preamble.tex

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% pre4.tex -- LaTeX Preamble               %
%                                          %
% Author: Mathias Dannesbo <neic@neic.dk>  %
% Time-stamp: <2016-01-12 18:43:35 (neic)> %
%                                          %
% LuaLaTeX preamble with modern packages.  %
%                                          %
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

% The special requirements for this to work is:
% - the serif fontface Arno Pro from Adobe,
% - the sans serif fontface Gill Sans Nova,
% - the math fontface Cambria Math from Microsoft and
% - python with
% - Pygments.
% The TeX-engine should also be run with -shell-escape.

%\includeonly{resultsdiscussion}

\RequirePackage[l2tabu, orthodox]{nag}
%\listfiles
\documentclass[a4paper,12pt,twoside,article,table,english,draft]{memoir}[2016/05/16]

% Include etoolbox and luacode for various tools used throughout the preamble
\usepackage{etoolbox, luacode}

%%%%%%%%%%%%%%%%
%%% Geometry %%%
%%%%%%%%%%%%%%%%

% Bringhurst 2.4.8 Never begin a page with the last line of a
% multi-line paragraph. Memoir 3.5 Sloppybottom.
\setlength{\topskip}{1.6\topskip} % memoir
\checkandfixthelayout % memoir
\sloppybottom % memoir

% Bringhurst 4.3.3 [Notes:] Use superscripts in the text but full-size
% numbers in the notes themselves. Memoir 12.1.2 [Footnotes:] Styling.
\setlength{\footmarkwidth}{-1sp} % memoir
\setlength{\footmarksep}{0em} % memoir
\footmarkstyle{#1 } % memoir

% Use the same footmarkstyle with threeparttable
\usepackage[online]{threeparttable}
\appto\TPTnoteSettings{\footnotesize} % threeparttable (etoolbox)


% Setup the use of subfloats in figures and tables. Use
% \subbottom[<caption>]{\includegraphics{…} \label{…}} for a subfigure with a
% caption beneath. Use \subtop[…]{…} for one above. Use \subcaption{<caption>}
% in a minipage.
% Memoir 10.9 Subcaptions
\newsubfloat{figure} % memoir
\newsubfloat{table} % memoir

% Use sans-serif for captions and subcaptions. Make the caption name and counter
% smallcaps.
% Memoir 10.6 Caption styling and 10.9 Subcaptions.
\captionnamefont{\sffamily\scshape} % memoir
\captiontitlefont{\sffamily} % memoir
\subcaptionlabelfont{\sffamily} % memoir
\subcaptionfont{\sffamily} % memoir
% Make the sub* counter letters without any parentheses. Also make it smallcaps
% for \*ref.
\renewcommand{\thesubfigure}{\scshape\alph{subfigure}}
\renewcommand{\thesubtable}{\scshape\alph{subtable}}
% However this also changes the label printed right before the caption to
% smallcaps. To revert this we overwrite the memoir-internals \@thesub*. The
% default is to have \@thesubfigure defined as
% \thesubfigure\if@tightsubcap\hskip\subfloatlabelskip\else\space\fi. We change
% out \thesubfigure (which we just made smallcaps) with \Alph{subfigure} to get
% uppercase letters. This is undocumented in the memoir, but the memoir manual
% states that the subcaptions is copied from the subfigure packages with some
% name changes. Section 5.5 Subfigure Constants of the subfigure manual
% describes \thesubfigure, \@thesubfigure et. al. The default (with few a few
% name changes) is taken from memoir.dtx.
\makeatletter
\def\@thesubfigure{\Alph{subfigure}%
  \if@tightsubcap\hskip\subfloatlabelskip\else\space\fi}
\def\@thesubtable{\Alph{subtable}%
  \if@tightsubcap\hskip\subfloatlabelskip\else\space\fi}
\makeatother

% Use micro-typography.
% Bringhurst 9.4.1 Use the best available justification engine
\usepackage{microtype}
\microtypesetup{final} % microtype


%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%% Fonts and misc. typography %%%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

\usepackage{fontspec}

% Create a flag, fancyfonts. If this is set to false, Arno, Gill Sans Nova and
% Cambria Math is not used. This is helpful if you (or your collaborators) don't
% have the fonts installed. If this is set to false, the functionality of the
% preamble is uncertain and untested.
\newtoggle{fancyfonts} % (etoolbox)
% Uncomment the line you want to use.
\toggletrue{fancyfonts} % (etoolbox)
%\togglefalse{fancyfonts} % (etoolbox)

\iftoggle{fancyfonts}{% etoolbox
  % Set Arno Pro as the main font and Gill Sans as the sans font.
  \setmainfont{Arno Pro}[Ligatures=TeX,Numbers=OldStyle] % fontspec
  \setsansfont{Gill Sans Nova}[Scale=MatchUppercase,Numbers=OldStyle] % fontspec

  % Use \lining to get lining numbers in a scope. Use \swash to get
  % swash style in a scope.
  \newcommand{\lining}{\addfontfeature{Numbers=Lining}} % fontspec
  \newfontface\swash[Ligatures=TeX,Numbers=OldStyle,Style=Swash]{Arno Pro Italic} % fontspec
}{
  % If fancyfonts is not set to true. Fail silently on \lining and \swash.
  \newcommand{\lining}{}
  \newcommand{\swash}{}
} % end \iftoggle{fancyfonts}

% Use \abbr with uppercase instead of \textsc with lowercase for abbreviations.
% E.g. \abbr{NATO} instead of \textsc{nato}. This makes the copyable text
% uppercase and also works in headings when hyperref or bookmark generates a pdf
% bookmark tree. Bringhurst 3.2.2 For abbreviations and acronyms in the midst of
% normal text, use spaced small caps.
\newcommand{\abbr}[1]{\texorpdfstring{%
    {\iftoggle{fancyfonts}{%
        \addfontfeature{Letters=UppercaseSmallCaps}#1}{%
        \luaexec{tex.print((string.gsub('#1','\%u+','\\textsc{\\lowercase{\%0}}')))}}%
    }}{#1}} % hyperref, fontspec, (etoolbox, luacode)


%%%%%%%%%%%%%%%%%%%%
%%% Localization %%%
%%%%%%%%%%%%%%%%%%%%

% Bringhurst 2.1.4 Use a single word space between sentences.
% Bringhurst 2.4.1 At hyphenated line-ends, leave at least two
% characters behind and take at least three forward.
% Bringhurst 2.4.5 Hypenate according to the conventions of the
% language.
\usepackage{polyglossia}
\setdefaultlanguage{english} % polyglossia

%%%%%%%%%%%%%%%%%%
%%% Math setup %%%
%%%%%%%%%%%%%%%%%%

\usepackage{amsmath,unicode-math,mathtools}
\unimathsetup{math-style=ISO,bold-style=ISO} % unicode-math

\iftoggle{fancyfonts}{% (etoolbox)
  % Set Arno Pro as the main math font for the glyphs it has. Use Cambria Math as
  % fallback for the rest. \setmathfont with range={…} and
  % (s)script-features={…} are from unicode-math. Script=Latin is directly from
  % fontspec.
  % Script=Latin tells fontspec to use the OpenType script 'Latin' instead
  % of the expected 'Math'. The 'Math' script is not defined in Arno or Gill
  % Sans Nova as they are not math types.
  % (s)script-features={} refer to script unrelated the OpenType script above.
  % It overwrites unicode-maths normal OpenType feature flags for super- and
  % subscript. It defaults to '+ssty', which is also missing from Arno and Gill
  % Sans Nova.
  \setmathfont{Cambria Math}[Scale=MatchLowercase]
  \setmathfont{Arno Pro}[range={up/{num,latin,Latin,greek,Greek},%
    % Below are all the symbols defined in unicode-math which are also present
    % in Arno Pro, have the right metrics and have no similar symbols missing.
    \mathexclam,\mathplus,\pm,\div,\dagger,\ddagger,\minus,\mathoctothorpe,%
    \mathdollar,\mathpercent,\mathampersand,\mathquestion,\mathatsign,%
    \mathsterling,\mathyen,\euro,\increment,\infty,\checkmark,%
    \less,\equal,\greater,\ne,\leq,\geq,\matheth,\ell,\partial,},%
  Script=Latin, script-features={}, sscript-features={}]
  \setmathfont{Arno Pro Italic}[range={it/{latin,Latin,greek,Greek}},%
  Script=Latin, script-features={}, sscript-features={}]
  \setmathfont{Arno Pro Bold}[range = {bfup/{num,latin,Latin,greek,Greek}},%
  Script=Latin, script-features={}, sscript-features={}]
  \setmathfont{Arno Pro Bold Italic}[range={bfit/{latin,Latin,greek,Greek}},%
  Script=Latin, script-features={}, sscript-features={}]

  % Set Gill Sans Nova as the sf math font.
  \setmathfont{Gill Sans Nova Book}[Scale=MatchUppercase,
  range={sfup/{num,latin,Latin}},% missing greek,Greek
  Script=Latin, script-features={}, sscript-features={}]
  \setmathfont{Gill Sans Nova Book Italic}[Scale=MatchUppercase,%
  range={sfit/{latin,Latin}},% missing num,greek,Greek
  Script=Latin, script-features={}, sscript-features={}]
  \setmathfont{Gill Sans Nova Bold}[Scale=MatchUppercase,%
  range={bfsfup/{num,latin,Latin}},% missing greek,Greek
  Script=Latin, script-features={}, sscript-features={}]
  \setmathfont{Gill Sans Nova Bold Italic}[Scale=MatchUppercase,%
  range={bfsfit/{latin,Latin,greek,Greek}},% missing num
  Script=Latin, script-features={}, sscript-features={}]

  % Set Arno Pro with the swash style as the math cal font
  \setmathfont{Arno Pro Italic}[range={cal,bfcal}, RawFeature={+swsh},
  Script=Latin, script-features={}, sscript-features={}]
}{} % end \iftoggle{fancyfonts}


% Use siunitx to typeset numbers and units with \num{}, \si{}, \SI{}{} etc.
\usepackage{siunitx}
\sisetup{%
  % With detect-all, the siunitx macros automatically detects the font around it
  % and changes its output accordingly.
  detect-all,
  % The -micro setup is to appropriate µ when using fontspec and an incompatible
  % font. Arno and Gill Sans Nova works, but the fonts used with
  % fancyfonts=false, does not. See section 7.6 Symbols and XeTeX in
  % siunitx.pdf. \angstrom and \ohm works without any modification.
  text-micro = {µ}, math-micro=\text{µ},
} % siunitx

%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%% Colors and graphics %%%
%%%%%%%%%%%%%%%%%%%%%%%%%%%
\usepackage{xxcolor} % xxcolor is an extension for xcolor which is an extension
                     % for color. xxcolor is shipped with pgf.

% The Tableau 20 color palette is a nice list of colors for data visualization.
\definecolor{tblue}{RGB}{31,119,180}    \definecolor{tlightblue}{RGB}{174,199,232}
\definecolor{torange}{RGB}{255,127,14}  \definecolor{tlightorange}{RGB}{255,187,120}
\definecolor{tgreen}{RGB}{44,160,44}    \definecolor{tlightgreen}{RGB}{152,223,138}
\definecolor{tred}{RGB}{214,39,40}      \definecolor{tlightred}{RGB}{255,152,150}
\definecolor{tpurple}{RGB}{148,103,189} \definecolor{tlightpurple}{RGB}{197,176,213}
\definecolor{tbrown}{RGB}{140,86,75}    \definecolor{tlightbrown}{RGB}{196,156,148}
\definecolor{tpink}{RGB}{227,119,194}   \definecolor{tlightpink}{RGB}{247,182,210}
\definecolor{tgray}{RGB}{127,127,127}   \definecolor{tlightgray}{RGB}{199,199,199}
\definecolor{tolive}{RGB}{188,189,34}   \definecolor{tlightolive}{RGB}{219,219,141}
\definecolor{tteal}{RGB}{23,190,207}    \definecolor{tlightteal}{RGB}{158,218,229}
% all (xx)color

% Use tikz for drawing and pgfplots for plotting.
\usepackage{tikz,pgfplots}

% Freeze the pgfplots features
\pgfplotsset{compat=1.15} % pgfplots

% Save the tikz and pgfplots figures as external files for faster compilation.
\usetikzlibrary{external} % tikz
\tikzexternalize[prefix=tikz/] % tikz

% Create a cyclelist of the first ten Tableau 20 colors for pgfplots.
\pgfplotscreateplotcyclelist{tcolor}{%
  {solid, color=tblue}, {solid, color=torange}, {solid, color=tgreen},
  {solid, color=tred}, {solid, color=tpurple}, {solid, color=tbrown},
  {solid, color=tpink}, {solid, color=tgray}, {solid, color=tolive},
  {solid, color=tteal}%
} % pgfplots

% And set that cyclelist as a global standard
\pgfplotsset{cycle list name={tcolor}} % pgfplots

% Transfer siunitx setting to pgf for identical number representation in text
% and figures. See section 7.10 'Transferring settings to pgf' of the siunitx
% manual.
\SendSettingsToPgf % siunitx


%%%%%%%%%%%%%%%%%%%%
%%% TÅGEKAMMERET %%%
%%%%%%%%%%%%%%%%%%%%

%\usepackage{tket}
%\TKsetup{C = {\kern-0.1ex\scalebox{0.94}{\raisebox{-0.08ex}{\ensuremath{ℂ}}}}} % med Arno Pro og TeX Gyre Pagella math
%\newfontface\bbface[Scale=0.87]{TeX Gyre Termes Math} \TKsetup{C = {\bbface\kern-0.1exℂ}} % fontspec,tket
%\TKsetup{dollar={\$}} % tket
% lining KA$$


%%%%%%%%%%%%%%%%%
%%% Titlepage %%%
%%%%%%%%%%%%%%%%%
% TODO
\setlength{\droptitle}{-3em}
\pretitle{\LARGE\par} \posttitle{\vskip 0.5em}
\newcommand{\supertitle}[1]{\gdef\suP{#1}}
\renewcommand{\maketitlehooka}{\ifx\suP\undefined\begin{center}\else\begin{center} {\scshape\suP}\fi}
    \newcommand{\subtitle}[1]{\gdef\suB{#1}}
    \renewcommand{\maketitlehookb}{\ifx\suB\undefined \end{center}\else\par {\large\scshape\suB}\par\end{center}\fi}

%%%%%%%%%%%%%%
%%% Header %%%
%%%%%%%%%%%%%%
% TODO
\newcommand{\stunum}[1]{\gdef\stuN{#1}}
\copypagestyle{articlehead}{plain}
\makeoddhead{articlehead}{\color{gray}\suB}{}{\color{gray}\thedate}
\pagestyle{articlehead}

%%%%%%%%%%%%%%
%%% resten %%%
%%%%%%%%%%%%%%
% TODO

% Include mhchem to typeset chemistry easily.
\usepackage[version=4]{mhchem}


\usepackage{pdfpages,xspace}
% \usepackage{minted} % requires minted > 2.0-alpha2
% \usemintedstyle{tango}

\usepackage{ragged2e}
\usepackage{csquotes}

% TODO
\DeclarePairedDelimiterX\Set[2]{\lbrace}{\rbrace}{#1\,\delimsize\vert\, #2}

%%%%%%%%%%%%
%%% Help %%%
%%%%%%%%%%%%
% TODO
\usepackage{lipsum}
\usepackage[margin,draft]{fixme}
\fxusetheme{color} % fixme

%%%%%%%%%%%%%%%%%%%%
%%% Bibliography %%%
%%%%%%%%%%%%%%%%%%%%
\usepackage[
  backend=biber,
  sortlocale=auto,
  sortcites=true,
  hyperref=true,
  maxbibnames=99,
  style=numeric,
  sorting=none,
]{biblatex}
\addbibresource{literatur.bib} % biblatex

%%%%%%%%%%%%%%%%%%
%%% References %%%
%%%%%%%%%%%%%%%%%%

% Use \vref, \Vref or some other macro from varioref for references.

% varioref, hyperref, cleverref and bookmarks need to be loaded in this order.
% See cleverref doc. section 13.
\usepackage{varioref}
\usepackage[unicode=true,
    pdfusetitle,
    pdfkeywords={},
    pdfdisplaydoctitle=true,
    ]{hyperref}
\usepackage{cleveref}


%%%%%%%%%%%%%%%%%%%%%%%%
%%% Table of Content %%%
%%%%%%%%%%%%%%%%%%%%%%%%

% Generate a pdf outline with bookmarks.
\usepackage{bookmark}
\usepackage[hyphenation, lastparline, nosingleletter,homeoarchy,rivers,draft]{impnattypo}

\maxtocdepth{section} % memoir


%%%%%%%%%%%%%%%%%%%%%%
%%% Custom changes %%%
%%%%%%%%%%%%%%%%%%%%%%

% Add you custom changes here




\begin{document}
%%%%%%%%%%%%%%%%%%%
%%% Frontmatter %%%
%%%%%%%%%%%%%%%%%%%
\frontmatter
%\thispagestyle{empty}
\supertitle{A super title}
\title{A title}
\subtitle{A sub title}
\author{An-Author}
\stunum{12345678}
\date{\today}
\maketitle

\clearpage
%\include{acknowledgements}
%\include{abstract}
%\include{abbreviations}

\tableofcontents

%%%%%%%%%%%%%%%%%%
%%% Mainmatter %%%
%%%%%%%%%%%%%%%%%%
\mainmatter
\include{test-typography}
%\include{introduction}
%\include{materialmethods}
%\include{resultsdiscussion}
%\include{conclusion}

\raggedright
\defbibheading{chapter}[\refname]{\chapter*{#1}\addcontentsline{toc}{chapter}{\refname}}
\printbibliography[heading=chapter]

\clearpage \appendix
%\include{appendix/consetrationcalculations}
%\include{appendix/additionalmeasurements}

%%%%%%%%%%%%%%%%%%
%%% Backmatter %%%
%%%%%%%%%%%%%%%%%%
\clearpage
\backmatter
% \listoftables
% \listoffigures
% \listoflistings

\end{document}

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