I would like to test code parts in my R Markdown code without leaving Sublime Text.
For instance:
Multiplying the grades with two solves the unreliability problem:
```{r}
chisq.test(2*grades)
```
In the above example, I would like to select the line that has the code "chisq.test(2*grades)", press my key combination, and have it ran in SublimeREPL as R code.
However, when I try this, I get the following error from SublimeREPL:
Cannot find REPL for 'HTML.markdown.rmarkdown'
When I change the syntax through view menu to "R" (rather than R Markdown), the code runs fine. This is a workaround though, and it is undesirable because it costs me R Markdown syntax highlighting.
I suspect the solution is simply copy-pasting a few lines of SublimeREPL package code and repurposing them for R Markdown, but I was unable to achieve any results yet. I'd appreciate any help.
From this answer :
Open the file SublimeREPL/config/R/Main.sublime-menu. Its default position depends on your system
Linux: ~/.config/sublime-text-3/Packages
Mac: ~/Library/Application Support/Sublime Text 3/Packages (untested)
Windows: %APPDATA%/Sublime Text 3/Packages (untested)
Add your scode to the option "additional_scopes":
"additional_scopes": ["HTML.markdown.rmarkdown","tex.latex.knitr"],
Save the file, close the REPL tab, restart sublime, and open a new REPL instance.
Related
In R Markdown if I have a chunk coded with the normal r chunk wrappers,
```{r}
[R code]
```
A play button will appear. However, when I run a chunk wrapped like so for other language engines:
```{python}
[python code]
```
or replacing python replaced with bash/sh, I don't get a play button on the right.
Is there a package I need to install? I restarted Rstudio, and even downloaded the Lesson 5: https://rmarkdown.rstudio.com/lesson-5.html , which even shows those play buttons, and I still don't get it. I am on a mac, and saw that someone on a Windows computer was able to see the play buttons.
I think you need to install the package "knitr". Try to check that first.
Second, you might need to state explitly where your interpreter for Python is, for instance. Use
{python, engine.path = '/usr/bin/python3'}
YOUR CODE
to see if it works.
ctrl+R no longer works for executing script lines.
This is not a hardware/keyboard problem.
I have also restarted my PC.
I have tried on a different PC.
I have recently switched from using R to using RStudio. I thought this may have something to do with it, so I opened and resaved the script in RStudio, to no effect.
Furthermore, I have created an R-Project folder and have copied the files, including the script in question, into it. Then I started R-Studio and opened the project.
I would like to post my sessionInfo(), but do not know how to do that without executing the command.
Keep in mind that I only use R for stats purposes. I don't know much about informatics or other types of programming etc., so please try to keep it simple for me. Thanks!
In addition to the solution offered above, in Rstudio, Ctrl + Enter does not work if the chunk is broken in .Rmd files.
For example, if you press CTRL + Enter on the following line (2+2), it won't work:
```{r}
2+2
``
The chunk should end three Backtick characters, not two.
The problem was that the script file (for some reason unkown to me) did not have the correct extension (.R). When I added that to the script file extension, it worked fine again.
I'm utilizing a Macbook pro running "El Capitan" and RStudio is version 0.99.902. I'm writing a Rmd document. I want to utilize the snippets that RStudio has built in and create my own also. By clicking Preference => Code; I can see that "Enable code snippets" is checked. However, while trying to utilize any snippet the completion is not performed. If I typed just r I should get this block of code, but nothing hapen
snippet r
```{r ${1:label}, ${2:options}}
${0}
```
I also create a simple snippet:
snippet dthen
%>%
None of the markdown snippet seems to work. Do I'm doing something wrong or any setting has to be done?
You can invoke code snippets in Markdown in RStudio using Shift+Tab after typing the snippet, but it will not currently prompt you to expand the snippet, either with Tab or by just waiting. I thought this was a bug, but the discussion in this GitHub issue says it's intended, just still-to-be-documented.
In Tools > Global Options > Code > Editing > Edit Snippets, go to the section "Markdown" and paste your snippet there. Save, OK, apply. Type r in your Rmd document (not within in a R code chunk) and click Shift+Tab. If it still does not work, try to create a new "R markdown" file (File > New file > R markdown) and check if it works there.
In R I always like to print out the script since it gives a good overview and one can adjust eventual errors. I like the syntax highlighting in R-Studio because it facilitates reading and fast comprehension of code.
Is there a way to print out the text with the highlighting I see in the editor?
Its not an R-Studio solution, but notepad++ will print R source with syntax highlighting.
RStudio will not print in colour, but it's easy to save the code as a PDF; in this case the syntax format is preserved. My favourite package is knitr.
library(knitr)
stitch("file_name.R")
The default output is PDF/Markup in .tex. If you prefer not to typeset, running the below will export as .html
stitch(script="file_name.R", system.file("misc", "knitr-template.Rhtml", package="knitr"))
Brief explanation
The reason this is an answer to this question in because of the last line of the question:
Is there a way to print out the text with the highlighting I see in
the editor?
so we are not limited to only and only using Rstudio software here.
After exploring the awesome answer by #rrg and realizing that it runs the code line by line, I wrote a comment below his answer and continued googling. My problem is that the code I wrote is so large and so time consuming to run that running it for the sake of having a syntax highlighted version is not feasible.
Most of the solution out there online involves having notepad++ which is a Windows application and I'm a dedicated Linux user, so I searched for a way I can do this in Linux (and possibly Mac)
The way I solved it:
Inspired by a blog post, I used the famous and beloved Vim to convert R to syntax highlighted HTML and then because you can open HTML in your browser, you can what ever you want with it (print, screenshot, etc.)
Activate synax highlighting in Vim:
open terminal
then open the vim config file by typing vim ~/.vimrc
press i from keyboard to go to "insert mode"
go to the end of the file using arrow keys on your keyboard
type syntax on at the end of the file
now you need to save and exit. For this you need to press Esc button from keyboard to come out of "insert mode" and then type :x and press Enter to save and close the file.
if you want to change the color scheme of the syntax highlighting, visit the bottom part of this website
From terminal open your file with Vim:
vim YOUR_FILE_PATH
Having you R code open in vim, you can turn on the line numbers if you like by pressing Esc and then write :set number and press Enter.
For converting R to HTML, press Esc to make sure you are not in "insert mode" and then type :TOhtml and press Enter. This will result is having a split window in terminal, half is your R code and the other half id your new HTML code.
For saving the files, type :x along with Enter button from keyboard twice to save both files (your R file will be unchanged if you have not typed anything extra in it and your HTML file will be created with the same name near your R code)
Now open it with your favorite browser (in my case Vivaldi) and do what ever you want (in my case converting the whole HTML into PNG)
Best way:
download https://github.com/jaredpetersen/codeprinter and paste in the r code. then choose syntax highlighting Xcode
For those using a Mac (and thus without access to Notepad++) cutting and pasting into Xcode and printing from there will also work.
As with Ron Jensen's earlier comment, this isn't an R Studio solution, but in the interests of "just getting it to work", I hope this helps someone.
I haven't been able to use the neater knitter package with the code chunks.
Basically there's only a few number of occasions in which it interprets them well, but for the most of it the chunks are not recognized as such. That is:
Running a markdown from RStudio only renders chunks before the file is saved. If the file has been saved, then it will show the code as is: no R output.
I also tried using knitr from within LyX, and this presented other problems. The simplest example knitr.lyx was rendered correctly as a pdf, but not html. Using more complicated documents, like the RJournal template showed other errors.
Rscript --verbose --no-save --no-restore
At first I thought it had to do with my Rstudio installation, but now I'm not so sure anymore.
By the way, I'm on Ubuntu 15.04 and the files that I'm using are examples from the documentation:
Rstudio > New File > Rmarkdown... renders R output only before it's saved.
knitr's manual in LyX from Github repo.
I found the answer for this.
It's very obvious and yet easy to overlook if you don't know it.
The problem was in saving the file with the wrong extension.
If you're using R code chunks you need .Rmd extension in Rstudio.
As I was starting with markdown I was using .md. Pfff.