%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% %% I, the copyright holder of this work, release this work into the %% public domain. This applies worldwide. In some countries this may %% not be legally possible; if so: I grant anyone the right to use %% this work for any purpose, without any conditions, unless such %% conditions are required by law. %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% \documentclass[ digital, %% This option enables the default options for the %% digital version of a document. Replace with `printed` %% to enable the default options for the printed version %% of a document. twoside, %% This option enables double-sided typesetting. Use at %% least 120 g/m² paper to prevent show-through. Replace %% with `oneside` to use one-sided typesetting; use only %% if you don’t have access to a double-sided printer, %% or if one-sided typesetting is a formal requirement %% at your faculty. table, %% This option causes the coloring of tables. Replace %% with `notable` to restore plain LaTeX tables. lof, %% This option prints the List of Figures. Replace with %% `nolof` to hide the List of Figures. lot, %% This option prints the List of Tables. Replace with %% `nolot` to hide the List of Tables. %% More options are listed in the user guide at %% . ]{fithesis3} %% The following section sets up the locales used in the thesis. \usepackage{polyglossia} %% By using `czech` or `slovak` as the \setmainlanguage{english} %% main locale instead of `english`, you %% can typeset the thesis in either Czech or Slovak, respectively. \setotherlanguages{german, russian, czech, slovak} %% The %% %% \begin{otherlanguage}{german} ... \end{otherlanguage} %% \begin{otherlanguage}{russian} ... \end{otherlanguage} %% \begin{otherlanguage}{czech} ... \end{otherlanguage} %% \begin{otherlanguage}{slovak} ... \end{otherlanguage} %% %% For non-Latin scripts, it may be necessary to load additional %% fonts: \newfontfamily\russianfont[Script=Cyrillic,Ligatures=TeX]{PT Serif} %% %% The following section sets up the metadata of the thesis. \thesissetup{ date = \the\year/\the\month/\the\day, university = mu, faculty = med, field = Optometry, department = The Department of Optometry and Orthoptics, type = bc, author = Jane Doe, gender = f, advisor = John Smith, title = The Curative Effects of Good Typography on the Quality of Sight, TeXtitle = The Curative Effects of Good\\ Typography on the Quality of Sight, keywords = {keyword1, keyword2, ...}, TeXkeywords = {keyword1, keyword2, \ldots}, abstract = {This is the abstract of my thesis, which can span multiple paragraphs.}, thanks = {These are the acknowledgements for my thesis, which can span multiple paragraphs.}, bib = example.bib, %% The following keys are only useful, when you're using a %% locale other than English. You can safely omit them in an %% English thesis. keywordsEn = {keyword1, keyword2, ...}, TeXkeywordsEn = {keyword1, keyword2, \ldots}, abstractEn = {This is the English abstract of my thesis, which can span multiple paragraphs.}, } \usepackage{makeidx} %% The `makeidx` package contains \makeindex %% helper commands for index typesetting. %% These additional packages are used within the document: \usepackage{paralist} %% Compact list environments \usepackage{amsmath} %% Mathematics \usepackage{amsthm} \usepackage{amsfonts} \usepackage{url} %% Hyperlinks \usepackage{markdown} %% Lightweight markup \usepackage{listings} %% Source code highlighting \lstset{ basicstyle = \ttfamily,% identifierstyle = \color{black},% keywordstyle = \color{blue},% keywordstyle = {[2]\color{cyan}},% keywordstyle = {[3]\color{olive}},% stringstyle = \color{teal},% commentstyle = \itshape\color{magenta}} \usepackage{floatrow} %% Putting captions above tables \floatsetup[table]{capposition=top} \begin{document} \chapter*{Introduction} \addcontentsline{toc}{chapter}{Introduction} Theses are rumoured to be the capstones of education, so I decided to write one of my own. If all goes well, I will soon have a diploma under my belt. Wish me luck! \begin{otherlanguage}{czech} Říká se, že závěrečné práce jsou vyvrcholením studia a tak jsem se rozhodl jednu také napsat. Pokud vše půjde podle plánu, odnesu si na konci semestru diplom. Držte mi palce! \end{otherlanguage} \begin{otherlanguage}{slovak} Hovorí sa, že záverečné práce sú vyvrcholením štúdia a tak som sa rozhodol jednu tiež napísať. Ak všetko pôjde podľa plánu, odnesiem si na konci semestra diplom. Držte mi palce! \end{otherlanguage} \begin{otherlanguage}{german} Man munkelt, dass die Dissertation die Krönung der Ausbildung ist. Deshalb habe ich mich beschlossen meine eigene zu schreiben. Wenn alles gut geht, bekomme ich bald ein Diplom. Wünsch mir Glück! \end{otherlanguage} \begin{otherlanguage}{russian} Говорят, что тезис -- это кульминация обучения. Поэтому я и решил написать собственный тезис. Если всё сработает по плану, я скоро получу диплом. Желайте мне удачи! \end{otherlanguage} \chapter{These are} \section{the available} \subsection{sectioning} \subsubsection{commands.} \paragraph{Paragraphs and} \subparagraph{subparagraphs are available as well.} Inside the text, you can also use unnumbered lists, \begin{itemize} \item such as \item this one \begin{itemize} \item and they can be nested as well. \item[>>] You can even turn the bullets into something fancier, \item[\S] if you so desire. \end{itemize} \end{itemize} Numbered lists are \begin{enumerate} \item very \begin{enumerate} \item similar \end{enumerate} \end{enumerate} and so are description lists: \begin{description} \item[Description list] A list of terms with a description of each term \end{description} The spacing of these lists is geared towards paragraphs of text. For lists of words and phrases, the \textsf{paralist} package offers commands \begin{compactitem} \item that \begin{compactitem} \item are \begin{compactitem} \item better \begin{compactitem} \item suited \end{compactitem} \end{compactitem} \end{compactitem} \end{compactitem} \begin{compactenum} \item to \begin{compactenum} \item this \begin{compactenum} \item kind of \begin{compactenum} \item content. \end{compactenum} \end{compactenum} \end{compactenum} \end{compactenum} The \textsf{amsthm} package provides the commands necessary for the typesetting of mathematical definitions, theorems, lemmas and proofs. %% We will define several mathematical sectioning commands. \newtheorem{theorem}{Theorem}[section] %% The numbering of theorems %% will be reset after each section. \newtheorem{lemma}[theorem]{Lemma} %% The numbering of lemmas \newtheorem{corollary}[theorem]{Corollary} %% and corollaries will %% share the counter with theorems. \theoremstyle{definition} \newtheorem{definition}{Definition} \theoremstyle{remark} \newtheorem*{remark}{Remark} \begin{theorem} This is a theorem that offers a profound insight into the mathematical sectioning commands. \end{theorem} \begin{theorem}[Another theorem] This is another theorem. Unlike the first one, this theorem has been endowed with a name. \end{theorem} \begin{lemma} Let us suppose that $x^2+y^2=z^2$. Then \begin{equation} \biggl\langle u\biggm|\sum_{i=1}^nF(e_i,v)e_i\biggr\rangle =F\biggl(\sum_{i=1}^n\langle e_i|u\rangle e_i,v\biggr). \end{equation} \end{lemma} \begin{proof} $\nabla^2 f(x,y)=\frac{\partial^2f}{\partial x^2}+ \frac{\partial^2f}{\partial y^2}$. \end{proof} \begin{corollary} This is a corollary. \end{corollary} \begin{remark} This is a remark. \end{remark} \chapter{Floats and references} \begin{figure} \begin{center} %% PNG and JPG images can be inserted into the document as well, %% but their resolution needs to be adequate. The minimum is %% about 100 pixels per 1 centimeter or 300 pixels per 1 inch. %% That means that a JPG or PNG image typeset at 4 × 4 cm should %% be 400 × 400 px large at the bare minimum. %% %% The optimum is about 250 pixels per 1 centimeter or 600 %% pixels per 1 inch. That means that a JPG or PNG image typeset %% at 4 × 4 cm should be 1000 × 1000 px large or larger. \includegraphics[width=4cm]{fithesis/logo/mu/fithesis-base.pdf} \end{center} \caption{The logo of the Masaryk University at 40\,mm} \label{fig:mulogo1} \end{figure} \begin{figure} \begin{center} \begin{minipage}{.66\textwidth} \includegraphics[width=\textwidth]{fithesis/logo/mu/fithesis-base.pdf} \end{minipage} \begin{minipage}{.33\textwidth} \includegraphics[width=\textwidth]{fithesis/logo/mu/fithesis-base.pdf} \\ \includegraphics[width=\textwidth]{fithesis/logo/mu/fithesis-base.pdf} \end{minipage} \end{center} \caption{The logo of the Masaryk University at $\frac23$ and $\frac13$ of text width} \label{fig:mulogo2} \end{figure} \begin{table} \begin{tabularx}{\textwidth}{lllX} \toprule Day & Min Temp & Max Temp & Summary \\ \midrule Monday & $13^{\circ}\mathrm{C}$ & $21^\circ\mathrm{C}$ & A clear day with low wind and no adverse current advisories. \\ Tuesday & $11^{\circ}\mathrm{C}$ & $17^\circ\mathrm{C}$ & A trough of low pressure will come from the northwest. \\ Wednesday & $10^{\circ}\mathrm{C}$ & $21^\circ\mathrm{C}$ & Rain will spread to all parts during the morning. \\ \bottomrule \end{tabularx} \caption{A weather forecast} \label{tab:weather} \end{table} The logo of the Masaryk University is shown in Figure \ref{fig:mulogo1} and Figure \ref{fig:mulogo2} at pages \pageref{fig:mulogo1} and \pageref{fig:mulogo2}. The weather forecast is shown in Table \ref{tab:weather} at page \pageref{tab:weather}. The following chapter is Chapter \ref{chap:matheq} and starts at page \pageref{chap:matheq}. Items \ref{item:star1}, \ref{item:star2}, and \ref{item:star3} are starred in the following list: \begin{compactenum} \item some text \item some other text \item $\star$ \label{item:star1} \begin{compactenum} \item some text \item $\star$ \label{item:star2} \item some other text \begin{compactenum} \item some text \item some other text \item yet another piece of text \item $\star$ \label{item:star3} \end{compactenum} \item yet another piece of text \end{compactenum} \item yet another piece of text \end{compactenum} If your reference points to a place that has not yet been typeset, the \verb"\ref" command will expand to \textbf{??} during the first run of \texttt{lualatex \jobname.tex} and a second run is going to be needed for the references to resolve. With online services -- such as Overleaf -- this is performed automatically. \chapter{Mathematical equations} \label{chap:matheq} \TeX{} comes pre-packed with the ability to typeset inline equations, such as $\mathrm{e}^{ix}=\cos x+i\sin x$, and display equations, such as \[ \mathbf{A}^{-1} = \begin{bmatrix} a & b \\ c & d \\ \end{bmatrix}^{-1} = \frac{1}{\det(\mathbf{A})} \begin{bmatrix} \,\,\,d & \!\!-b \\ -c & \,a \\ \end{bmatrix} = \frac{1}{ad - bc} \begin{bmatrix} \,\,\,d & \!\!-b \\ -c & \,a \\ \end{bmatrix}. \] \LaTeX{} defines the automatically numbered \texttt{equation} environment: \begin{equation} \gamma Px = PAx = PAP^{-1}Px. \end{equation} The package \textsf{amsmath} provides several additional environments that can be used to typeset complex equations: \begin{enumerate} \item An equation can be spread over multiple lines using the \texttt{multline} environment: \begin{multline} a + b + c + d + e + f + b + c + d + e + f + b + c + d + e + f \\ + f + g + h + i + j + k + l + m + n + o + p + q \end{multline} \item Several aligned equations can be typeset using the \texttt{align} environment: \begin{align} a + b &= c + d \\ u &= v + w + x \\[1ex] i + j + k + l &= m \end{align} \item The \texttt{alignat} environment is similar to \texttt{align}, but it doesn't insert horizontal spaces between the individual columns: \begin{alignat}{2} a + b + c &+ d & &= 0 \\ e &+ f + g & &= 5 \end{alignat} \item Much like chapter, sections, tables, figures, or list items, equations -- such as \eqref{eq:first} and \eqref{eq:mine} -- can also be labeled and referenced: \begin{alignat}{4} b_{11}x_1 &+ b_{12}x_2 & &+ b_{13}x_3 & & & &= y_1, \label{eq:first} \\ b_{21}x_1 &+ b_{22}x_2 & & & &+ b_{24}x_4 & &= y_2. \tag{My equation} \label{eq:mine} \end{alignat} \item The \texttt{gather} environment makes it possible to typeset several equations without any alignment: \begin{gather} \psi = \psi\psi, \\ \eta = \eta\eta\eta\eta\eta\eta, \\ \theta = \theta. \end{gather} \item Several cases can be typeset using the \texttt{cases} environment: \begin{equation} |y| = \begin{cases} \phantom-y & \text{if }z\geq0, \\ -y & \text{otherwise}. \end{cases} \end{equation} \end{enumerate} For the complete list of environments and commands, consult the \textsf{amsmath} package manual\footnote{ See \url{http://mirrors.ctan.org/macros/latex/required/amslatex/math/amsldoc.pdf}. The \texttt{\textbackslash url} command is provided by the package \textsf{url}. }. \chapter{\textnormal{We \textsf{have} \texttt{several} \textsc{fonts} \textit{at} \textbf{disposal}}} The serified roman font is used for the main body of the text. \textit{Italics are typically used to denote emphasis or quotations.} \texttt{The teletype font is typically used for source code listings.} The \textbf{bold}, \textsc{small-caps} and \textsf{sans-serif} variants of the base roman font can be used to denote specific types of information. \tiny We \scriptsize can \footnotesize also \small change \normalsize the \large font \Large size, \LARGE although \huge it \Huge is \huge usually \LARGE not \Large necessary.\normalsize A wide variety of mathematical fonts is also available, such as: \[ \mathrm{ABC}, \mathcal{ABC}, \mathbf{ABC}, \mathsf{ABC}, \mathit{ABC}, \mathtt{ABC} \] By loading the \textsf{amsfonts} packages, several additional fonts will become available: \[ \mathfrak{ABC}, \mathbb{ABC} \] Many other mathematical fonts are available\footnote{ See \url{http://tex.stackexchange.com/a/58124/70941}. }. \chapter{Using lightweight markup} \begin{markdown*}{% hybrid, definitionLists, footnotes, inlineFootnotes, hashEnumerators, fencedCode, citations, citationNbsps, } If you decide that \LaTeX{} is too wordy for some parts of your document, there are [packages](https://www.ctan.org/pkg/markdown "Markdown") that allow you to use more lightweight markup next to it. ![logo](fithesis/logo/mu/fithesis-base.pdf "The logo of the Masaryk University") This is a bullet list. Unlike numbered lists, bulleted lists contain an **unordered** set of bullet points. When a bullet point contains multiple paragraphs, the list is typeset as follows: * The first item of a bullet list that spans several paragraphs, * the second item of a bullet list, * the third item of a bullet list. When none of the bullet points contains multiple paragraphs, the list has a more compact form: * The first item of a bullet list, * the second item of a bullet list, * the third item of a bullet list. Unlike a bulleted list, a numbered list implies chronology or ordering of the bullet points. When a bullet point contains multiple paragraphs, the list is typeset as follows: 1. The first item of an ordered list that spans several paragraphs, 2. the second item of an ordered list, 3. the third item of an ordered list. #. If you are feeling lazy, #. you can use hash enumerators as well. When none of the bullet points contains multiple paragraphs, the list has a more compact form: 6. The first item of an ordered list, 7. the second item of an ordered list, 8. the third item of an ordered list. Definition lists are used to provide definitions of terms. When a definition contains multiple paragraphs, the list is typeset as follows: Term 1 : Definition 1 *Term 2* : Definition 2 Some code, part of Definition 2 Third paragraph of Definition 2. When none of the bullet points contains multiple paragraphs, the list has a more compact form: Term 1 : Definition 1 *Term 2* : Definition 2 Block quotations are used to include an excerpt from an external document in way that visually clearly separates the excerpt from the rest of the work: > This is the first level of quoting. > > > This is nested blockquote. > > Back to the first level. Footnotes are used to include additional information to the document that are not necessary for the understanding of the main text. Here is a footnote reference^[Here is the footnote.] and another.[^longnote] [^longnote]: Here's one with multiple blocks. Subsequent paragraphs are indented to show that they belong to the previous footnote. Some code The whole paragraph can be indented, or just the first line. In this way, multi-paragraph footnotes work like multi-paragraph list items. Citations are used to provide bibliographical references to other documents. This is a regular citation~[@borgman03, p. 123]. This is an in-text citation: @borgman03\. You can also cite several authors at once using both regular~[see @borgman03, p. 123; @greenberg98, sec. 3.2; and @thanh01] and in-text citations: @borgman03 [p.123; @greenberg98, sec. 3.2; @thanh01]. Code blocks are used to include source code listings into the document: #include #include #include #include // This is a comment int main(int argc, char **argv) { while (--c > 1 && !fork()); sleep(c = atoi(v[c])); printf("%d\n", c); wait(0); return 0; } There is an alternative syntax for code blocks that allows you to specify additional information, such as the language of the source code. This information can be used for syntax highlighting: ``` sh #!/bin/sh fac() { if [ "$1" -leq 1 ]; then echo 1 else echo $(("$1" * fac $(("$1" - 1)))) fi } `````````````` ~~~~~~ Ruby # Here's a way to empty an array. joe = [ 'eggs.', 'some', 'break', 'to', 'Have' ] print(joe.pop, " ") while joe.size > 0 print "\n" ~~~~~~ \end{markdown*} \chapter{Inserting the bibliography} After linking a bibliography data\-base files to the document using the \verb"\"\texttt{thesis\discretionary{-}{}{}setup\{bib\discretionary{=}{=}{=}% \{\textit{file1},\textit{file2},\,\ldots\,\}\}} command, you can start citing the entries. This is just dummy text \parencite{borgman03} lightly sprinkled with citations \parencite[p.~123]{greenberg98}. Several sources can be cited at once: \cite{borgman03,greenberg98,thanh01}. \citetitle{greenberg98} was written by \citeauthor{greenberg98} in \citeyear{greenberg98}. We can also produce \textcite{greenberg98}% . The full bibliographic citation is: \emph{\fullcite{greenberg98}}. We can easily insert a bibliographic citation into the footnote\footfullcite{greenberg98}. The \verb"\nocite" command will not generate any output\nocite{muni}, but it will insert its arguments into the bibliography. The \verb"\nocite{*}" command will insert all the records in the bibliography database file into the bibliography. Try uncommenting the command %% \nocite{*} and watch the bibliography section come apart at the seams. When typesetting the document for the first time, citing a \texttt{work} will expand to [\textbf{work}] and the \verb"\printbibliography" command will produce no output. It is now necessary to generate the bibliography by running \texttt{biber \jobname.bcf} from the command line and then by typesetting the document again twice. During the first run, the bibliography section and the citations will be typeset, and in the second run, the bibliography section will appear in the table of contents. The \texttt{biber} command needs to be executed from within the directory, where the \LaTeX\ source file is located. In Windows, the command line can be opened in a directory by holding down the \textsf{Shift} key and by clicking the right mouse button while hovering the cursor over a directory. Select the \textsf{Open Command Window Here} option in the context menu that opens shortly afterwards. With online services -- such as Overleaf -- or when using an automatic tool -- such as \LaTeX MK -- all commands are executed automatically. When you omit the \verb"\printbibliography" command, its location will be decided by the template. \printbibliography[heading=bibintoc] %% Print the bibliography. \chapter{Inserting the index} After using the \verb"\makeindex" macro and loading the \texttt{makeidx} package that provides additional indexing commands, index entries can be created by issuing the \verb"\index" command. \index{dummy text|(}It is possible to create ranged index entries, which will encompass a span of text.\index{dummy text|)} To insert complex typographic material -- such as $\alpha$ \index{alpha@$\alpha$} or \TeX{} \index{TeX@\TeX} -- into the index, you need to specify a text string, which will determine how the entry will be sorted. It is also possible to create hierarchal entries. \index{vehicles!trucks} \index{vehicles!speed cars} After typesetting the document, it is necessary to generate the index by running \begin{center}% \texttt{texindy -I latex -C utf8 -L }$\langle$\textit{locale}% $\rangle$\texttt{ \jobname.idx} \end{center} from the command line, where $\langle$\textit{locale}$\rangle$ corresponds to the main locale of your thesis -- such as \texttt{english}, and then typesetting the document again. The \texttt{texindy} command needs to be executed from within the directory, where the \LaTeX\ source file is located. In Windows, the command line can be opened in a directory by holding down the \textsf{Shift} key and by clicking the right mouse button while hovering the cursor over a directory. Select the \textsf{Open Command Window Here} option in the context menu that opens shortly afterwards. With online services -- such as Overleaf -- the commands are executed automatically, although the locale may be erroneously detected, or the \texttt{makeindex} tool (which is only able to sort entries that contain digits and letters of the English alphabet) may be used instead of \texttt{texindy}. In either case, the index will be ill-sorted. \makeatletter\thesis@blocks@clear\makeatother \phantomsection %% Print the index and insert it into the \addcontentsline{toc}{chapter}{\indexname} %% table of contents. \printindex \appendix %% Start the appendices. \chapter{An appendix} Here you can insert the appendices of your thesis. \end{document}