *-Italic ,
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BoldItalicFont = *-BoldItalic ,
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SmallCapsFont = *-SmallCaps ]
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%\setmonofont[Scale=0.8]{Hack}
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\setmonofont{FantasqueSansMono}[
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Path = fonts/ ,
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Extension = .ttf ,
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UprightFont = *-Regular ,
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BoldFont = *-Bold ,
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ItalicFont = *-Italic ,
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BoldItalicFont = *-BoldItalic ]
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\setmathfont[mathbf=sym] {Asana-Math}[
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Path = fonts/ ,
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Extension = .otf ]
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\usepackage{xspace}
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\usepackage{xltxtra}
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\usepackage{tikz}
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\usepackage{tabularx}
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\usepackage{pdfpages}
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%\usetikzlibrary{shadows}
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\usetikzlibrary{arrows.meta}
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\usetikzlibrary{backgrounds}
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\usetikzlibrary{bending}
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\usetikzlibrary{calc}
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\usetikzlibrary{decorations.pathmorphing}
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\usetikzlibrary{decorations.text}
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\usetikzlibrary{fit}
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\usetikzlibrary{positioning}
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\usetikzlibrary{shapes}
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\usetikzlibrary{spy}
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\usepackage{listings}
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\lstdefinestyle{haskell}{%
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language=Haskell}
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\usepackage{xparse} % LaTeX3 command declaration
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\usetheme{Pittsburgh}
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\usecolortheme{orchid}
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%Titre + sous-titre c'est mieux.
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\title{Modélisation multi-niveau}
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\subtitle{Un cadre théorique pour l'intégration des niveaux d'organisation dans
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les modèles. Applications à l'activité spatiale et à la simulation de grandes
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populations de bactéries.}
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\author{Martin \textsc{Potier}}
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\institute[UPE]{Université Paris-Est}
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\date{6 juillet 2017}
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\tikzstyle{every picture}+=[remember picture]
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\tikzset{
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diagonal fill/.style 2 args={fill=#2, path picture={
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\fill[#1, sharp corners] (path picture bounding box.south west) -|
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(path picture bounding box.north east) -- cycle;}},
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reversed diagonal fill/.style 2 args={fill=#2, path picture={
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\fill[#1, sharp corners] (path picture bounding box.north west) |-
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(path picture bounding box.south east) -- cycle;}}
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}
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\setbeamersize{text margin left=1mm,text margin right=1mm}
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%\setbeamercovered{dynamic}
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\beamertemplatenavigationsymbolsempty
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\setbeamertemplate{section in toc}[sections numbered]
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\setbeamertemplate{itemize items}[default]
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\setbeamertemplate{enumerate items}[default]
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\setbeamertemplate{section in toc shaded}[default][20]
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%\setbeamercovered{transparent=20}
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%\setbeamercolor{structure}{fg=blue}
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\setbeamertemplate{footline}{
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\begin{tikzpicture}[overlay]
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\node [anchor=center,white,fill=structure,circle,
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minimum size=7mm,text height=3.5mm,text depth=1.5mm,inner sep=1pt]
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at ($(current page) + (64mm,-49mm) + (-5mm,6mm)$)
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%{\insertframenumber~/~\inserttotalframenumber}
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{\large\insertframenumber};
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\end{tikzpicture}
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}
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\setbeamertemplate{frametitle}{
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\color{structure}
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%\bfseries
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\insertframetitle
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\par
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\vskip-12pt
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\pgfmathsetmacro{\progress}{\insertframenumber/\inserttotalframenumber}
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\pgfmathsetmacro{\progress}{126*\progress}
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\tikz[overlay]{\draw[structure,thick,gridded]
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(0,0) -- (\progress mm,0);}\par
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}
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% Solarized set
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\definecolor{base03}{HTML}{002B36}
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\definecolor{base02}{HTML}{073642}
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\definecolor{base01}{HTML}{586E75}
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\definecolor{base00}{HTML}{657B83}
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\definecolor{base0}{HTML}{839496}
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\definecolor{base1}{HTML}{93A1A1}
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\definecolor{base2}{HTML}{EEE8D5}
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\definecolor{base3}{HTML}{FDF6E3}
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\definecolor{orange}{HTML}{CB4B16}
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\definecolor{red}{HTML}{DC322F}
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\definecolor{green}{HTML}{859900}
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\definecolor{yellow}{HTML}{B58900}
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\definecolor{magenta}{HTML}{D33682}
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\definecolor{violet}{HTML}{6C71C4}
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\definecolor{blue}{HTML}{268BD2}
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\definecolor{cyan}{HTML}{2AA198}
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% Partie multi
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\colorlet{compilcol}{black!80}
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% Partie activité
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\colorlet{active}{red}
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\colorlet{ashes}{gray!60!black}
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\colorlet{fire}{orange!70!red}
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\colorlet{forest}{green}
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\colorlet{frontier}{green}
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\colorlet{quiescent}{blue}
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% Partie OTB
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\colorlet{c} {blue!60}
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\colorlet{ocaml} {green!60}
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\colorlet{opencl} {red!60}
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\colorlet{sbgp} {magenta!60}
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\newcount\currentimg % used in animations
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%Commands and aliases
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\newcommand{\mgs}{MGS\xspace}
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\newcommand{\voisinde}[1]{%
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\usebeamercolor{structure}%
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\tikz[baseline,every node/.style={circle,anchor=base,inner sep=.5mm}]{%
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\draw[draw=none] node (#1) {,};%
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\uncover<2->{\node[draw,fg] (c#1) {,};}%
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}}
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\newcommand{\mkPart}[1]{\section{#1}\input{plan}}
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\newcommand{\model}{\ensuremath{\mathfrak{M}}}
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\newcommand{\bhvm}{\ensuremath{\mathfrak{B}_{\mathfrak{M}}}}
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\newcommand{\ensm}[1][]{\ensuremath{E_{\mathfrak{M}_{#1}}}}
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\newcommand{\mref}{\ensuremath{E_{\text{Réf}}}}
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\newcommand{\sigm}{\ensuremath{\Sigma_{\mathfrak{M}}}}
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\newcommand{\timm}{\ensuremath{\mathbb{T}_{\mathfrak{M}}}}
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\newcommand{\phim}{\ensuremath{\Phi_{\mathfrak{M}}}}
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\newcommand{\chsm}{\ensuremath{\mathbb{S}_{\mathfrak{M}}}}
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\newcommand{\chvm}{\ensuremath{\mathbb{V}_{\mathfrak{M}}}}
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\newcommand{\funm}{\ensuremath{f_{\mathfrak{M}}}}
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\newcommand{\mesm}{\ensuremath{\mathbb{X}_{\mathfrak{M}}}}
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\newcommand{\prom}{\ensuremath{\mathbb{P}_{\mathfrak{M}}}}
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\newcommand{\trim}{\ensuremath{\mathcal{A}_{\mathfrak{M}}}}
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\newcommand{\orr}[1]{\ensuremath{\vec{#1}}}
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\newcommand{\mkCitation}[1]{{\Tiny\textcolor{gray}{{#1}}\par}}
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\newcommand{\tocshowonlycurrentsection}{}
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%\newcommand{\tourdelangages}[4][white][white][white][white]{
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\DeclareDocumentCommand{\tourdelangages}{ O{transparent} O{transparent} O{transparent} O{transparent} }{
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\begin{tikzpicture}[overlay,%
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every node/.style={inner sep=1mm},
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wp/.style={draw,text width=2cm,font=\footnotesize,align=center,
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minimum width=22mm, minimum height=12mm},
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compilation/.style={#4,line width=5mm,-Triangle Cap}]
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\node[wp,anchor=east,xshift=-8mm] (phenotype) at (current page.east) {
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\begin{tikzpicture}
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\clip (0cm,0cm) rectangle (2cm,1cm);
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\node[anchor=center] at (1cm,0.5cm) {\includegraphics[height=1cm]{vector/badecoli}};
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\end{tikzpicture}
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};
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\node[wp,below=of phenotype] (genotype) {
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\begin{tikzpicture}
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\clip (0cm,0cm) rectangle (2cm,1cm);
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\node[anchor=center] at (2mm,0.5cm) {\includegraphics[height=7mm,angle=47]{vector/helix}};
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\end{tikzpicture}
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};
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\node[wp,above=of phenotype] (population) {
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\begin{tikzpicture}
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\clip (0cm,0cm) rectangle (2cm,1cm);
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\node[anchor=center] at (1cm,0.5cm) {\includegraphics[height=2cm]{vector/petri}};
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\end{tikzpicture}
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};
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\draw[compilation] (population) to (phenotype);
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\draw[compilation] (phenotype) to (genotype);
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\begin{scope}[on background layer]
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\node[fit=(genotype) (phenotype) (population),rounded corners,
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fill,#1,inner sep=3mm] {};
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\node[fit=(population) (phenotype),rounded corners,
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fill,#2,inner sep=3mm] {};
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\node[fit=(phenotype),rounded corners,
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fill,#3,inner sep=3mm] {};
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\end{scope}
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\end{tikzpicture}
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}
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\newcommand{\drawfigure}{\tourdelangages{}}
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\DeclareDocumentCommand{\moteurs}{ O{transparent} O{transparent} O{transparent} }{
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\begin{tikzpicture}[overlay,
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node distance=8mm,
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wp/.style={draw},
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causation/.style={black!80,-{Triangle[width=8mm,length=5mm]},shorten >= 1mm,
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shorten <=1mm,line width=5mm}%
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]
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\coordinate[xshift=-15mm] (centre) at (current page.east);
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\node[wp,above=of centre] (moteur-physique) {%
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\begin{tikzpicture}[scale=0.7]
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\clip (0cm,0cm) rectangle (3cm,2cm);
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\node[anchor=center] at (15mm,1cm) {%
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\includegraphics[height=20mm]{vector/collision}};
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\end{tikzpicture}
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};
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\node[wp,below=of centre] (moteur-chimique) {%
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\begin{tikzpicture}[scale=0.7]
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\clip (0cm,0cm) rectangle (3cm,2cm);
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\node[anchor=center] at (15mm,1cm) {%
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\includegraphics[height=14mm]{vector/chimie}};
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\end{tikzpicture}
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};
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\draw[causation,transform canvas={xshift= 6mm}] (moteur-chimique) to (moteur-physique);
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\draw[causation,transform canvas={xshift=-6mm}] (moteur-physique) to (moteur-chimique);
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\begin{scope}[on background layer]
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\node[fit=(moteur-chimique),rounded corners,
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fill,#1,inner sep=3mm] {};
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\node[fit=(moteur-physique),rounded corners,
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fill,#2,inner sep=3mm] {};
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\node[rounded corners,fill,#3,inner sep=3mm,minimum height=2cm, minimum width=3cm]
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at (barycentric cs:moteur-chimique=1,moteur-physique=1) {};
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\end{scope}
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\end{tikzpicture}
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}
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\makeatletter
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\patchcmd{\beamer@sectionintoc}
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{\vfill}
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{\vskip5\itemsep}
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{}
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{}
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\makeatother
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\begin{document}
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%\input{test}
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%
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\input{title}
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\input{introduction}
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\input{plan}
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\renewcommand{\tocshowonlycurrentsection}{currentsection}
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\renewcommand{\drawfigure}{\tourdelangages[structure!30][transparent][transparent]}
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\mkPart{Vers la modélisation multi-niveau}
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\input{multimodel}
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\input{formalism.model.system}
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\input{experimental.model}
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\input{predator.prey}
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\input{model.category}
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\input{part1.conclude}
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\renewcommand{\drawfigure}{\tourdelangages[transparent][structure!30][transparent]}
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\mkPart{Topologie de l'activité}
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\input{activity.motivation}
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\input{mgs.topological.collections}
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\input{mgs.topological.transformations}
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\input{simple.ff.example}
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\input{where.is.activity}
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\input{example.forest.fire}
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\input{example.dla}
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\input{part2.conclude}
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\renewcommand{\drawfigure}{\tourdelangages[transparent][transparent][structure!30]}
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\mkPart{Simulateur de colonie de bactéries}
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\input{otb.general}
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\input{otb.organisation}
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\input{chemical.model}
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\input{ecoli.model}
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\input{decision.model}
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\input{otb.sectorisation}
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\input{otb.stable.pop}
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\input{otb.architecture}
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\input{part3.conclude}
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\input{closing}
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\end{document}
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%\input{bilan}
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%\input{sbgp}
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%\input{otb.ppm}
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%\input{wave.algorithm}
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%\input{activity.in.mgs}
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