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main.tex
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\documentclass{beamer}
\include{tex_preamble}
\begin{document}
%------------------------------------------------------------
%The next block of commands puts the table of contents at the
%beginning of each section and highlights the current section:
%------------------------------------------------------------
\AtBeginSection[]
{
\begin{frame}{Table of contents}
\begin{columns}[t]
\begin{column}{.4\textwidth}
\tableofcontents[currentsection, hideothersubsections, sections={1-3}]
\end{column}
\begin{column}{.4\textwidth}
\tableofcontents[currentsection, hideothersubsections, sections={4-9}]
\end{column}
\end{columns}
\end{frame}
}
%------------------------------------------------------------
%------------------------------------------------------------
%logos definition
% \input{shared/logos}
%The next statement creates the title page.
\frame{\titlepage}
%---------------------------------------------------------
% General information
\begin{frame}{General information}
\begin{columns}
\column{0.6\textwidth}
\begin{block}{Practical information:}
\begin{itemize}
\item Dates: June 28th - 30th
\item Location: Institut des Systèmes Complexes, 113 rue Nationale, 75013-Paris
\item Courses: 9:00 to 17:30
\item Meal: 12:30-14:00
\item Pauses: 10:30-11:00 + 15:30-16:00
\item 2 days of courses + 1 day of course building
\end{itemize}
\end{block}
\column{0.2\textwidth}
\begin{block}{Round table:}
\begin{itemize}
\item Teachers
\item Learners
\end{itemize}
\end{block}
\begin{block}{Ressources:}
\begin{itemize}
\item \includegraphics[height=0.5cm]{shared/CC-by-nc-sa.png}
\item GitLab
\item \LaTeX
\end{itemize}
\end{block}
\end{columns}
\end{frame}
%---------------------------------------------------------
% Schelude
% https://ifb-elixirfr.github.io/IFB-FAIR-bioinfo-training/
\begin{frame}
\frametitle{Training schedule}
Day 1:
\begin{itemize}
\item \hyperlink{Introduction}{Introduction to reproducibility}
\item \hyperlink{History_management}{History management (3 Practical Sessions, \includegraphics[height=0.3cm]{shared/logo-git.png}, \includegraphics[height=0.4cm]{shared/logo-github.png})}
\item \hyperlink{Software_environment}{Control your development environment (1 PS, \includegraphics[height=0.2cm]{shared/logo-conda.png})}
\item \hyperlink{Encapsulation}{Encapsulation (2 PS, \includegraphics[height=0.4cm]{shared/logo-docker-paysage.png})}
\end{itemize}
Day 2:
\begin{itemize}
\item \hyperlink{Workflow}{Workflow (2 PS, \includegraphics[height=0.4cm]{shared/logo-snakemake.png})}
\item \hyperlink{Notebooks}{Traceability with notebooks (2 PS, \includegraphics[height=0.3cm]{shared/logo-jupyter.png}, \includegraphics[height=0.3cm]{shared/logo-Rmarkdown.png})}
\item \hyperlink{IFB}{IFB resources (2 PS,
\includegraphics[height=0.3cm]{shared/logo-slurm.png},
\includegraphics[height=0.3cm]{shared/logo-singularity.png})}
\item \hyperlink{Sharing}{Sharing and disseminating (\includegraphics[height=0.4cm]{shared/logo-github.png}, \includegraphics[height=0.4cm]{shared/logo-zenodo.png})}
\item \hyperlink{Conclusion}{Conclusion}
\end{itemize}
Day 3:
\begin{itemize}
\item \hyperlink{Improvement}{Empowerment and improvement of resources}
\end{itemize}
\end{frame}
%---------------------------------------------------------
%This block of code is for the table of contents
%\begin{frame}
%\frametitle{Table of Contents}
%\tableofcontents
%\end{frame}
%---------------------------------------------------------
%---------------------------------------------------------
% Introduction - Claire
\label{Introduction}
\section[Introduction]{Introduction to reproducibility}
\input 01_introduction/01_introduction
%---------------------------------------------------------
% History management - Git : Claire, GitHub : Céline
\label{History}
\section[History]{History management}
\input 05_history/05_history
%---------------------------------------------------------
% Encapsulation - Céline = Cours Conda et Docker + TP Docker
\label{Encapsulation}
\section[Encapsulation]{Control your development environment}
\input 02_encapsulation/02_encapsulation
%---------------------------------------------------------
% TP conda - Claire (avant le TP Docker)
%\label{Software_Environment}
%\section[Environment]{TP Conda}
%\input 06_environment/06_environment
%---------------------------------------------------------
% Jour 2
%---------------------------------------------------------
% Workflow - Claire
\label{Workflow}
\section[Pipeline]{Workflow}
\input 03_workflow/03_workflow
%---------------------------------------------------------
% Notebook - Céline
\label{Notebooks}
\section{Tracability with Notebook}
\input 07_notebook/07_notebook
%---------------------------------------------------------
% IFB resources - Julien/Gildas
\label{IFB}
\section[IFB]{IFB resources}
\input 04_IFB/04_IFB
%---------------------------------------------------------
% Sharing - Céline
\label{Sharing}
\section{Sharing and dissemination}
\input 08_sharing/08_sharing
%---------------------------------------------------------
% Conclusion - Claire
\label{Conclusion}
\section{Conclusion}
\input 09_conclusion/09_conclusion
%---------------------------------------------------------
% Jour 3
%---------------------------------------------------------
\label{Brain storming}
\section{3rd Day}
\input 10_usecases/10_usecases
\end{document}