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+%% ============================================================================
+ % !Mode:: "TeX:UK:UTF-8"
+ % !TEX program = XeLaTeX
+ % -----------------------------------------------------------------------------
+
+% Private XeLaTeX style for scientific texts
+% copyright 2019 by Dr Engelbert Buxbaum <engelbert_buxbaum@web.de>
+% This file may be shared under Gnu copyleft or the LaTeX the Project Public License.
+
+\ProvidesPackage{manual}[2019/09/18 v1.01 standard packages for scientific texts]
+\NeedsTeXFormat{LaTeX2e}
+
+\RequirePackage{kpfonts-otf}
+\usepackage{polyglossia}%foreign language support
+
+\RequirePackage{acronym}%keep track of acronyms
+%\RequirePackage{amssymb}%math symbols, not required with kpfonts-otf
+\RequirePackage[backend=biber,bibencoding=UTF8,sorting=none,dateera=christian,style=numeric-comp]{biblatex}%bibliography
+\RequirePackage{biochemistry-colors}%defines standard-conform colours for biochem entities
+\RequirePackage{booktabs}%proper rules in tables
+\RequirePackage{chemarrow}%arrows in chemical reactions
+\RequirePackage{colortbl}%coloured background for tables
+\RequirePackage{csquotes}%context-sensitive quotes, required for biblatex
+\RequirePackage{css-colors}% defines web-safe colours
+\RequirePackage{doi}%give DOIs as hyperlinks in bibliography
+\RequirePackage{floatrow}%control float placement
+\RequirePackage{fontspec}% font selecting commands
+\RequirePackage{graphicx}%inclusion of images
+\RequirePackage{hypcap} % anchors of captions
+\RequirePackage[british]{isodate}%use international format for date and time
+\RequirePackage{isotope}%correct typesetting of isotopes
+\RequirePackage{letltxmacro}% change LaTeX commands with optional arguments
+\RequirePackage{listings}%typeset computer code
+\RequirePackage{lscape}%typeset wide material in lanscape mode
+\RequirePackage{makeidx}%index generation
+\RequirePackage{marvosym}%various symbols
+\RequirePackage{mathbbol}%blackboard bold symbols (double line left)
+\RequirePackage{mathtools}%extension of amsmath
+\RequirePackage{media9}%include video or sound, currently doesn't work because flash-based
+\RequirePackage{microtype}%micro-typesetting
+\RequirePackage{multicol}%switching between one- and multicolumn
+\RequirePackage{placeins}%allows FloatBarriers to be set
+\RequirePackage{rotating}%rotate objects} sidewaystables/figures
+\RequirePackage{siunitx}%correct typesetting of units
+\RequirePackage[labelformat=empty,labelsep=none]{subfig}% several entries in one float
+\RequirePackage{supertabular}%tables over several pages
+\RequirePackage[breakable,skins,listings]{tcolorbox}%put text into coloured boxes
+\RequirePackage[euler]{textgreek}%upright greek characters
+\RequirePackage{ulem}%underlining and striking out
+\RequirePackage{url}%typeset internet links (preloaded in beamer)
+\RequirePackage{wasysym}
+\RequirePackage{xcolor}%handle colours
+
+%\RequirePackage{pdfcomment}% use pdf annotations
+
+\RequirePackage{hyperref}%hyperrefs in PDF, must be last package called, preloaded in beamer
+\hypersetup{final=true,
+ pdfauthor={Dr. Engelbert Buxbaum},
+ colorlinks=true,
+ citecolor=Blue,%bibliography, dark blue
+ linkcolor=Blue,%internal links, dark blue
+ urlcolor=DodgerBlue,%internet, middle blue
+ allbordercolors=White}
+
+\newcommand{\EURO}{{\footnotesize{\EUR}}} % because \EUR is way too big
+
+\DeclareSIUnit\angstrom{\text{Å}}
+\sisetup{% set-up for siunitx and XeTeX
+ print-unity-mantissa = false,
+ separate-uncertainty,
+ negative-color = red
+ }
+
+% special chars in listings environment under XeTeX
+\lstset{literate=%
+ {Ö}{{\"O}}1
+ {Ä}{{\"A}}1
+ {Ü}{{\"U}}1
+ {ß}{{\ss}}1
+ {ü}{{\"u}}1
+ {ä}{{\"a}}1
+ {ö}{{\"o}}1
+ {~}{{\textasciitilde}}1
+ }
+
+\let\wasymale\male % start to undo overwriting of wasy by kpfonts_otf
+\let\wasyfemale\female % complete after \begin{document}
+% after \begin{document} add:
+%\let\male\wasymale
+%\let\female\wasyfemale
+
+\setmainlanguage{en-GB}
+\setotherlanguage{arabic}
+\setotherlanguage{russian}
+\setotherlanguage{greek}
+
+\newfontfamily\arabicfont[Script=Arabic]{FreeSerif}
+\newfontfamily\russianfont{FreeSerif}
+\newfontfamily\greekfont{FreeSerif}
+
+
+\newcommand{\Name}[1]{\textsc{#1}} % proper names
+\newcommand{\Foreign}[1]{\textit{#1}} % words from foreign languages
+\newcommand{\Species}[1]{\textit{#1}} % biological species
+
+% Fonts for math-entities
+\newcommand{\skalar}[1]{\ensuremath{#1}}
+\newcommand{\Vector}[1]{\ensuremath{\vec{\mathfrak{#1}}}}
+\newcommand{\AbsVec}[1]{\ensuremath{\mathfrak{#1}}}
+\newcommand{\arr}[1]{\ensuremath{\mathcal{#1}}}
+\newcommand{\tensor}[1]{\textsf{\bfseries{#1}}}
+\newcommand{\set}[1]{\ensuremath{\mathbb{#1}}}
+
+% move super- and subscripts to make them more readable
+\makeatletter
+ \frozen@everymath={\check@mathfonts
+ \fontdimen16 \textfont2=\fontdimen17 \textfont2
+ \the\everymath}
+ \frozen@everydisplay={\check@mathfonts
+ \fontdimen16 \textfont2=\fontdimen17 \textfont2
+ \the\everymath}
+\makeatother
+
+%% "closed" sqrt sign, https://tex.stackexchange.com/questions/29834/closed-square-root-symbol
+
+\LetLtxMacro{\OldSqrt}{\sqrt}
+\newcommand{\ClosedSqrt}[1][\hphantom{3}]{\def\DHLindex{#1}\mathpalette\DHLhksqrt}
+\makeatletter
+ \newcommand*\bold@name{bold}
+ \def\DHLhksqrt#1#2{%
+ \setbox0=\hbox{$#1\OldSqrt{#2\,}$}\dimen0=\ht0\relax%
+ \advance\dimen0-0.2\ht0\relax% size of the added box is still 0.2 times ht0
+ \setbox2=\hbox{\vrule height\ht0 depth -\dimen0}%
+ {\hbox{$#1\expandafter\OldSqrt\expandafter[\DHLindex]{#2\,}$}
+ \lower\ifx\math@version\bold@name0.6pt\else0.4pt\fi\box2}
+ }
+ % root index positioning and added space at the end, mostly noticeable in inline math mode
+ \renewcommand*{\sqrt}[2][\ ]{\ClosedSqrt[\leftroot{-2}\uproot{1}#1]{#2}\kern0.1em}
+\makeatother
+
+\DeclareMathOperator{\logit}{logit}
+\DeclareMathOperator{\sgn}{sgn}
+\DeclareMathOperator{\diag}{diag}
+\DeclareMathOperator{\var}{var}
+\DeclareMathOperator{\cov}{Cov}
+\DeclareMathOperator{\trace}{tr}
+\DeclareMathOperator{\abs}{abs}
+\DeclareMathOperator{\rk}{rk}
+\DeclareMathOperator{\svd}{svd}
+\DeclareMathOperator{\median}{median}
+\DeclareMathOperator{\dist}{dist}
+\DeclareMathOperator{\ld}{ld}
+\DeclareMathOperator{\modulo}{modulo}
+
+% physicochemical entities
+\newcommand{\ph}{\Foreign{p}H}
+\newcommand{\poh}{\Foreign{p}OH}
+\newcommand{\pka}{\Foreign{p}K\textsubscript{a}}
+\newcommand{\pkb}{\Foreign{p}K\textsubscript{b}}
+\newcommand{\pkw}{\Foreign{p}K\textsubscript{w}}
+\newcommand{\pkr}{\Foreign{p}K\textsubscript{r}}
+\newcommand{\pI}{\Foreign{p}I}
+
+% Chemical formulas in text
+\makeatletter
+ \DeclareRobustCommand{\single}{\raisebox{0.25ex}{$\m@th-$}}
+ \DeclareRobustCommand{\dotted}{\raisebox{0.6ex}{$\m@th.. $}}
+ \DeclareRobustCommand{\Lewis}{\raisebox{0.6ex}{$\m@th.$}}
+ \DeclareRobustCommand{\double}{\raisebox{0.25ex}{$\m@th=$}}
+ \DeclareRobustCommand{\triple}{\raisebox{0.25ex}{$\m@th\equiv$}}
+ \DeclareRobustCommand*{\Doth}{\LARGE{.}}
+ \DeclareRobustCommand{\radic}{\hspace{-0.1em}{\raisebox{1.4ex}{\Doth}}}
+ \DeclareRobustCommand{\chemical}[1]{%
+ {\(\m@th
+ \edef\resetfontdimens{\noexpand\)%
+ \fontdimen16 \textfont2=\the\fontdimen16 \textfont2
+ \fontdimen17 \textfont2=\the\fontdimen17 \textfont2 \relax}%
+ \fontdimen16 \textfont2=2.7pt \fontdimen17 \textfont2=2.7pt
+ \mathsf{#1}%
+ \resetfontdimens}}
+\makeatother
+\renewcommand{\isotopestyle}{\mathsf}% if package isotope is used
+
+% use academic colours: philosophers blue, physicians green, lawyers red, theologists black
+\newtcolorbox{advanced}[1]{colback=blue!5!white,colframe=blue!75!black,fonttitle=\bfseries,title=#1,breakable}
+\newtcolorbox{medical}{colback=green!5!white,colframe=green!75!black,breakable}
+\newtcolorbox{medtitle}[1]{colback=green!5!white,colframe=green!75!black,fonttitle=\bfseries,title=#1,breakable}
+\newtcolorbox{rules}{colback=red!5!white,colframe=red!75!black,breakable}
+
+\lstloadlanguages{[Borland6]Pascal,R,[x86masm]assembler}
+\lstset{backgroundcolor=\color{Cornsilk},
+ language=[Borland6]Pascal,
+ alsolanguage=[x86masm]assembler,
+ alsolanguage=R,
+ extendedchars=false, % chars 128-255 not printed
+ breaklines=true, % long lines broken
+ breakatwhitespace=true, % ... but only at whitespace
+ numbers=left, numberstyle=\tiny, stepnumber=1, numbersep=0pt,
+ basicstyle=\ttfamily\small\color{black}, % print listing small monospaced
+ keywordstyle=\bfseries,
+ identifierstyle=\color{DarkRed}, %
+ morecomment=[l]{//}, % allow inline comments from Object Pascal
+ commentstyle=\color{Blue},
+ stringstyle=\color{DodgerBlue},
+ showstringspaces=false % no special string spaces
+ }
+\defaultfontfeatures{Scale=MatchLowercase}
+\setmonofont{Fantasque Sans Mono} % 0O, 1Il -~ clearly distinguished, Jany Belluz <jany.belluz@hotmail.fr>
+
+% definitions for biblatex http://www.khirevich.com/latex/biblatex/, https://3d.bk.tudelft.nl/hledoux/blog/fiddling-biblatex/,
+% moewe94@live.de on comp.text.tex, https://tex.stackexchange.com/questions/211199/changing-the-position-of-the-editor-with-biblatex-inbook
+
+\DeclareNameAlias{sortname}{last-first}
+
+\renewcommand{\multinamedelim}{\addcomma\space}
+\renewcommand{\finalnamedelim}{\addspace\&\space}
+
+\DefineBibliographyStrings{british}{%
+ andothers = {\textit{et\addabbrvspace al\adddot}},
+ editor = {(ed\adddot):},
+ editors = {(eds\adddot):},
+ byeditor = {(ed\adddot):},
+}
+
+\DefineBibliographyStrings{german}{%
+ andothers = {\textit{et\addabbrvspace al\adddot}},
+ editor = {(Hrsg.):},
+ editors = {(Hrsg.):},
+ byeditor = {(Hrsg.):},
+}
+
+%(ed.) after name list:
+
+\renewbibmacro*{byeditor+others}{%
+ \ifnameundef{editor}
+ {}
+ {\printnames[byeditor][1-1]{editor}%
+ \setunit{\addspace}%
+ \usebibmacro{byeditor+othersstrg}%
+ \clearname{editor}%
+ \newunit}%
+ \usebibmacro{byeditorx}%
+ \usebibmacro{bytranslator+others}}
+
+\renewcommand{\emph}[1]{\textnormal{\textit{#1}}}
+\renewcommand*{\mkbibnamefamily}[1]{\textnormal{\textsc{#1}}} %
+\renewcommand{\newunitpunct}{\addspace\midsentence}
+\DeclareDelimFormat[bib]{nametitledelim}{\addcolon\space} %Doppelpunkt nach Namen, kein Punkt
+\DeclareFieldFormat[article,inbook,incollection,inproceedings,patent,thesis,unpublished]{title}{\textnormal{#1}\addcomma} % keine Anführungszeichen um Titel und kursiv
+\DeclareFieldFormat{journaltitle}{\mkbibemph{#1}} % italic journal title, no comma
+\DeclareFieldFormat[inbook,thesis]{title}{\mkbibemph{#1\addcomma}} % italic title with comma
+\DeclareFieldFormat[article]{title}{#1\addcomma} % title of journal article is printed as normal text
+\DeclareFieldFormat{titlecase}{#1} % keine übermäßig vielen Großbuchstaben im Titel
+\DeclareFieldFormat[article]{volume}{\mkbibbold{#1}} % Volume in bold
+\DeclareFieldFormat[article]{number}{#1} % issue textnormal
+\DeclareFieldFormat{pages}{#1} % Kein Präfix der Seitenzahlen
+
+\renewbibmacro*{volume+number+eid}{%
+ \printfield{volume}%
+ \setunit{\addcolon}%
+ \printfield{number}%
+ }
+
+\DeclareSourcemap{
+ \maps[datatype=bibtex]{
+ \map{
+ \step[fieldset=pagetotal, null]
+ }
+ }
+ }
+\renewbibmacro{in:}{%
+ \ifentrytype{article}{}{\printtext{In\intitlepunct}}
+ }
+
+% ------ setup for document
+
+\floatsetup[table]{style=plaintop}
+\setlength{\rotFPtop}{10pt plus 1fil} % quick fix for sidewaysfigures appearing to high, so that caption is cropped
+
+\frenchspacing
+
+\hyphenation{ATP-ase GTP-ase dia-be-tes phy-sio-logi-cal bio-lo-gy
+pro-teo-ly-sis trans-cy-to-sis hy-dro-ly-sis telo-mere hy-dro-lysed
+im-mu-no-glo-bu-lin Cali-for-nia mini-mum mini-ma phos-pha-ti-dyl pyro-phos-phate
+phos-pho-pro-tein}
+
+\makeatletter % \provideenvironment in analogy to \providecommand, https://tex.stackexchange.com/questions/20687/does-newenvironment-have-a-provideenvironment-cousin-as-newcommand-has-prov
+\def\provideenvironment{\@star@or@long\provide@environment}
+\def\provide@environment#1{%
+ \@ifundefined{#1}%
+ {\def\reserved@a{\newenvironment{#1}}}%
+ {\def\reserved@a{\renewenvironment{dummy@environ}}}%
+ \reserved@a
+}
+\def\dummy@environ{}
+\makeatother
+
+% Abstracts in book + scrbook
+\providecommand\abstractname{Abstract}% doesn't change pre-existing command
+\provideenvironment{abstract}[1]{%
+ \begin{center}\normalfont\bfseries\abstractname\end{center}
+ \begin{quotation} #1 \end{quotation}
+ }{%
+ \vspace{1cm}
+ }