Initial push

.gitignore

+*.aux
+*.bbl
+*.bcf
+*.blg
+*.log
+*.out
+*.run.xml
+*.synctex.gz
+*.toc

Makefile

+AUX = $(shell find . -name '*.aux*')
+DPTH = $(shell find . -name '*.dpth')
+LOG = $(shell find . -name '*.log')
+XML = $(shell find . -name '*.xml')
+
+MAIN = ./mainmatter
+APP = ./appendix
+FIGS = ./figures
+
+
+all: main.pdf
+
+
+main.pdf: QEmain.tex references.bib $(FIGS)/* $(FRONT)/* $(MAIN)/*
+	pdflatex -shell-escape $<
+	biber QEmain
+	pdflatex $<
+	pdflatex $<
+
+clean:
+	$(RM) $(AUX) $(DPTH) $(LOG) $(XML) *.bbl *.blg *.bcf *.out *.synctex.gz *.toc *.ilg *.idx *.ind *.lot *.lof main.pdf mainBook.pdf

QEmain.tex

+\input{preamble}
+
+%% Defines thesistitle, authorname, studentnumber, supervisor, and all other personal stuff
+\newcommand{\thesistitle}{Progress Report for Qualifying Exam}
+\renewcommand{\author}{Stig Elkjær Rasmussen}
+\newcommand{\studentNo}{201303692 -- au475570}
+\newcommand{\supervisor}{Nikolaj Thomas Zinner}
+\newcommand{\email}{\url{stig@phys.au.dk}}
+\newcommand{\afldate}{30\textsuperscript{rd} of July, }
+\newcommand{\aflyear}{2020}
+  
+
+\begin{document}
+	%% Coverpage, titlepage, colophon
+	\frontmatter
+		\input{titlePage} 
+		\restoregeometry	
+	
+	%% Outline, table of contents, acknowledgements and preface
+		\pagestyle{fancy}
+		\tableofcontents 
+		\clearpage
+	
+	%% The actual thesis
+	\mainmatter
+		%\pagestyle{headings}
+		\input{mainmatter/introduction}
+		\input{mainmatter/aim}
+		
+		If you have nothing else to cite this is a good start: \cite{Rasmussen2017,Rasmussen2019,Barfknecht2019,Christensen2020,Rasmussen2020a,Rasmussen2020b}.
+		
+		\input{mainmatter/projectPart1}
+		\input{mainmatter/remainingPlan}
+		
+	\backmatter
+	%% Bibliography
+	\printbibliography
+	\renewcommand*{\bibfont}{\raggedright}
+
+
+\end{document}
\ No newline at end of file

mainmatter/aim.tex

+\chapter{Aim of project}
+
+What is the aim of the PhD project?
\ No newline at end of file

mainmatter/introduction.tex

+\chapter{Introduction}\label{chap:Intro}
+
+This is the introduction to the field of research.
+
+$c = \hbar = 2e = 1$ when not explicit written.
+
+\lipsum
\ No newline at end of file

mainmatter/projectPart1.tex

+\chapter{Project part 1}
+
+What is this part of the project about?
\ No newline at end of file

mainmatter/remainingPlan.tex

+\chapter{Plan for the remaining project}
+
+What is the plan of the remaining project?
\ No newline at end of file

preamble.tex

+\documentclass[english,b5paper,oneside,onecolumn,9pt]{memoir}
+	\usepackage[english]{babel}
+	\usepackage[T1]{fontenc}	
+	\usepackage[utf8]{inputenc}
+
+%% Figures
+	\usepackage{graphicx}
+	\usepackage[labelfont=bf,textfont={it},size=small]{caption}
+	\usepackage[labelfont=bf,textfont={it}]{subcaption}
+%	\usepackage{circuitikz}
+%	\usepackage{pgfplots}
+%		\newlength\figureheight
+%		\newlength\figurewidth
+%		\pgfplotsset{compat=newest}
+%		\usepgfplotslibrary{external}
+%		\usepgfplotslibrary{groupplots}
+%		\usetikzlibrary{pgfplots.external}
+%		\usetikzlibrary{fadings}
+%		\tikzexternalize % Used to externalize tikz figure such they are not recreated every day
+%		%\tikzset{external/force remake} % Use when all figure must be remade
+%		\tikzsetexternalprefix{tikz2pdf/}
+		
+%% Math
+	\usepackage{mathtools,mathrsfs} 
+	\usepackage{amsmath,amssymb}
+	\usepackage{bbold}
+	\usepackage{bm,bbm}
+	\usepackage{siunitx}
+
+%% Fonts
+	\usepackage{palatino}
+	\usepackage{mathpazo}
+	\usepackage{csquotes}
+	\usepackage{multirow}
+
+%% Drafts
+	\usepackage{lipsum}
+	\usepackage[draft]{fixme}
+	\usepackage{xspace}
+
+%% Pagesetup
+	\usepackage[bottom=3.6cm,top=3cm]{geometry}
+	\linespread{1.15}
+	\usepackage{microtype}
+	\let\footruleskip\undefined
+	\usepackage{fancyhdr}
+		\fancyhf{}
+		\fancyhead[LE]{\itshape \nouppercase{\leftmark}}
+		\fancyhead[RO]{\itshape \nouppercase{\rightmark}}
+		\fancyfoot[LE]{\thepage}
+		\fancyfoot[RO]{\thepage}
+		\renewcommand{\headrulewidth}{0pt}
+	
+
+%% Bibliography
+	\usepackage[backend=biber,sorting=none,maxbibnames=4,style=numeric]{biblatex}
+	\addbibresource{references.bib}
+
+%% Links and refs
+	\usepackage{url}
+	\usepackage[colorlinks=true,linkcolor=black,citecolor=black,urlcolor=black]{hyperref}
+	\usepackage[capitalise]{cleveref}
+
+%% Layout
+	\setsecnumdepth{subsection}
+	\setcounter{tocdepth}{2}
+	\chapterstyle{hangnum}
\ No newline at end of file

references.bib

+@article{Rasmussen2017,
+	doi = {10.1088/1361-6455/aa9b91},
+	url = {https://doi.org/10.1088%2F1361-6455%2Faa9b91},
+	year = 2017,
+	month = {dec},
+	publisher = {{IOP} Publishing},
+	volume = {51},
+	number = {2},
+	pages = {025302},
+	author = {S. E. Rasmussen and A. S. Jensen and D. V. Fedorov},
+	title = {Window for Efimov physics for few-body systems with finite-range interactions},
+	journal = {Journal of Physics B: Atomic, Molecular and Optical Physics},
+}
+
+@article{Barfknecht2019,
+	title = {Realizing time crystals in discrete quantum few-body systems},
+	author = {Barfknecht, R. E. and Rasmussen, S. E. and Foerster, A. and Zinner, N. T.},
+	journal = {Phys. Rev. B},
+	volume = {99},
+	issue = {14},
+	pages = {144304},
+	numpages = {15},
+	year = {2019},
+	month = {Apr},
+	publisher = {American Physical Society},
+	doi = {10.1103/PhysRevB.99.144304},
+	url = {https://link.aps.org/doi/10.1103/PhysRevB.99.144304}
+}
+
+@article{Rasmussen2019,
+	title = {Controllable two-qubit swapping gate using superconducting circuits},
+	author = {Rasmussen, S. E. and Christensen, K. S. and Zinner, N. T.},
+	journal = {Phys. Rev. B},
+	volume = {99},
+	issue = {13},
+	pages = {134508},
+	numpages = {9},
+	year = {2019},
+	month = {Apr},
+	publisher = {American Physical Society},
+	doi = {10.1103/PhysRevB.99.134508},
+	url = {https://link.aps.org/doi/10.1103/PhysRevB.99.134508}
+}
+
+@article{Christensen2020,
+	title = {Coherent router for quantum networks with superconducting qubits},
+	author = {Christensen, K. S. and Rasmussen, S. E. and Petrosyan, D. and Zinner, N. T.},
+	journal = {Phys. Rev. Research},
+	volume = {2},
+	issue = {1},
+	pages = {013004},
+	numpages = {7},
+	year = {2020},
+	month = {Jan},
+	publisher = {American Physical Society},
+	doi = {10.1103/PhysRevResearch.2.013004},
+	url = {https://link.aps.org/doi/10.1103/PhysRevResearch.2.013004}
+}
+
+@article{Rasmussen2020a,
+	title = {Single-step implementation of high-fidelity $n$-bit Toffoli gates},
+	author = {Rasmussen, S. E. and Groenland, K. and Gerritsma, R. and Schoutens, K. and Zinner, N. T.},
+	journal = {Phys. Rev. A},
+	volume = {101},
+	issue = {2},
+	pages = {022308},
+	numpages = {15},
+	year = {2020},
+	month = {Feb},
+	publisher = {American Physical Society},
+	doi = {10.1103/PhysRevA.101.022308},
+	url = {https://link.aps.org/doi/10.1103/PhysRevA.101.022308}
+}
+
+@unpublished{Rasmussen2020b,
+	title = {Simple implementation of high fidelity controlled-iSWAP gates and quantum circuit exponentiation of non-Hermitian gates},
+	author = {S. E. Rasmussen and N. T. Zinner},
+	year = {2020},
+	month = {3},
+	note = {arXiv:2002.11728}
+}
+

titlePage.tex

+%% Title page
+\thispagestyle{empty}
+\newgeometry{left=2cm,right=2cm}
+	{\centering
+		{ \setlength{\baselineskip}{24pt}
+			{\Huge \textsc{\thesistitle{}}} \par\vspace*{2\onelineskip}
+			
+			\large{\textsc{\author}} \par
+			\large{\textsc{\studentNo}}\par
+			\large{\textsc{Aarhus University}}\par
+			\large{\textsc{Department of Physics and Astronomy}}\par\vspace*{4\onelineskip}}
+		
+		\includegraphics[width=7.5cm]{figures/logo.pdf}
+		
+		\vfill
+		\vspace{2\onelineskip}
+		{\textit{Date: }\textsc{\afldate \aflyear}}\par
+		{\textit{Supervisor: }\textsc{\supervisor}}\par
+		
+		\enlargethispage{2\onelineskip}}
+	\newpage
\ No newline at end of file