Add real files (no links)

Signed-off-by: Riccardo Finotello <riccardo.finotello@gmail.com>

.github/workflows/pdflatex.yml

@@ -1,4 +1,4 @@
-name: Compile LaTeX Thesis
+name: Build PDFLaTeX
 on: [push]
 jobs:
   build_latex:
@@ -10,3 +10,14 @@ jobs:
         uses: xu-cheng/latex-action@v2
         with:
           root_file: thesis.tex
+      - name: Upload PDF file
+        uses: actions/upload-artifact@v2
+        with:
+            name: thesis
+            path: thesis.pdf
+      - name: Download PDF file
+        uses: actions/download-artifact@v2
+        with:
+            name: thesis
+
+

.gitmodules

@@ -1,3 +0,0 @@
-[submodule "latex-commons"]
-	path = latex-commons
-	url = git@github.com:thesfinox/latex-commons.git

README.md

@@ -1,5 +1,7 @@
 # Ph.D. Thesis
 
+![Build PDFLaTeX](https://github.com/thesfinox/phd-thesis/workflows/Build%20PDFLaTeX/badge.svg)
+
 This project contains the LaTeX code of my Ph.D. defence thesis.
 
 The LaTeX file compiles using PDFLaTeX as backend.

debug.sty

@@ -1 +0,0 @@
-latex-commons/packages/debug.sty

debug.sty

@@ -0,0 +1,21 @@
+\NeedsTeXFormat{LaTeX2e}
+\ProvidesPackage{debug}[2020/06/10 Debug package]
+
+\RequirePackage{xparse} %----------- improved \newcommand
+\RequirePackage{marginnote} %------- use margin note in floats
+\RequirePackage[usenames,
+                dvipsnames,
+                svgnames,
+                table]{xcolor} %---- provide colours
+
+\ProcessOptions\relax
+
+\newcounter{draftcommentcnt}
+\NewDocumentCommand{\draftcomment}{s O{red} m}{%
+        \def\margnote{\IfBooleanTF{#1}{\marginnote}{\marginpar}}%
+        \stepcounter{draftcommentcnt}%
+        \textcolor{#2}{#3}%
+        \margnote{\textcolor{#2}{$\Leftarrow$ \arabic{draftcommentcnt}}}%
+}
+
+% vim: ft=tex

sciencestuff.sty

@@ -1 +0,0 @@
-latex-commons/packages/sciencestuff.sty

sciencestuff.sty

@@ -0,0 +1,249 @@
+\NeedsTeXFormat{LaTeX2e}
+\ProvidesPackage{sciencestuff}[2020/04/08 Science related stuff]
+
+\RequirePackage{amsmath} %--------------------- math mode
+\RequirePackage{amssymb} %--------------------- math symbols
+\RequirePackage{amsfonts} %-------------------- math fonts
+\RequirePackage{mathtools} %------------------- mathematical tools
+\RequirePackage{mathrsfs} %-------------------- better cal
+\RequirePackage{slashed} %--------------------- slashed characters
+\RequirePackage{tensor} %---------------------- write tensors
+\RequirePackage{listings} %-------------------- code sections
+\RequirePackage[amsmath,
+                hyperref,
+                framed]{ntheorem} %------------ improved theorem envoronment
+\RequirePackage{dsfont} %---------------------- improved math set symbols
+\RequirePackage{upgreek} %--------------------- better Greek alphabet
+\RequirePackage{physics} %--------------------- full physics-related commands
+\RequirePackage{siunitx} %--------------------- SI units formatting
+\RequirePackage{graphicx} %-------------------- images and figures
+\RequirePackage{ifthen} %---------------------- conditionals
+\RequirePackage[sort&compress,
+                english]{cleveref} %----------- nicer citations and references
+\RequirePackage[compat=1.1.0]{tikz-feynman} %-- Feynman diagrams
+
+\ProcessOptions\relax
+
+%---- prepare packages
+\tikzfeynmanset{/tikzfeynman/warn luatex=false}
+
+\lstset{%
+    language=Python,
+    tabsize=4,
+    morecomment=[l]{\#},
+    basicstyle=\ttfamily\small,
+    showstringspaces=false,
+    captionpos=b,
+    breaklines=true
+}
+\lstset{escapeinside={(*@}{@*)}}
+\lstdefinestyle{boxed}{frame=single, numbers=left}
+
+%---- numbering (number equations, figures and tables within section)
+
+\numberwithin{equation}{section}
+\numberwithin{figure}{section}
+\numberwithin{table}{section}
+
+%---- remap greek letters
+
+\renewcommand{\alpha}{\upalpha}
+\renewcommand{\beta}{\upbeta}
+\renewcommand{\gamma}{\upgamma}
+\renewcommand{\delta}{\updelta}
+\renewcommand{\epsilon}{\upepsilon}
+\renewcommand{\zeta}{\upzeta}
+\renewcommand{\eta}{\upeta}
+\renewcommand{\theta}{\uptheta}
+\renewcommand{\iota}{\upiota}
+\renewcommand{\kappa}{\upkappa}
+\renewcommand{\lambda}{\uplambda}
+\renewcommand{\mu}{\upmu}
+\renewcommand{\nu}{\upnu}
+\renewcommand{\xi}{\upxi}
+\renewcommand{\pi}{\uppi}
+\renewcommand{\rho}{\uprho}
+\renewcommand{\sigma}{\upsigma}
+\renewcommand{\tau}{\uptau}
+\renewcommand{\upsilon}{\upupsilon}
+\renewcommand{\phi}{\upphi}
+\renewcommand{\chi}{\upchi}
+\renewcommand{\psi}{\uppsi}
+\renewcommand{\omega}{\upomega}
+\renewcommand{\varepsilon}{\upvarepsilon}
+\renewcommand{\vartheta}{\upvartheta}
+\renewcommand{\varpi}{\upvarpi}
+\renewcommand{\varphi}{\upvarphi}
+\renewcommand{\Gamma}{\Upgamma}
+\renewcommand{\Delta}{\Updelta}
+\renewcommand{\Theta}{\Uptheta}
+\renewcommand{\Lambda}{\Uplambda}
+\renewcommand{\Xi}{\Upxi}
+\renewcommand{\Pi}{\Uppi}
+\renewcommand{\Sigma}{\Upsigma}
+\renewcommand{\Upsilon}{\Upupsilon}
+\renewcommand{\Phi}{\Upphi}
+\renewcommand{\Psi}{\Uppsi}
+\renewcommand{\Omega}{\Upomega}
+
+%---- numerical sets
+
+\providecommand{\1}{\ensuremath{\mathds{1}}}
+\providecommand{\N}{\ensuremath{\mathds{N}}}
+\providecommand{\Q}{\ensuremath{\mathds{Q}}}
+\providecommand{\R}{\ensuremath{\mathds{R}}}
+\providecommand{\Z}{\ensuremath{\mathds{Z}}}
+\providecommand{\C}{\ensuremath{\mathds{C}}}
+
+%---- calligraphic letters
+
+\providecommand{\cA}{\ensuremath{\mathcal{A}}}
+\providecommand{\cB}{\ensuremath{\mathcal{B}}}
+\providecommand{\cC}{\ensuremath{\mathcal{C}}}
+\providecommand{\cD}{\ensuremath{\mathcal{D}}}
+\providecommand{\cE}{\ensuremath{\mathcal{E}}}
+\providecommand{\cF}{\ensuremath{\mathcal{F}}}
+\providecommand{\cG}{\ensuremath{\mathcal{G}}}
+\providecommand{\cH}{\ensuremath{\mathcal{H}}}
+\providecommand{\cI}{\ensuremath{\mathcal{I}}}
+\providecommand{\cJ}{\ensuremath{\mathcal{J}}}
+\providecommand{\cK}{\ensuremath{\mathcal{K}}}
+\providecommand{\cL}{\ensuremath{\mathcal{L}}}
+\providecommand{\cM}{\ensuremath{\mathcal{M}}}
+\providecommand{\cN}{\ensuremath{\mathcal{N}}}
+\providecommand{\cO}{\ensuremath{\mathcal{O}}}
+\providecommand{\cP}{\ensuremath{\mathcal{P}}}
+\providecommand{\cQ}{\ensuremath{\mathcal{Q}}}
+\providecommand{\cR}{\ensuremath{\mathcal{R}}}
+\providecommand{\cS}{\ensuremath{\mathcal{S}}}
+\providecommand{\cT}{\ensuremath{\mathcal{T}}}
+\providecommand{\cU}{\ensuremath{\mathcal{U}}}
+\providecommand{\cV}{\ensuremath{\mathcal{V}}}
+\providecommand{\cW}{\ensuremath{\mathcal{W}}}
+\providecommand{\cX}{\ensuremath{\mathcal{X}}}
+\providecommand{\cY}{\ensuremath{\mathcal{Y}}}
+\providecommand{\cZ}{\ensuremath{\mathcal{Z}}}
+
+\providecommand{\ccA}{\ensuremath{\mathscr{A}}}
+\providecommand{\ccB}{\ensuremath{\mathscr{B}}}
+\providecommand{\ccC}{\ensuremath{\mathscr{C}}}
+\providecommand{\ccD}{\ensuremath{\mathscr{D}}}
+\providecommand{\ccE}{\ensuremath{\mathscr{E}}}
+\providecommand{\ccF}{\ensuremath{\mathscr{F}}}
+\providecommand{\ccG}{\ensuremath{\mathscr{G}}}
+\providecommand{\ccH}{\ensuremath{\mathscr{H}}}
+\providecommand{\ccI}{\ensuremath{\mathscr{I}}}
+\providecommand{\ccJ}{\ensuremath{\mathscr{J}}}
+\providecommand{\ccK}{\ensuremath{\mathscr{K}}}
+\providecommand{\ccL}{\ensuremath{\mathscr{L}}}
+\providecommand{\ccM}{\ensuremath{\mathscr{M}}}
+\providecommand{\ccN}{\ensuremath{\mathscr{N}}}
+\providecommand{\ccO}{\ensuremath{\mathscr{O}}}
+\providecommand{\ccP}{\ensuremath{\mathscr{P}}}
+\providecommand{\ccQ}{\ensuremath{\mathscr{Q}}}
+\providecommand{\ccR}{\ensuremath{\mathscr{R}}}
+\providecommand{\ccS}{\ensuremath{\mathscr{S}}}
+\providecommand{\ccT}{\ensuremath{\mathscr{T}}}
+\providecommand{\ccU}{\ensuremath{\mathscr{U}}}
+\providecommand{\ccV}{\ensuremath{\mathscr{V}}}
+\providecommand{\ccW}{\ensuremath{\mathscr{W}}}
+\providecommand{\ccX}{\ensuremath{\mathscr{X}}}
+\providecommand{\ccY}{\ensuremath{\mathscr{Y}}}
+\providecommand{\ccZ}{\ensuremath{\mathscr{Z}}}
+
+%---- roman letters
+
+\providecommand{\rA}{\ensuremath{\mathrm{A}}}
+\providecommand{\rB}{\ensuremath{\mathrm{B}}}
+\providecommand{\rC}{\ensuremath{\mathrm{C}}}
+\providecommand{\rD}{\ensuremath{\mathrm{D}}}
+\providecommand{\rE}{\ensuremath{\mathrm{E}}}
+\providecommand{\rF}{\ensuremath{\mathrm{F}}}
+\providecommand{\rG}{\ensuremath{\mathrm{G}}}
+\providecommand{\rH}{\ensuremath{\mathrm{H}}}
+\providecommand{\rI}{\ensuremath{\mathrm{I}}}
+\providecommand{\rJ}{\ensuremath{\mathrm{J}}}
+\providecommand{\rK}{\ensuremath{\mathrm{K}}}
+\providecommand{\rL}{\ensuremath{\mathrm{L}}}
+\providecommand{\rM}{\ensuremath{\mathrm{M}}}
+\providecommand{\rN}{\ensuremath{\mathrm{N}}}
+\providecommand{\rO}{\ensuremath{\mathrm{O}}}
+\providecommand{\rP}{\ensuremath{\mathrm{P}}}
+\providecommand{\rQ}{\ensuremath{\mathrm{Q}}}
+\providecommand{\rR}{\ensuremath{\mathrm{R}}}
+\providecommand{\rS}{\ensuremath{\mathrm{S}}}
+\providecommand{\rT}{\ensuremath{\mathrm{T}}}
+\providecommand{\rU}{\ensuremath{\mathrm{U}}}
+\providecommand{\rV}{\ensuremath{\mathrm{V}}}
+\providecommand{\rW}{\ensuremath{\mathrm{W}}}
+\providecommand{\rX}{\ensuremath{\mathrm{X}}}
+\providecommand{\rY}{\ensuremath{\mathrm{Y}}}
+\providecommand{\rZ}{\ensuremath{\mathrm{Z}}}
+
+%---- frak letters
+
+\providecommand{\fA}{\ensuremath{\mathfrak{A}}}
+\providecommand{\fB}{\ensuremath{\mathfrak{B}}}
+\providecommand{\fC}{\ensuremath{\mathfrak{C}}}
+\providecommand{\fD}{\ensuremath{\mathfrak{D}}}
+\providecommand{\fE}{\ensuremath{\mathfrak{E}}}
+\providecommand{\fF}{\ensuremath{\mathfrak{F}}}
+\providecommand{\fG}{\ensuremath{\mathfrak{G}}}
+\providecommand{\fH}{\ensuremath{\mathfrak{H}}}
+\providecommand{\fI}{\ensuremath{\mathfrak{I}}}
+\providecommand{\fJ}{\ensuremath{\mathfrak{J}}}
+\providecommand{\fK}{\ensuremath{\mathfrak{K}}}
+\providecommand{\fL}{\ensuremath{\mathfrak{L}}}
+\providecommand{\fM}{\ensuremath{\mathfrak{M}}}
+\providecommand{\fN}{\ensuremath{\mathfrak{N}}}
+\providecommand{\fO}{\ensuremath{\mathfrak{O}}}
+\providecommand{\fP}{\ensuremath{\mathfrak{P}}}
+\providecommand{\fQ}{\ensuremath{\mathfrak{Q}}}
+\providecommand{\fR}{\ensuremath{\mathfrak{R}}}
+\providecommand{\fS}{\ensuremath{\mathfrak{S}}}
+\providecommand{\fT}{\ensuremath{\mathfrak{T}}}
+\providecommand{\fU}{\ensuremath{\mathfrak{U}}}
+\providecommand{\fV}{\ensuremath{\mathfrak{V}}}
+\providecommand{\fW}{\ensuremath{\mathfrak{W}}}
+\providecommand{\fX}{\ensuremath{\mathfrak{X}}}
+\providecommand{\fY}{\ensuremath{\mathfrak{Y}}}
+\providecommand{\fZ}{\ensuremath{\mathfrak{Z}}}
+
+%---- groups
+
+\providecommand{\O}[1]{\ensuremath{\mathrm{O}(#1)}}
+\providecommand{\SO}[1]{\ensuremath{\mathrm{SO}(#1)}}
+\providecommand{\U}[1]{\ensuremath{\mathrm{U}(#1)}}
+\providecommand{\SU}[1]{\ensuremath{\mathrm{SU}(#1)}}
+\providecommand{\SL}[2]{\ensuremath{\mathrm{SL}_{#1}(#2)}}
+\providecommand{\GL}[2]{\ensuremath{\mathrm{GL}_{#1}(#2)}}
+
+%---- inline partial derivatives (use $\ipd{s}$ for $\partial_s$)
+
+\providecommand{\ipd}[1]{\partial_{#1}}
+
+%---- metric (use $\dss[n]{s}$ for $\mathrm{d}s^n$, [n] is optional)
+
+\providecommand{\dss}[2][1]{\ifthenelse{\equal{#1}{1}}
+                                       {\dd{#2}}
+                                       {\dd{#2^{#1}}}
+                           }
+
+%---- integrals, sums and products
+
+\providecommand{\zeroinfint}[1]{\int\limits_0^{+\infty} \dd{#1}}
+\providecommand{\infzeroint}[1]{\int\limits_{-\infty}^0 \dd{#1}}
+\providecommand{\infinfint}[1]{\int\limits_{-\infty}^{+\infty} \dd{#1}}
+\providecommand{\finiteint}[3]{\int\limits_{#2}^{#3} \dd{#1}}
+
+\providecommand{\zeroinfsum}[1]{\sum\limits_{#1 = 0}^{+\infty}}
+\providecommand{\infzerosum}[1]{\sum\limits_{#1 = -\infty}^0}
+\providecommand{\infinfsum}[1]{\sum\limits_{#1 = -\infty}^{+\infty}}
+\providecommand{\finitesum}[3]{\sum\limits_{#1 = #2}^{#3}}
+
+\providecommand{\zeroinfprod}[1]{\prod\limits_{#1 = 0}^{+\infty}}
+\providecommand{\infzeroprod}[1]{\prod\limits_{#1 = -\infty}^0}
+\providecommand{\infinfprod}[1]{\prod\limits_{#1 = -\infty}^{+\infty}}
+\providecommand{\finiteprod}[3]{\prod\limits_{#1 = #2}^{#3}}
+
+% vim: ft=tex

thesis.cls

@@ -1 +0,0 @@
-latex-commons/classes/thesis.cls

thesis.cls

@@ -0,0 +1,246 @@
+\NeedsTeXFormat{LaTeX2e}
+\ProvidesClass{thesis}[2020/06/10 Book style thesis]
+\LoadClass{article}
+
+%---- packages
+
+\RequirePackage{textcomp} %--------------------- companion fonts
+\RequirePackage[utf8]{inputenc} %--------------- support for UTF-8 characters
+\RequirePackage[T1]{fontenc} %------------------ main fonts for pdfLaTeX
+\RequirePackage{lmodern} %---------------------- better fonts
+\RequirePackage{textcomp} %--------------------- companion fonts
+\RequirePackage{geometry} %--------------------- manipulate page geometry
+\RequirePackage{graphicx} %--------------------- pictures and figures
+\RequirePackage{subcaption} %------------------- better captioning and subfigures
+\RequirePackage{caption} %---------------------- better captions
+\RequirePackage{enumitem} %--------------------- better item in enumerations
+\RequirePackage{float} %------------------------ manage floating objects
+\RequirePackage{xspace} %----------------------- insert correct space
+\RequirePackage{xparse} %----------------------- improved \newcommand
+\RequirePackage[multiple]{footmisc} %----------- better footer
+\RequirePackage{marginnote} %------------------- use margin note in floats
+\RequirePackage{booktabs} %--------------------- nice tables
+\RequirePackage{makecell} %--------------------- custom cells in tabular
+\RequirePackage{multicol} %--------------------- multi-column environment
+\RequirePackage{multirow} %--------------------- multi-row environment
+\RequirePackage{framed} %----------------------- better frames
+\RequirePackage{mdframed} %--------------------- better frames
+\RequirePackage{hyperref} %--------------------- load hyperref
+\RequirePackage[all]{hypcap} %------------------ adjust anchor of captions
+\RequirePackage[usenames,
+                dvipsnames,
+                svgnames,
+                table]{xcolor} %---------------- colours
+\RequirePackage{fancyhdr} %--------------------- fancy layout
+\RequirePackage{authblk} %---------------------- manage multiple authors
+\RequirePackage{setspace} %--------------------- set custom spacing
+\RequirePackage{titlesec} %--------------------- custom title section
+\RequirePackage{changepage} %------------------- change page layout
+\RequirePackage{lastpage} %--------------------- reference to last page
+\RequirePackage[type={CC},
+                modifier={by-nc-nd},
+                version={4.0}]{doclicense} %- licence
+\RequirePackage[nottoc]{tocbibind} %------------ put bibliography in TOC
+\RequirePackage[backend=biber,
+                citestyle=numeric-comp,
+                sorting=none,
+                sortcites=true,
+                style=ieee,
+                maxnames=3]{biblatex} %--------- bibliography backend
+\RequirePackage{bookmark} %--------------------- hyperref and links
+
+%---- pass options to class
+
+\DeclareOption*{\PassOptionsToClass{\CurrentOption}{article}}
+
+%---- end options
+
+\ProcessOptions\relax
+
+%---- numbers and style
+
+\pagenumbering{arabic}
+\pagestyle{fancy}
+
+\titleformat{\part}
+            [display]
+            {\centering\normalfont\Huge\scshape}
+            {\vfill
+             \partname~\thepart}
+            {0pt}
+            {\vspace{3pt}
+             \Huge
+            }
+
+%---- space
+
+\newlength{\blockskip}
+\setlength\blockskip{1em}
+\newlength{\sepwidth}
+\setlength\sepwidth{1pt}
+\setlength\parskip{1em}
+
+%---- metadata
+
+\makeatletter
+
+\providecommand*{\author}[1]{\def\@author{#1}}
+\providecommand*{\title}[1]{\def\@title{#1}}
+\providecommand*{\advisor}[1]{\def\@advisor{#1}}
+\providecommand*{\institution}[1]{\def\@institution{#1}}
+\providecommand*{\school}[1]{\def\@school{#1}}
+\providecommand*{\specialisation}[1]{\def\@specialisation{#1}}
+\providecommand*{\logo}[1]{\def\@logo{#1}}
+
+\providecommand{\theauthor}{\@author}
+\providecommand{\thetitle}{\@title}
+\providecommand{\theadvisor}{\@advisor}
+\providecommand{\theinstitution}{\@institution}
+\providecommand{\thespecialisation}{\@specialisation}
+\providecommand{\theschool}{\@school}
+\providecommand{\thelogo}{\@logo}
+
+\makeatother
+
+\hypersetup
+{%
+  pdftitle={\thetitle},
+  pdfsubject={Thesis},
+  pdfauthor={\theauthor},
+  pdfkeywords={thesis, graduation, doctoral, phd},
+  pdfstartview={FitH},
+  pdfcreator={XeLaTeX},
+  pdfproducer={XeLaTeX},
+  pdflang={en-GB},
+  pdfpagemode={UseOutlines},
+  bookmarksopen={true},
+  bookmarksnumbered={true},
+  hidelinks,
+  linktocpage,
+  colorlinks={true},
+  linkcolor={blue},
+  urlcolor={blue},
+  filecolor={blue},
+  runcolor={blue},
+  menucolor={blue},
+  citecolor={red}
+}
+
+%---- titlepage
+
+\newcommand{\maketitlepage}
+{%
+  \thispagestyle{empty}
+
+  \begin{center}
+    {\Large \theinstitution} \\
+    {\Large \bf \theschool} \\
+  \end{center}
+
+  \hrulefill
+
+  \vspace{4\blockskip}
+
+  \begin{center}
+    \includegraphics[width=\textwidth]{\thelogo}
+  \end{center}
+
+  \vfill
+
+  {\Large \bf \thetitle}
+
+  \vspace{4\blockskip}
+
+  {\Large \bf \theauthor}
+}
+
+\newcommand{\makefrontespice}
+{%
+  \thispagestyle{plain}
+
+  \begin{center}
+    {\Large \theinstitution} \\
+    {\Large \bf \theschool} \\
+  \end{center}
+
+  \hrulefill
+
+  \begin{center}
+    {\Large \bf \thespecialisation}
+  \end{center}
+
+  \vspace{8\blockskip}
+
+  \begin{center}
+    {\Large \bf \thetitle}
+  \end{center}
+
+  \vfill
+
+  {\Large \bf \theauthor}
+
+  \vspace{4\blockskip}
+
+  {\Large \bf Advisor: \theadvisor}
+}
+
+\newcommand{\cleardoubleplainpage}
+{%
+  \clearpage{\thispagestyle{plain}\cleardoublepage}
+}
+
+\newcommand{\plaintoc}
+{%
+  \thispagestyle{plain}
+  \renewcommand*{\contentsname}{\Huge Table of Contents}
+  \tableofcontents
+  \cleardoubleplainpage{}
+}
+
+%---- abstract
+
+\newenvironment{abstractpage}
+{%
+  \thispagestyle{plain}
+
+  \noindent {\Large \sc Abstract} \\
+  \rule{0.99\textwidth}{\sepwidth}
+}
+{%
+  \vfill
+}
+
+%---- acknowledgements
+
+\newenvironment{acknowledgmentspage}
+{%
+  \thispagestyle{plain}
+
+  \noindent {\Large \sc Acknowledgements} \\
+  \rule{0.99\textwidth}{\sepwidth}
+}
+{%
+  \vspace{\parskip}
+  \raggedleft\theauthor
+  \vfill
+}
+
+%---- part and sections
+
+\newcommand{\thesispart}[1]
+{%
+  \cleardoubleplainpage{}
+  \thispagestyle{plain}
+  \part{#1}
+  \vfill
+  \cleardoubleplainpage{}
+}
+
+\newcommand{\outline}[1]
+{%
+  \thispagestyle{plain}
+  \section*{#1}
+  \addcontentsline{toc}{section}{#1}
+}
+
+% vim: ft=tex