I am using Rstudio, to create a pdf / html document from an Rmd file. The header looks sth like this:
title: "Title"
author: "Me"
date: "`r format(Sys.time(), '%B %d, %Y')`"
bibliography: bibliography.bib
output:
html_document:
toc: true
number_sections: true
Now, I have some sections, and then include the references. After that, an appendix should follow, but I encounter the exact same problem as described here: Pandoc insert appendix after bibliography
There is a fixed solution in this thread, but I have no idea how I can do that within RStudio directly. To get the document, I just press the "Knit html" button, and do not run any pandoc commands myself. So where should I put the
--include-after-body
part, and how should the appendix rmd file look like?
As noted in the rmarkdown manual, you could use this syntax:
---
output:
html_document:
includes:
after_body: appendix.md
---
This is equivalent to the general way to add arbitrary pandoc arguments to a Rmd file:
---
output:
html_document:
pandoc_args: ["--include-after-body=appendix.md"]
---
The following might be easier; works if you knit to PDF, Word or HTML:
Everything I wanted to say in the main document.
# References
<div id="refs"></div>
\newpage
# Appendix
Some details that will bore the readers of the main document.
In the original post, this was also posted as an answer (few years after current question was asked): see https://stackoverflow.com/a/44294306/8234333 and https://stackoverflow.com/a/16428699/8234333
Related
I have defined certain pandoc options in _output.yml:
```
author: "abc"
date: "`r format(Sys.time(), '%d %B, %Y')`"
```
But, these get ignored, unless these are defined in the YAML header inside the R Markdown file.
Is this prohibited from including in the separate YAML file? Is so, could you please mention what other parameters should be defined inside the Markdown file.
An _output.yml file can only be used for setting the output formats, as explained within the bookdown book. So you can specify anything which relates to the output format (HTML/PDF/Word) such as:
html_document:
toc: TRUE
theme: flatly
pdf_document:
toc: FALSE
In your examples, the parameters you provide are about document content. So anything like author, title, date, fontsize can't be specified.
This issue has also been addressed within the GitHub issues of R Markdown for further reading.
I wrote my own titlepage and it is loaded via an include in the R-markdown file. However, this conflicts with the pandoc title. I am trying to find settings in the R markdown yaml header such that pandoc does not insert the following code snipped into the tex-file.
% Create subtitle command for use in maketitle
\newcommand{\subtitle}[1]{
\posttitle{
\begin{center}\large#1\end{center}
}
}
\setlength{\droptitle}{-2em}
\title{}
\pretitle{\vspace{\droptitle}}
\posttitle{}
\author{}
\preauthor{}\postauthor{}
\date{}
\predate{}\postdate{}
There is no clear indication in the pandoc documents or the r markdown guidelines how to disable the title generation. Any help would be appreciated.
Update: In particular, I am looking for solutions that allow me to keep creating my title page with the \maketitle command. That is why I focussed on this particular code snipped that I want to get rid of.
I also use my own title page with rmarkdown documents for latex/pdf outputs. To remove the title, you can add the following command in a text file called with in_header :
\AtBeginDocument{\let\maketitle\relax}
A reproductible example with the header.tex file built directly within the Rmd document:
---
title: "RMarkdown No title Test"
author: "StatnMap"
date: "July 30, 2017"
output:
pdf_document:
includes:
in_header: header.tex
---
```{r setup, include=FALSE}
knitr::opts_chunk$set(echo = TRUE)
```
```{r rm_title_page, echo=FALSE}
head <- cat('
\\AtBeginDocument{\\let\\maketitle\\relax}
', file = "header.tex")
```
# Title 1
**Some text**
# Title 2
**Some text**
Using compact-title: false in the YAML works.
---
title: "This title is not compact"
author: "Test"
date: "2019 May 10"
output: pdf_document
compact-title: false
---
I had the same problem today. Here's what I did. (Maybe I'll update the solution when I come up with something better.)
The solution is dumb but useful. I can't set an arbitrary space between the lines now, because I used \newline.
---
title: "\\huge My Smart Title"
author: "\\newline \\Large My Smart Author"
date: "\\newline \\Large 2018-12-25"
output:
pdf_document:
includes:
in_header: preamble.tex
latex_engine: xelatex
---
Below are the outputs before and after the solution.
BEFORE:
AFTER:
Note:
You may be confused about the different sizes of the "author" and the "date" in the two pictures above, if you don't know that the fontsize of the "author" and the "date" is \large instead of \Large by default.
END
I'm currently preparing a presentation in RStudio (using RMarkdown and Knitr, outputting to a Beamer presentation) that has quite a few references.
I'm using a pretty typical YAML header:
---
title: "Title"
author: "Me"
date: "February 27th, 2016"
output:
beamer_presentation
csl: ../../apa.csl
bibliography: ../../RefenceDesk.bib
---
This presentation compiles and the references appear as they should, but unfortunately they all appear on one slide (and actually run off the page). Is there any way to have the references appear on multiple slides?
{.allowframebreaks} is the solution for multislides bibliographies in beamer. It works out of the box with regular pandoc templates (see my previous answer). However, knitr has a setting that prevents it, by redefining \widowpenalties in its beamer template. You can verify that if you examine the .tex file with keep_tex: true.
In my opinion, this is a bug. A quick fix would be to reset \widowpenalties to its default value. It can be done in your yaml front matter:
---
title: Title
header-includes:
- \widowpenalties 1 150
output:
beamer_presentation
---
Then, you can indicate the reference section as such:
## References {.allowframebreaks}
As #David above said in the comments:
For me it didnt work with ## References {.allowframebreaks} but it worked out with # References {.allowframebreaks}.
I would like to point out that, apparently for the reference slide to work you have to create a last slide with the same heading level es set by slide_level: __ at the YAML section.
So, the user should set one of the following:
# References {.allowframebreaks}. for those using slide_level: 1, OR
## References {.allowframebreaks}. for those using slide_level: 2, OR
### References {.allowframebreaks}. for those using slide_level: 3 and so on...
While this goes outside of using the regular pandoc citation template, I have found another approach that can be used to put the references across slides but it relies on the natbib citation package.
In the YAML front matter, I added:
---
title: "Title"
output:
beamer_presentation:
citation_package: natbib
bibliography: ../../RefenceDesk.bib
biblio-style: "apalike"
---
The reference slide does not get a title and I cannot seem to adjust the font size (by using a \scriptsize at the end of the .Rmd file), but at least they appear coherently.
EDIT: For parsimony, I removed the csl: ../../apa.csl line, since natbib does not require it.
I am attempting to create an rmarkdown document. I have finally figured out a way to approach this, although it has taken quite some time. The last thing I would like to be able to do is to add an image to the title page of my pdf document.
The trouble I have is that my title page is defined by the top section of YAML. Below is the contents of my example.Rmd file. I use the Knit PDF button in RStudio to turn it into a PDF.
---
title: "This is a my document"
author: "Prepared by: Dan Wilson"
date: '`r paste("Date:",Sys.Date())`'
mainfont: Roboto Light
fontsize: 12pt
documentclass: report
output:
pdf_document:
latex_engine: xelatex
highlight: tango
---
This is an R Markdown document. Markdown is a simple formatting syntax for authoring HTML, PDF, and MS Word documents. For more details on using R Markdown see <http://rmarkdown.rstudio.com>.
When you click the **Knit** button a document will be generated that includes both content as well as the output of any embedded R code chunks within the document. You can embed an R code chunk like this:
```{r}
summary(cars)
```
You can also embed plots, for example:
```{r, echo=FALSE}
plot(cars)
```
Note that the `echo = FALSE` parameter was added to the code chunk to prevent printing of the R code that generated the plot.
If anyone has some tips that would allow me to put an image (logo.png) above my title that would be great.
Based on the previous solution, the following code does not require an auxiliary header.tex file. All contents are contained in the .Rmd file. The LaTeX commands are instead defined in a header-includes block in the YAML header. More info can be found here.
Replace my_graphic.png below with your local graphic file.
---
title: "A title page image should be above me"
header-includes:
- \usepackage{titling}
- \pretitle{\begin{center}\LARGE\includegraphics[width=12cm]{my_graphic.png}\\[\bigskipamount]}
- \posttitle{\end{center}}
output:
pdf_document:
toc: true
---
\newpage
# Section 1
Some text.
I was able to solve this using LaTeX package titling
---
title: "Untitled"
author: "Name"
date: "September 19, 2015"
output:
pdf_document:
includes:
in_header: header.tex
---
This is an R Markdown document. Markdown is a simple formatting syntax for authoring HTML, PDF, and MS Word documents. For more details on using R Markdown see <http://rmarkdown.rstudio.com>.
When you click the **Knit** button a document will be generated that includes both content as well as the output of any embedded R code chunks within the document. You can embed an R code chunk like this:
```{r}
summary(cars)
```
You can also embed plots, for example:
```{r, echo=FALSE}
plot(cars)
```
Note that the `echo = FALSE` parameter was added to the code chunk to prevent printing of the R code that generated the plot.
Where the header.tex should include the following code:
\usepackage{titling}
\pretitle{%
\begin{center}
\LARGE
\includegraphics[width=4cm,height=6cm]{logo.png}\\[\bigskipamount]
}
\posttitle{\end{center}}
and replace logo.png with the image you would like to use and make sure the file is in the root directory of your Rmd file. You can change image width and height to your needs. For more information on available options go to titling
For a beamer presentation you can do it like this:
title: "Title"
subtitle: "Subtitle"
author: "author"
date: "date"
header-includes:
- \titlegraphic{\centering \includegraphics[width=12cm]{titlepic.png}}
output:
beamer_presentation:
latex_engine: xelatex
theme: "metropolis"
highlight: "espresso"
classoption: "aspectratio=169"
The titlegraphic will be placed below your title text
For beamer presentation if you want an image at the bottom you can kind of cheat and add the image where the date line should be. Then if you want to insert date you can add institution (which is before date). the ![] should be tabbed (4 spaces from the far left of the page)
date: |
{width=3in}
I am using RStudio for writing markdown documents and want to add Table of Contents (TOC) at top of the documents so that the user could click the relevant section for reading. There were some relevant examples on rpubs but now I can't seem to find them. Please note that I don't use pandoc and am quite new to Rmd & knitr. Is there any way to add TOCs without using pandoc? If using pandoc is must then which functions are relevant?
EDIT
Here's a small sample page:
---
title: "Sample Document"
output:
html_document:
toc: true
theme: united
---
Header 1
---------------
This is an R Markdown document. Markdown is a simple formatting syntax for authoring HTML, PDF, and MS Word documents. For more details on using R Markdown see <http://rmarkdown.rstudio.com>.
## Header 2
When you click the **Knit** button a document will be generated that includes both content as well as the output of any embedded R code chunks within the document. You can embed an R code chunk like this:
```{r}
summary(cars)
```
You can also embed plots, for example:
```{r, echo=FALSE}
plot(cars)
```
### Header 3
Note that the `echo = FALSE` parameter was added to the code chunk to prevent printing of the R code that generated the plot.
I tried running this in RStudio v 0.98.864 and it worked! but sadly it didn't work on 0.98.501 and 0.98.507. I am working on my thesis in 0.98.501 and after updating RStudio, some of my analyses didn't work. So, I reverted back to 0.98.501.
What should I do now? I really want TOCs but without harming the outputs of other analyses.
The syntax is
---
title: "Sample Document"
output:
html_document:
toc: true
theme: united
---
in the documentation. Make sure this is at the beginning of your document. Also make sure your document actually has headers otherwise R can't tell what you want in the table of contents.
Syntax with more options:
---
title: "Planets"
author: "Manoj Kumar"
date: "`r format(Sys.time(), '%B %d, %Y')`"
output:
html_document:
toc: true # table of content true
toc_depth: 3 # upto three depths of headings (specified by #, ## and ###)
number_sections: true ## if you want number sections at each table header
theme: united # many options for theme, this one is my favorite.
highlight: tango # specifies the syntax highlighting style
css: my.css # you can add your custom css, should be in same folder
---
If you are using pdf_document, you might want to add table of contents in a new page, which toc: true does not allow. It puts the table of contents right after the document title, author and date--because it is in yaml.
If you want to have it in a new page, you have to use some latex language. Here is what I did.
---
title: \vspace{3.5in}"Title"
author: "Name"
date: "`r Sys.Date()`"
output:
pdf_document:
fig_caption: true
number_sections: true
---
\newpage # adds new page after title
\tableofcontents # adds table of contents
\listoffigures
\listoftables
\newpage
So, after yaml (the chunk between ---), I added a new page using \newpage, then a table of contents using \tableofcontents, a list of figures using \listoffigures, a list of tables \listoftables, and a new page before everything else.
Note, \vspace{3in} in the title adds vertical space of 3 inch from the top before printing yaml (title, etc.).
Read more here: https://www.sharelatex.com/learn/Table_of_contents