Closed shadowwalker2718 closed 7 years ago
pzhaonet
commented
7 years ago Sorry to hear that. In your error message there is a line:
Refer to 'thesis_classic.log' for detailsCould you please post 'thesis_classic.log', 'thesis_classic.tex' and 'thesis_classic.Rmd'?
shadowwalker2718
commented
7 years ago This is pdfTeX, Version 3.14159265-2.6-1.40.18 (TeX Live 2017) (preloaded format=pdflatex 2017.6.29) 29 JUN 2017 12:07
entering extended mode
restricted \write18 enabled.
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See the LaTeX manual or LaTeX Companion for explanation.
Type H <return> for immediate help.
...
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! ==> Fatal error occurred, no output PDF file produced!%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Classicthesis Typographic Thesis
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% Version 1.0 (23/4/12)
%
% This template has been downloaded from:
% http://www.LaTeXTemplates.com
%
% Original author:
% Andr?Miede (http://www.miede.de)
%
% License:
% CC BY-NC-SA 3.0 (http://creativecommons.org/licenses/by-nc-sa/3.0/)
%
% General Tips:
% 1) Make sure to edit the classicthesis-config.file
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% 3) For margin notes: \marginpar or \graffito{}
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%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%----------------------------------------------------------------------------------------
% PACKAGES AND OTHER DOCUMENT CONFIGURATIONS
%----------------------------------------------------------------------------------------
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%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
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%
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%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%----------------------------------------------------------------------------------------
% DOCUMENT VARIABLES
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%------------------------------------------------
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\newcommand{\BuiltInTok}[1]{{#1}}
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\newcommand{\InformationTok}[1]{\textcolor[rgb]{0.56,0.35,0.01}{\textbf{\textit{{#1}}}}}
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\newcommand{\AlertTok}[1]{\textcolor[rgb]{0.94,0.16,0.16}{{#1}}}
\newcommand{\ErrorTok}[1]{\textcolor[rgb]{0.64,0.00,0.00}{\textbf{{#1}}}}
\newcommand{\NormalTok}[1]{{#1}}
\usepackage{amsthm}
\newtheorem{theorem}{Theorem}[chapter]
\newtheorem{lemma}{Lemma}[chapter]
\theoremstyle{definition}
\newtheorem{definition}{Definition}[chapter]
\newtheorem{corollary}{Corollary}[chapter]
\newtheorem{proposition}{Proposition}[chapter]
\theoremstyle{definition}
\newtheorem{example}{Example}[chapter]
\theoremstyle{remark}
\newtheorem*{remark}{Remark}
\begin{document}
%\begin{CJK*}{GBK}{song}
\frenchspacing % Reduces space after periods to make text more compact
\raggedbottom % Makes all pages the height of the text on that page
\selectlanguage{american} % Select your default language - e.g. american or ngerman
%\renewcommand*{\bibname}{new name} % Uncomment to change the name of the bibliography
%\setbibpreamble{} % Uncomment to include a preamble to the bibliography - some text before the reference list starts
\pagenumbering{roman} % Roman page numbering prior to the start of the thesis content (i, ii, iii, etc)
\pagestyle{plain} % Suppress headers for the pre-content pages
%----------------------------------------------------------------------------------------
% PRE-CONTENT THESIS PAGES
%----------------------------------------------------------------------------------------
%\include{FrontBackmatter/Titlepage} % Main title page
% Title Page
\begin{titlepage}
\begin{addmargin}[-1cm]{-3cm}
\begin{center}
\large
\hfill
\vfill
\begingroup
\color{Maroon}\spacedallcaps{R bookdownplus} \\\\ \bigskip % Thesis title
\endgroup
\spacedlowsmallcaps{Peng Zhao} % Your name
\vfill
\includegraphics[width=6cm]{images/bookdownplus-logo.pdf} \\ \medskip % Picture
%\mySubtitle \\ \medskip % Thesis subtitle
%\myDegree \\
%\myDepartment \\
%\myFaculty \\
%\myUni \\ \bigskip
%\myTime\ -- \myVersion % Time and version
\vfill
\end{center}
\end{addmargin}
\end{titlepage}
% \include{FrontBackmatter/Titleback} % Back of the title page
%\cleardoublepage\include{FrontBackmatter/Dedication} % Dedication page
%\cleardoublepage\include{FrontBackmatter/Foreword} % Uncomment and create a Foreword.tex to include a foreword
%\cleardoublepage\include{FrontBackmatter/Abstract} % Abstract page
%\cleardoublepage\include{FrontBackmatter/Publication} % Publications from the thesis page
%\cleardoublepage\include{FrontBackmatter/Acknowledgments} % Acknowledgements page
\pagestyle{scrheadings} % Show chapter titles as headings
%\cleardoublepage\include{FrontBackmatter/Contents} % Contents, list of figures/tables/listings and acronyms
% Table of Contents - List of Tables/Figures/Listings and Acronyms
\refstepcounter{dummy}
\pdfbookmark[1]{\contentsname}{tableofcontents} % Bookmark name visible in a PDF viewer
\setcounter{tocdepth}{2} % Depth of sections to include in the table of contents - currently up to subsections
\setcounter{secnumdepth}{3} % Depth of sections to number in the text itself - currently up to subsubsections
\manualmark
\markboth{\spacedlowsmallcaps{\contentsname}}{\spacedlowsmallcaps{\contentsname}}
\tableofcontents
\automark[section]{chapter}
\renewcommand{\chaptermark}[1]{\markboth{\spacedlowsmallcaps{#1}}{\spacedlowsmallcaps{#1}}}
\renewcommand{\sectionmark}[1]{\markright{\thesection\enspace\spacedlowsmallcaps{#1}}}
\clearpage
\begingroup
\let\clearpage\relax
\let\cleardoublepage\relax
\let\cleardoublepage\relax
%----------------------------------------------------------------------------------------
% List of Figures
%----------------------------------------------------------------------------------------
\refstepcounter{dummy}
%\addcontentsline{toc}{chapter}{\listfigurename} % Uncomment if you would like the list of figures to appear in the table of contents
\pdfbookmark[1]{\listfigurename}{lof} % Bookmark name visible in a PDF viewer
\listoffigures
\vspace*{8ex}
\newpage
%----------------------------------------------------------------------------------------
% List of Tables
%----------------------------------------------------------------------------------------
\refstepcounter{dummy}
%\addcontentsline{toc}{chapter}{\listtablename} % Uncomment if you would like the list of tables to appear in the table of contents
\pdfbookmark[1]{\listtablename}{lot} % Bookmark name visible in a PDF viewer
\listoftables
\vspace*{8ex}
\newpage
%----------------------------------------------------------------------------------------
% List of Listings
%----------------------------------------------------------------------------------------
\refstepcounter{dummy}
%\addcontentsline{toc}{chapter}{\lstlistlistingname} % Uncomment if you would like the list of listings to appear in the table of contents
\pdfbookmark[1]{\lstlistlistingname}{lol} % Bookmark name visible in a PDF viewer
\lstlistoflistings
\vspace*{8ex}
\newpage
%----------------------------------------------------------------------------------------
% Acronyms
%----------------------------------------------------------------------------------------
\refstepcounter{dummy}
%\addcontentsline{toc}{chapter}{Acronyms} % Uncomment if you would like the acronyms to appear in the table of contents
\pdfbookmark[1]{Acronyms}{acronyms} % Bookmark name visible in a PDF viewer
\markboth{\spacedlowsmallcaps{Acronyms}}{\spacedlowsmallcaps{Acronyms}}
\chapter*{Acronyms}
\begin{acronym}[UML]
\acro{DRY}{Don't Repeat Yourself}
\acro{API}{Application Programming Interface}
\acro{UML}{Unified Modeling Language}
\end{acronym}
\endgroup
\cleardoublepage
\pagenumbering{arabic} % Arabic page numbering for thesis content (1, 2, 3, etc)
%\setcounter{page}{90} % Uncomment to manually start the page counter at an arbitrary value (for example if you wish to count the pre-content pages in the page count)
\cleardoublepage % Avoids problems with pdfbookmark
%----------------------------------------------------------------------------------------
% THESIS CONTENT - CHAPTERS
%----------------------------------------------------------------------------------------
% \ctparttext{You can put some informational part preamble text here. Illo principalmente su nos. Non message \emph{occidental} angloromanic da. Debitas effortio simplificate sia se, auxiliar summarios da que, se avantiate publicationes via. Pan in terra summarios, capital interlingua se que. Al via multo esser specimen, campo responder que da. Le usate medical addresses pro, europa origine sanctificate nos se.} % Text on the Part 1 page describing the content in Part 1
\chapter{Introduction}\label{introduction}
\texttt{bookdown+}? Hmm\ldots{}sounds like something related to the
R\citep{R-base} package \texttt{bookdown} \citep{R-bookdown}?
\graffito{You can put some additional information here}
Yes, you \textbf{\emph{R}} right. Everyone knows that \texttt{bookdown}
is an excellent package for authoring books on programming languages.
But it is only one side of the coin. It can do more than expected.
\texttt{bookdown} smells like a tasty cake. I have been expecting
someone to cut it. Now I am helping myself. Therefore I am developing
\texttt{bookdown+}.
\texttt{bookdown+} is an extension of \texttt{bookdown}. It is a
collection of multiple templates, which I collected years ago on the
basis of \LaTeX, and have been tailoring them so that I can work happily
under the umbrella of \texttt{bookdown}. \texttt{bookdown+} shows you
the other side of the coin, which helps you write academic journal
articles, guitar books, chemical equations, mails, calendars, and
diaries.
I believe some official bookdown templates will be available in the near
future, but I cannot wait. Can you?
With \texttt{bookdown+} you can
\begin{itemize}
\item
record guitar chords,
\item
write a mail in an elegant layout,
\item
write a laboratory journal, or a personal diary,
\item
draw a monthly or weekly or conference calendar,
\item
and, of course, write academic articles in your favourite way,
\item
with chemical molecular formulae and equations,
\item
even in Chinese,
\item
and more wonders will come soon.
\end{itemize}
\texttt{bookdown+} is developed on the basis of the following
outstanding work:
\begin{itemize}
\item
R bookdown package \citep{R-bookdown}
\item
Two minimal book examples using bookdown by Yihui Xie \footnote{\url{https://github.com/yihui/bookdown-minimal}}
\footnote{\url{https://github.com/rstudio/bookdown-demo}}
\item
gchords, a LaTeX package for typesetting guitar chord diagrams by
Kasper Peeters \footnote{\url{http://kasper.phi-sci.com/gchords/}}
\item
Copernicus Publications LaTeX Package \footnote{\url{http://publications.copernicus.org/for_authors/latex_instructions.html}}
\end{itemize}
If I miss something that I should cite, please let me know.
\chapter{Quick start}\label{quick-start}
\section{Step 0. Preparation}\label{step-0.-preparation}
Before starting, you have to install R, RStudio, bookdown package, and
other software and packages (i.e. \texttt{Pandoc}, \LaTeX,
\texttt{rmarkdown}, \texttt{rticle}, \texttt{knitr}, etc.) which
bookdown depends on. See the official manual of bookdown \footnote{\url{https://bookdown.org/yihui/bookdown/}}
for details.
If you are ready,
\href{https://github.com/dapengde/bookdown-plus/archive/master.zip}{download
\texttt{bookdown+}} package as a zip file from Github. Unzip it to a
folder in your PC. You will find a file named \texttt{\_start.Rproj}.
Double click it, and it will be opened by RStudio.
OK, now you can see a \texttt{\_runme.R} file as well. Open it and run
the script, or follow my explanation as follows,
\section{Step 1. Title and author}\label{step-1.-title-and-author}
Specify the title and the author of your book, article, guitar book, or
whatever.
\section{Step 2: Template}\label{step-2-template}
Choose a template out of the available templates. Here I choose the 8th.
Run \texttt{fun/build.R}.
\section{Step 3: Write and Build}\label{step-3-write-and-build}
Now you can press \texttt{ctrl+shift+b} to build a demo book, which you
can find in \texttt{book/}.
Write your own text in \texttt{body.Rmd}, and build your own lovely
book.
Have fun!
\section{Models}\label{models}
Eq. \eqref{eq:mc2} is an equation.
\begin{equation}
E = mc^2
\label{eq:mc2}
\end{equation}
It can be written as \(E = mc^2\).
\chapter{Results}\label{results}
Fig. \ref{fig:fig1} psum dolor sit amet, consectetur adipiscing elit,
sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.
\begin{figure}
{\centering \includegraphics[width=0.8\linewidth]{thesis_classic_files/figure-latex/fig1-1}
}
\caption{caption}\label{fig:fig1}
\end{figure}
Tab. \ref{tab:tab1} psum dolor sit amet, consectetur adipiscing elit,
sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.
\begin{table}
\caption{\label{tab:tab1}Here is a nice table!}
\centering
\begin{tabular}[t]{rrrrl}
\toprule
Sepal.Length & Sepal.Width & Petal.Length & Petal.Width & Species\\
\midrule
5.1 & 3.5 & 1.4 & 0.2 & setosa\\
4.9 & 3.0 & 1.4 & 0.2 & setosa\\
4.7 & 3.2 & 1.3 & 0.2 & setosa\\
4.6 & 3.1 & 1.5 & 0.2 & setosa\\
5.0 & 3.6 & 1.4 & 0.2 & setosa\\
\addlinespace
5.4 & 3.9 & 1.7 & 0.4 & setosa\\
4.6 & 3.4 & 1.4 & 0.3 & setosa\\
5.0 & 3.4 & 1.5 & 0.2 & setosa\\
4.4 & 2.9 & 1.4 & 0.2 & setosa\\
4.9 & 3.1 & 1.5 & 0.1 & setosa\\
\addlinespace
5.4 & 3.7 & 1.5 & 0.2 & setosa\\
4.8 & 3.4 & 1.6 & 0.2 & setosa\\
4.8 & 3.0 & 1.4 & 0.1 & setosa\\
4.3 & 3.0 & 1.1 & 0.1 & setosa\\
5.8 & 4.0 & 1.2 & 0.2 & setosa\\
\addlinespace
5.7 & 4.4 & 1.5 & 0.4 & setosa\\
5.4 & 3.9 & 1.3 & 0.4 & setosa\\
5.1 & 3.5 & 1.4 & 0.3 & setosa\\
5.7 & 3.8 & 1.7 & 0.3 & setosa\\
5.1 & 3.8 & 1.5 & 0.3 & setosa\\
\bottomrule
\end{tabular}
\end{table}
\chapter{Conclusions}\label{conclusions}
Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod
tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim
veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea
commodo consequat. Duis aute irure dolor in reprehenderit in voluptate
velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint
occaecat cupidatat non proident, sunt in culpa qui officia deserunt
mollit anim id est laborum
% Bibliography
\label{app:bibliography} % Reference the bibliography elsewhere with \autoref{app:bibliography}
\manualmark
\markboth{\spacedlowsmallcaps{\bibname}}{\spacedlowsmallcaps{\bibname}}
\refstepcounter{dummy}
\addtocontents{toc}{\protect\vspace{\beforebibskip}} % Place the bibliography slightly below the rest of the document content in the table of contents
\bibliographystyle{plainnat}
%\bibliography{bib/bib}
\bibliography{bib/bib.bib}
%\end{CJK*}
\end{document}---
title: "R bookdownplus"
author: "Peng Zhao"
date: ""
output:
bookdown::pdf_book:
template: tex/template_thesis_classic.tex
keep_tex: yes
citation_package: natbib
# latex_engine: xelatex
toc_depth: 3
toc_unnumbered: no
toc_appendix: yes
pandoc_args: --chapters
quote_footer: ["\\begin{flushright}", "\\end{flushright}"]
bibliography: [bib/bib.bib]
biblio-style: apalike
link-citations: yes
colorlinks: no
toc: no
lot: no
lof: no
site: bookdown::bookdown_site
---
<!--chapter:end:index.Rmd-->
# Introduction
`bookdown+`? Hmm...sounds like something related to the R[@R-base] package `bookdown` [@R-bookdown]?
\graffito{You can put some additional information here}
Yes, you **_R_** right. Everyone knows that `bookdown` is an excellent package for authoring books on programming languages. But it is only one side of the coin. It can do more than expected. `bookdown` smells like a tasty cake. I have been expecting someone to cut it. Now I am helping myself. Therefore I am developing `bookdown+`.
`bookdown+` is an extension of `bookdown`. It is a collection of multiple templates, which I collected years ago on the basis of \LaTeX, and have been tailoring them so that I can work happily under the umbrella of `bookdown`. `bookdown+` shows you the other side of the coin, which helps you write academic journal articles, guitar books, chemical equations, mails, calendars, and diaries.
I believe some official bookdown templates will be available in the near future, but I cannot wait. Can you?
With `bookdown+` you can
- record guitar chords,
- write a mail in an elegant layout,
- write a laboratory journal, or a personal diary,
- draw a monthly or weekly or conference calendar,
- and, of course, write academic articles in your favourite way,
- with chemical molecular formulae and equations,
- even in Chinese,
- and more wonders will come soon.
`bookdown+` is developed on the basis of the following outstanding work:
- R bookdown package [@R-bookdown]
- Two minimal book examples using bookdown by Yihui Xie ^[https://github.com/yihui/bookdown-minimal] ^[https://github.com/rstudio/bookdown-demo]
- gchords, a LaTeX package for typesetting guitar chord diagrams by Kasper Peeters ^[http://kasper.phi-sci.com/gchords/]
- Copernicus Publications LaTeX Package ^[http://publications.copernicus.org/for_authors/latex_instructions.html]
If I miss something that I should cite, please let me know.
# Quick start
## Step 0. Preparation
Before starting, you have to install R, RStudio, bookdown package, and other software and packages (i.e. `Pandoc`, \LaTeX, `rmarkdown`, `rticle`, `knitr`, etc.) which bookdown depends on. See the official manual of bookdown ^[https://bookdown.org/yihui/bookdown/] for details.
If you are ready, [download `bookdown+`](https://github.com/dapengde/bookdown-plus/archive/master.zip) package as a zip file from Github. Unzip it to a folder in your PC. You will find a file named `_start.Rproj`. Double click it, and it will be opened by RStudio.
OK, now you can see a `_runme.R` file as well. Open it and run the script, or follow my explanation as follows,
## Step 1. Title and author
Specify the title and the author of your book, article, guitar book, or whatever.
## Step 2: Template
Choose a template out of the available templates. Here I choose the 8th.
Run `fun/build.R`.
## Step 3: Write and Build
Now you can press `ctrl+shift+b` to build a demo book, which you can find in `book/`.
Write your own text in `body.Rmd`, and build your own lovely book.
Have fun!
## Models
Eq. \@ref(eq:mc2) is an equation.
\begin{equation}
E = mc^2
(\#eq:mc2)
\end{equation}
It can be written as $E = mc^2$.
# Results
Fig. \@ref(fig:fig1) psum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.
```{r fig1, fig.cap='caption', out.width='80%', fig.align='center', echo=FALSE}
plot(cars)Tab. \@ref(tab:tab1) psum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.
knitr::kable(
head(iris, 20), caption = 'Here is a nice table!',
booktabs = TRUE
)Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum
The cause is you have a different version of acronym.sty. See stackexchange:
\bflabel is not being used in the newest implementation of acronym.sty, they introduced \aclabelfont and a few others to deal with formatting. No backward compatibility.
I have fixed the problem in the newest version of bookdownplus. Please update your bookdownplus:
devtools::install_github("pzhaonet/bookdownplus")Thanks. I works now for English text. But after I input some Chinese in body.Rmd, I got the following errors:
output file: thesis_classic.knit.md
Latexmk: applying rule 'pdflatex'...
Latexmk: This is Latexmk, John Collins, 19 Jan. 2017, version: 4.52c.
Rule 'pdflatex': File changes, etc:
Non-existent destination files:
'thesis_classic.pdf'
------------
Run number 1 of rule 'pdflatex'
------------
------------
Running 'pdflatex -halt-on-error -interaction=batchmode -recorder "thesis_classic.tex"'
------------
This is pdfTeX, Version 3.14159265-2.6-1.40.18 (TeX Live 2017) (preloaded format=pdflatex)
restricted \write18 enabled.
entering extended mode
=== TeX engine is 'pdfTeX'
Latexmk: Errors, so I did not complete making targets
Collected error summary (may duplicate other messages):
pdflatex: Command for 'pdflatex' gave return code 1
Refer to 'thesis_classic.log' for details
Latexmk: Use the -f option to force complete processing,
unless error was exceeding maximum runs of latex/pdflatex.
! LaTeX Error: Command \textyen unavailable in encoding T1.
Error: Failed to compile thesis_classic.tex. See thesis_classic.log for more info.
In addition: Warning messages:
1: In grep("^\\s*$", x) : input string 913 is invalid in this locale
2: In grep("^\\s*$", x) : input string 914 is invalid in this locale
3: In grep("^! ", x) : input string 913 is invalid in this locale
4: In grep("^! ", x) : input string 914 is invalid in this locale
Please delete thesis_classic.Rmd after you finish debugging the error.
Execution halted
Exited with status 1.The support for Chinese needs additional consideration, which is not carried out in thesis_classic. See bookdownplus textbook: https://bookdown.org/baydap/bookdownplus/advanced.html#chinese
I updated R, latex and Latexmk to the latest version and also loaded bookdownplus. But the issue is still there:
My session info: