I would like to hide an entire part of my document including the LaTeX parts between code chunks.
The code might look like
<<echo=FALSE, results=tex>>=
if (showpart) {
#
Here we have quite a lot of latex, { that is not necessarily well-formed \end{itemize}
<<echo=FALSE, results=tex>>=
}
#
I already tried to insert \begin{comment} and \end{comment} using the verbatim package, but this does not cope well with the bad formed latex.
Any suggestions?
Thanks for your help.
You may try something like if (showpart) cat('\\begin{comment}'), then if (showpart) cat('\\end{comment}'), with the option results=tex. The point is you have to output valid LaTeX code from R.
Related
I am working on a document about R software, which is currently stored in a Rnw file to eventually process it with Sweave. The document contains several R code chunks, of the usual form:
<<>>=
R Code
#
Next to some code lines, I would like to add specific comments, which I would like to be displayed like usual LaTeX text (so that they are easily recognizable as comments). Is there a way to display R code chunks and corresponding comments next to each other when using sweave or knitR?
Thank you for your help!
If you want the to be formatted like code (I assume that is what you mean) you can use the following code:
\begin{filecontents*}{my_r_code_test.r}
R code
#
|\includegraphics[width=0.5\textwidth]{example-image}|
\end{filecontents*}
\documentclass{article}
\usepackage{xcolor}
\usepackage{graphicx}
\usepackage{listings,mdframed}
\lstset{
language=R,
backgroundcolor=\color{black!5}, % set backgroundcolor
basicstyle=\footnotesize\ttfamily,% basic font setting
columns=fullflexible,
}
\begin{document}
\begin{mdframed}[backgroundcolor=black!5,linewidth=0pt,%
innerleftmargin=0pt,innertopmargin=0pt,innerbottommargin=0pt]
\lstinputlisting[escapeinside=||]{my_r_code_test.r}
\end{mdframed}
\end{document}
Which produces
at the top of the page.
Hope this helps!
I have a .Rpres file in RStudio. I would like to include code, but not have it run (I am only showing the code to explain how it works). Is it possible to accomplish this (and ensure that it will not produce errors, because it is not running)?
Have you tried eval=FALSE in the knitr code chunk options? e.g.:
```{r eval=FALSE}
print("Don't run me")
```
{r, eval=F, echo=T} will include the R source code in the output file while it is not evaluated
Posting for anyone who may come across this like I have. I've found that for small examples (if you don't want to use chunks), you can also just use back ticks like you would with regular markdown inline, but just don't add the "r" at the beginning:
`plot(cars)`
Will print the code itself, but will not print the plot.
In R, using knitr, is there a way to prevent line breaks in the HTML when results='hide' and echo=FALSE?
In this case:
First I do this,
```{r results='hide', echo=FALSE}
x=4;x
```
then I do that.
I get:
First I do this,
then I do that.
with both a break and an extra line between.
I'd like to get:
First I do this, then I do that.
instead.
Generally speaking, I'd like for code chunks to not insert new lines so that markdown is free to eat the one after the first line of text.
Thanks,
I assume you're creating an HTML document from an R Markdown document. In that case, you can use the inline R code capability offered by knitr by using the ` characters starting with the letter r.
Example:
In your R Markdown, write:
First I do this,`r x=4` then I do that. I can call x by doing `r x`.
And as output, you get:
First I do this, then I do that. I can call x by doing 4.
Note that in my example, I evaluated the variable x, but if you do not want to evaluate it, you do not have to. The variable x should still be assigned a value of 4 from the
`r x=4`
part of the R Markdown.
This is Inline R Code, and is documented here under the section "Inline R Code".
EDIT:
Note that Inline R Code has properties that are analogous to "echo=FALSE". And if you want to hide the results from inline R code, you can use base R functions to hide the output. See this question.
Try something like:
``` {r , results="asis", echo=F, eval=T}
if(showMe){
cat("printed")
} else {
cat("<!-- no break line -->")
}
```
Before you say use search, I did, I read this answer, I tried it and it does not help, I assume it might be because of including it from another file. (not sure..)
I have a Sweave document I am writing using R studio. Running R code works perfectly, including other files works as well. Here are some examples of what the main file looks like:
\documentclass{report}
\begin{document}
\SweaveOpts{concordance=TRUE}
\maketitle
\tableofcontents
\input{tex/introduction}
\input{tex/methods}
\SweaveInput{tex/analysis}
\input{tex/conclusions}
\SweaveInput{tex/further}
\bibliographystyle{plain}
\bibliography{tex/literature}
\appendix
\input{tex/appendix}
\end{document}
Then in one of the .Rnw files referenced by \SweaveInput{} I use something like this:
\begin{figure}[h]
\label{fig1}
\caption{This is a caption!}
\centering
<<fig=TRUE, echo=FALSE>>=
...data and plotting...
#
\end{figure}
In figure \ref{fig1} we can see that there is...
and instead of a figure number I just get [??]
Do you maybe know why this is happening? and how can I fix it?
I looked at the knitr package as well but I don't know how to include an external file like in my example and I get other funny errors. Also, I don't know if it will work there. Basically I would have to do more research why my code doesn't work and I would just like to get the current code running.
Tnx.
label needs to come after caption. See for example, https://tex.stackexchange.com/q/23385
Sounds like it should be a common problem, but I didn't find an obvious trick.
Consider the knitr Rnw file below,
\documentclass[twocolumn, 12pt]{article}
\usepackage{graphicx}
\begin{document}
%\SweaveOpts{dev=pdf, fig.align=center}
\begin{figure*}
<<aaa, fig.width=8, fig.height=5, fig.show=hold>>=
plot(1,1)
#
\end{figure*}
\end{document}
I would like this wide figure to span two columns, using a {figure*} LaTeX environment. Is there a hook for that?
EDIT: wrapping the chunk in figure* gives the following output.
Two facts:
knitr makes everything accessible for you, so LaTeX tricks are often unnecessary;
there is a chunk hook with which you can wrap your chunk results;
A simple-minded solutions is:
knit_hooks$set(chunk = function(x, options) {
sprintf('\\begin{figure*}\n%s\n\\end{figure*}', x)
})
I leave the rest of work to you to take care of more details in options (e.g. when options$fig.keep == 'none', you should not wrap the output in figure*). You may want to see how the default chunk hook for LaTeX is defined in knitr to know better how the chunk hook works.
However, in this case, I tend to write the LaTeX code by myself in the document instead of automatically creating it. After you have got figure*, you may start to think about \caption{} and \label{} (not hard, but I still want to see them in LaTeX).
Not sure about how knitr but for Sweave (and basic latex) there is in fact a trick: have the R code produce a pdf file, and then use standard \includegraphics to pull it in.
So with this:
\documentclass[twocolumn, 12pt]{article}
\usepackage{graphicx}
\begin{document}
%\SweaveOpts{dev=pdf}
<<aaa,fig=FALSE,print=FALSE,echo=FALSE>>=
pdf("mychart.pdf", width=6, height=3)
set.seed(42)
plot(cumsum(rnorm(100)), type='l', main="yet another random walk")
invisible(dev.off())
#
\begin{figure*}
\includegraphics{mychart.pdf}
\end{figure*}
\end{document}
I got the document below (which I then converted from pdf to png):
I also had a similar problem while preparing a figure that should span two columns in a IEEE two-column conference paper.
Setting the chunk hook caused some strange error in my setup.
Even this simple hook: knit_hooks$set(chunk = function(x, options) x)
But after looking into knitr::opts_chunk$get(), I realized that simply setting fig.env="figure*" solves the problem in an elegant way.
Here is how my chunk looks like in an Rnw file:
<<fig1, fig.width=18, fig.height=6, fig.env="figure*">>=
#