PhD-Kopecna-Renata/Formatting/preambule.tex

\documentclass[12pt,titlepage,twoside]{article}
\usepackage[table]{xcolor} %For colored tables
\usepackage{graphicx}
\usepackage{lscape}
\usepackage{epstopdf}
\usepackage{wrapfig}
\usepackage{amsmath, amsthm, amssymb} 
\usepackage{amsfonts}
\usepackage[cp1250]{inputenc}
\usepackage[ngerman, english]{babel}
\selectlanguage{english}
\usepackage{nomencl}
\makenomenclature
\usepackage{setspace}
\usepackage[figurename=Fig.,tablename=Tab.]{caption}
\usepackage{subfig}
\usepackage[toc,page]{appendix}
\usepackage{fancyhdr}
\usepackage{listings}
\usepackage{pdfpages}
\usepackage{feynmp} %Feynman diagrams
\usepackage{xfrac} %Pretty fractions
\usepackage{multirow} %Fancy tables
\usepackage{lmodern} %Fixes problems with sizes
\usepackage{threeparttable} %Footnotes in tables
\usepackage{multicol} 
\usepackage{enumitem}%for indents 
\usepackage{upgreek} %For bold greek stuff
\usepackage[absolute,overlay]{textpos} %textbox
\usepackage[a4paper,top = 2cm, bottom = 2cm, outer=3 cm, inner = 3cm]{geometry}
\usepackage{hyperref} %Hyperref should be always last. Unless it is cleverref
\usepackage{cleveref}

%\usepackage{subfigure}
\graphicspath{{./figures/}}
\pdfminorversion=6 %Set minimal pdf version

%Make sure that there are now widow/orphan lines, or at least make it improbable
%\widowpenalty10000
%\clubpenalty10000

%=====================================================
%
%               Set list of abbreviations
%
%=====================================================

%\usepackage{stdpage}
\let\abbrev\nomenclature
\renewcommand{\nomname}{List of Abbreviations}
\setlength{\nomlabelwidth}{0.48\textwidth}
\renewcommand{\nomlabel}[1]{#1 \dotfill}
\setlength{\nomitemsep}{.1cm} \makenomenclature
\newcommand{\listofabbrev}{
    \setlength{\nomitemsep}{-\parsep}
    \printnomenclature
    \newpage
}

%=====================================================
%
%               My margin settings
%
%=====================================================

%\hoffset -1.54cm
%\voffset -0.04pt
%\evensidemargin 3 cm
%\oddsidemargin 2 cm
\topmargin -.5cm
\textheight 217mm
%\textwidth 165mm


%=====================================================
%
%               My bibliography settings
%
%=====================================================

\usepackage{mciteplus}
\bibliographystyle{References/lhcb}
\mciteErrorOnUnknownfalse
%=====================================================
%
%               My paragraph settings
%
%=====================================================
% Instead of subsubsubparagraph; not including in the table of content, needed to press enter, otherwise it won't generate the number!

\usepackage{titlesec}
\setcounter{secnumdepth}{4}
\titleformat{\paragraph}
{\normalfont\small\bfseries}{\theparagraph}{1em}{}
\titlespacing*{\paragraph}
{0pt}{1.0ex plus 0ex minus -.5ex}{0.0ex plus 0.0ex}
%{\normalfont\normalsize\bfseries\itshape}
%***********************************

%=====================================================
%
%                     TO DO setings
%
%=====================================================

\usepackage[colorinlistoftodos,prependcaption,textsize=small]{todonotes}
%Imported from David's thesis, possibly change
\newcommand{\todored}[2][1=]{\todo[linecolor=red,backgroundcolor=red!25,bordercolor=red,#1]{#2}}
\newcommand{\todoblue}[2][1=]{\todo[linecolor=blue,backgroundcolor=blue!25,bordercolor=blue,#1]{#2}}
\newcommand{\todoFill}[2][1=]{\todo[linecolor=olive,backgroundcolor=olive!25,bordercolor=olive,#1]{#2}}
\newcommand{\todopurple}[2][1=]{\todo[linecolor=Plum,backgroundcolor=Plum!25,bordercolor=Plum,#1]{#2}}
\newcommand{\todoAddCitation}[1]{\todo[linecolor=brightturquoise, backgroundcolor=brightturquoise!25, bordercolor=brightturquoise, inline, inlinewidth=4cm, noinlinepar]{#1}}
\newcommand{\thiswillnotshow}[2][1=]{\todo[disable,#1]{#2}}


%=====================================================
%
%               My caption settings
%
%=====================================================
\captionsetup[table]{font={stretch=1.0, small},indention=0.0em,labelfont=bf}     %% change 1.2 as you like
\captionsetup[figure]{font={stretch=1.0, small},indention=0.0em,labelfont=bf} 
%\addto\captionsenglish{\renewcommand{\figurename}{Fig.}} 
%\addto\captions{\renewcommand{\tablename}{Tab.}} 
%\renewcommand{\bibname}{\section*{References}}
%\setlength{\belowcaptionskip}{0pt} %Sets only the skip below caption
\setlength\intextsep{20pt} %Sets spacing between any floats, so both figs and tables


%=====================================================
%
%               My referencing
%
%=====================================================

\usepackage{chngcntr} %Numbering of figures etc based on the section
\counterwithin{figure}{section}
\counterwithin{table}{section}
\counterwithin{equation}{section}
\newcommand\refFig[1]{Fig.\,\ref{fig:#1}}
\newcommand\refTab[1]{Tab.\,\ref{tab:#1}}
\newcommand\refSec[1]{Sec.\,\ref{sec:#1}}
\newcommand\refEq[1]{Eq.\,\ref{eq:#1}}
\newcommand\refApp[1]{App.\,\ref{app:#1}}

\hypersetup{pageanchor=false}
%=====================================================
%
%               Import color definitions
%
%=====================================================
\input{Formatting/colors}
\input{Formatting/FancyColors}

%This is dumb but it works so
\colorlet{oneSigma}{BriGreen!75!white}
\colorlet{twoSigmas}{LigOlive!70!white}
\colorlet{threeSigmas}{LigYellow!70!white}
\colorlet{moreSigmas}{BriRed!70!white}
\def\cellOneSigma {\cellcolor{oneSigma}}
\def\cellTwoSigmas {\cellcolor{twoSigmas}}
\def\cellThreeSigmas {\cellcolor{threeSigmas}}
\def\cellMoreSigmas {\cellcolor{moreSigmas}}

%=====================================================
%s
%          My frequently used symbols settings
%
%=====================================================
\input{Formatting/lhcb-symbols-def}
\input{Formatting/my_symbols}

%=====================================================
%
%		          Table settings
%
%=====================================================
\usepackage{array}
\newcolumntype{x}[1]{>{\centering\arraybackslash\hspace{0pt}}p{#1}}

%=====================================================
%
%		          Hyphenation
%
%=====================================================
\hyphenation{non-factor-izable}