#report#.tex

%%% Copyright (c) 2016-2020 Thomas Frank (thomas.frank@sanofi.com).
%%% This program is free software: You can redistribute it and/or modify it under the terms of the GNU Affero General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version. This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU Affero General Public License for more details. You should have received a copy of the GNU Affero General Public License along with this program (see file named LICENSE). If not, see <https://www.gnu.org/licenses/>.

\documentclass[abstract=true, %include abstract title in Table of Contents
              titlepage=true, %includes title page environment
              fontsize=12pt, 
              pagesize=auto, %select an output driver for writing the paper size into the PDF file
              DIV=13, BCOR=5mm, %calculates type area (13 stripes division) and includes 5 mm of binding correction
              headings=normal, %decrease font size for headings
              bibliography=totocnumbered, %reference list to appear as section in Table of Contents
              numbers=noenddot, % no dots behind section numbers
              parskip=half]{scrartcl} %no paragraph indentation

%==========================================================================
% packages, macros, and properties describing this document
%==========================================================================

\input{#report#-preamble}
\input{#report#-properties}

%==========================================================================
% hyperref settings
%==========================================================================

\definecolor{LinkColor}{RGB}{0,0,255}
\usepackage{xr-hyper}
\usepackage[pdfnewwindow]{hyperref} % option: pagebackref  for page numbers in ref. list (not needed)
\hypersetup{
        pdfstartview={XYZ null null 0.0}, 
        pdfview={XYZ 0 0 0},
        colorlinks=true,
        breaklinks=true,
        linkcolor=LinkColor,
        menucolor=LinkColor,
        urlcolor=LinkColor,
        citecolor=LinkColor,
        filecolor=LinkColor,
        bookmarks=true,
        bookmarksopen=false,
        bookmarksnumbered=true,
        linktocpage=true,
        backref=false,
        hyperfootnotes=false,
        hypertexnames=false,
        pdfauthor={\author}, 
        pdftitle={\titlec}, 
        pdfsubject={\DOC}, 
        pdfkeywords={\titleb} 
} % \hypersetup should not be outsourced to preamble because then PDF metainfo cannot be set
\usepackage[nameinlink, noabbrev,capitalize]{cleveref} %needs to be loaded after the hyperref package and both are to be loaded as the last packages, because they redefine many LaTeX commands 

%==========================================================================
% actual start of the document
%==========================================================================

\begin{document}

% TITLE PAGE AND APPROVAL PAGE %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% 

%\phantomsection % needed for hyperref
%\pdfbookmark[1]{POPULATION PHARMACOKINETIC REPORT}{toc} %change as appropriate
\addcontentsline{toc}{section}{TITLE PAGE}
%\includepdf{#report#-titlepage.pdf} % alternative; to import a single, compiled PDF page, e.g. a title page made from a MS Word-Template or any other program
\input{#report#-titlepage}
\phantomsection% needed for hyperref
%\addcontentsline{toc}{section}{STUDY PLAN APPROVAL SIGNATURES}
\input{#report#-approval} 
%\includepdf{#report#-approval.pdf} % alternative; use this command line (and comment out the line above) to include a manually signed page
\newpage

% SUMMARY %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\phantomsection % needed for hyperref
%\pdfbookmark[1]{SUMMARY}{toc} % not needed if \usepackage{abstract} is on
\renewcommand{\abstractname}{\sffamily SUMMARY} 
%\setcounter{table}{0} % reset counter 
%\setcounter{figure}{0}

\begingroup
\let\vfil\relax
\begin{abstract} 

\thispagestyle{scrheadings}

\vspace*{-.5em}
 
\label{abstract}
\input{textblocks/summary}
\end{abstract}
\endgroup

\clearpage
\newpage

% Table of contents, List of figures, List of tables %%%%%%%%%%%%%%%%%%%%%

\phantomsection % needed for hyperref
  \renewcommand{\contentsname}{TABLE OF CONTENTS}
  \addcontentsline{toc}{section}{\contentsname}  
    %\pdfbookmark[1]{TABLE OF CONTENTS}{\contentsname}
  \tableofcontents
  \newpage
\phantomsection %needed for hyperref
  \renewcommand{\listtablename}{LIST OF TABLES}
  \addcontentsline{toc}{section}{\listtablename}
  %\pdfbookmark[1]{LIST OF TABLES}{\listtablename} 
  \listoftables
\phantomsection %needed for hyperref
  \renewcommand{\listfigurename}{LIST OF FIGURES}
  \addcontentsline{toc}{section}{\listfigurename}
  %\pdfbookmark[1]{LIST OF FIGURES}{\listfigurename} 
  \listoffigures

\clearpage
\newpage


% List of acronyms %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\phantomsection % needed for hyperref
% \setlength{\glslistdottedwidth}{.35\linewidth} % adapt the width of the dotted line if style=listdotted
\printglossary[type=\acronymtype, style=long, title={ABBREVIATIONS, TERMS, AND SYMBOLS}, toctitle={ABBREVIATIONS, TERMS, AND SYMBOLS}]

\clearpage
\newpage

%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% MAIN TEXT :::: 
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\setcounter{table}{1} % reset counter (maybe needed if tables are shown in the summary)
\setcounter{figure}{0}
\renewcommand{\angle}{0}

\section{INTRODUCTION}
\label{sec:introduction}

\input{textblocks/introduction}

\section{OBJECTIVES}
\label{sec:objectives}

\input{textblocks/objectives}

\clearpage

\section{DATA}
\label{sec:data}

\input{textblocks/data}

\clearpage

\section{METHODS}
\label{sec:methods}

\input{textblocks/methods}

\clearpage

\section{RESULTS}
\label{sec:results}

\input{textblocks/results}

\clearpage

\section{DISCUSSION}
\label{sec:discussion}

\input{textblocks/discussion}

\clearpage

\section{CONCLUSIONS}
\label{sec:conclusion}

\input{textblocks/conclusion}

\clearpage

%%%%%%%%%%% Bibliography  %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%\bibliographystyle{latex8English}
%\bibliographystyle{vancouver} 
%\phantomsection % needed for hyperref
%\addcontentsline{toc}{section}{\refname}
%\bibliography{#report#}
\printbibliography[heading=bibliography, title={REFERENCES}]

%%%%%%%%% Behind-of-text displays and tables  %%%%%%%%%%%%%%%%%%%%%%%%%%
\clearpage

\input{#report#-behindoftextdisplays}

%%%% APPENDIX SECTION %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\clearpage

\renewcommand{\appendixtocname}{APPENDICES}
\renewcommand{\appendixpagename}{\sffamily APPENDICES}

\appendix
\appendixpage
\addappheadtotoc

\input{#report#-appendix}

%%% LAST PAGE FOOTER printing the path and the PDF creation date  %%%%%%%%%
% ------ no \clearpage before !! ------------------------------------------

\lofoot{\scs \basedir/\basefile.tex ; \DTMnow } \rofoot{Page \thepage{}}

\end{document}

\endinput
% END OF FILE