I am working in team, we mainly use R, I am quite used to use R project in Rstudio, which I like because when I open them I have all my scripts and everything at the right place. However when another member of the team opens one of my project it loads the values and data but does not open the R script (one can see that by physically clicking on the project through the windows explorer rather than using the menu at the top right in R). I guess something can be done in the .Rprofile but I did not find any command to open physically a script, I tried
file.edit("./Main.R")
but it did not open anything. It just got me the message :
Error: could not find function "file.edit"
As always,
Thanks for your help !
**EDIT
I tried to use
file.show
file.edit
shell.exec(file.path(getwd()), "Main.R"))
in the .Rprofile. Nothing worked.
Romain
You can use the following code in the .Rprofile file.
setHook("rstudio.sessionInit", function(newSession) {
if (newSession)
rstudioapi::navigateToFile('<file name>', line = -1L, column = -1L)
}, action = "append")
The rstudioapi library has the function navigateToFile to open a file in Rstudio. The problem is that the code in the .Rprofile runs before Rstudio initialization. To deal with this problem you can use the setHook function (from base package) to make the code execute after the Rstudio initialization.
file.edit requires the utils package
library(utils)
file.edit("Master.R")
However, if it opens in Notepad rather than RStudio you have the same problem as me. I've tried editing the editor= in all possible places: .RProfile, RProfile, RProfile.sites, with and without .First() function statements and calls. However, RStudio does not load the .R file in RStudio if told to. It may be linked to the .RData file being loaded after .RProfile. Bug? Or at least a feature RStudio should incorporate in their RProject file specification.
Related
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.
Update
Issue resolved
Update, still not working
Tried the following in R file
(1) deleted both library(...) packages
(2) Added #import jpeg before ShowPalettePhoto() and #import tidyverse before RanglaPunjab() so roxygen automatically adds to NAMESPACE.
After running devtools::document(), ran devtools::use_package("jpeg") and devtools::use_package("tidyverse") to automatically add to DESCRIPTION.
Unfortunately, even in testing, I cannot get JPEG photo.
Here is GitHub repository, https://github.com/ArtieLadie/RanglaPunjab
I created R package according to this tutorial
It worked and I was able to execute all commands, including a function to display photo in another directory.
I uploaded to my GitHub account. Anyone can install package in R environment with install_github("ArtieLadie/RanglaPunjab")
I am able to run functions by adding RanglaPunjab:: in front of it, i.e.
RanglaPunjab::PaintPalette("Jutti")
?RanglaPunjab::MergePalette
However, when I try to run ?RanglaPunjab::ShowPalettePhoto("Teej") I get
Error in readJPEG(x, native = TRUE) : could not find function "readJPEG"
Before creating the package I added function to set working directory to file location, but it was creating errors when I ran install("RanglaPunjab"), i.e. "Cannot execute"
Here are the exact commands I had, which I had to delete from code
library(rstudioapi)
current_path <- getActiveDocumentContext()$path
setwd(dirname(current_path ))
Please help
Your dependencies are not handled correctly. Here you explicitly load packages with library(...). That is not how one does that in an R package. You should add your dependencies to the Imports: section of the DESCRIPTION file and use the package::function() syntax when calling the function. c.f. http://r-pkgs.had.co.nz/description.html#dependencies.
In addition, if you want the images to be installed with your package, you should place them for example in inst/pics. You can then get the path to these files with
system.file("pics", <file-name>, package = "RanglaPunjab")
What command line option to use behind Rgui.exe for immediately sourcing an R source file? Instead of having to type source("c:\MyGreatSource.R") manually afterwards. Something like:
Rgui.exe --source "c:\MyGreatSource.R"
Sounds like a simple question answered in any beginner's manual, but I couldn't find such an option anywhere.
I found a workable solution, maybe others are interested. Again, what I like to do is to start the Rgui and work there. All my work environment and functions are defined in an R source file, which I constantly develop further during working. So each of my commands in the GUI starts with Load1(); where Load1 is a function which simply sources my R file, to update the changes I have just made. Obviously, Load1 is also defined in my R file, so I need to get it in the first place, without much effort. I have set the command-line options for neither loading nor saving the workplace; I don't like my old mess from the previous session with test variables and so.
However, my solution now is to just create a workplace RData file which only contains the definition of my Load1 function. This workplace file is easily loaded at every start by just adding its path into the command-line options "D:\MyLoad1.RData"
I use a AutoHotkey Script
run,C:\Program Files\R\R-3.3.3\bin\x64\Rgui.exe
WinWait,RGui (64-bit)
WinWaitActive,RGui (64-bit)
Sleep 100
Send,source("%1%")
Send,{enter}
I used to have it set up that R commander plug-in would start up automatically every time I opened the R application, but I've upgraded R and can't remember how I did it.
Here is Scott Hyde's instructions for creating a shortcut to start R commander every time you start R.
Open up the C:\Program Files\R\R-2.10.1\etc (or similarly named version directory).
Edit the file Rprofile.site and add the following lines. The mylibs variable is a list of packages that you want starting up each time you run Rcmdr. Both lattice and MASS are depencies of Rcmdr and need to be loaded. If you load them this way, they are loaded SILENTLY!
defpack = getOption("defaultPackages")
mylibs = c("tcltk","car","lattice","MASS","Matrix")
if(Sys.getenv("RCMDR") == "TRUE") mylibs = c(mylibs,"Rcmdr")
options(defaultPackages = c(defpack,mylibs))
Next, copy the shortcut that is used to run R onto the Desktop. Right click on the file, and select properties Add the following to the end of the "Target:"
"C:\Program Files\R\R-2.10.1\bin\Rgui.exe" --sdi RCMDR=TRUE
Notice that the options are OUTSIDE of the quotation marks.
Change the name of the shortcut you just made to "Rcmdr"
Double click on it, and both R and Rcmdr start!
Recently started using R, and I was testing out the other solution given by #user123943, and it just couldn't seem to work out right. Thought maybe there'd be a simpler solution and tried it and it worked fine. All you need to do is:
Find the Rprofile.site file (it should be in an etc file somewhere inside your R program file) (e.g.: C:\Program Files\R\R-4.1.1\etc)
Edit the file (give yourself permissions to edit if required) by adding in library(Rcmdr) at the end of the file.
That's it! Quick and easy solution! If you decide to revert it back all you will need to do is remove the added code at the end of the Rprofile.site file :)
Of course, save the file before opening up R again!
I have an R-based GUI that allows some non-technical users access to a stats model. As it stands, the users have to first load R and then type loadGui() at the command line.
While this isn't overly challenging, I don't like having to make non-technical people type anything at a command line. I had the idea of writing a .bat file (users are all running Windows, though multi-platform solutions also appreciated) that starts R GUI, then autoruns that command.
My first problem is opening RGui from the command line. While I can provide an explicit path, such as
"%ProgramW6432%\R\R-2.15.1\bin\i386\Rgui.exe"
it will need updating each time R is upgraded. It would be better to retrieve the location of RGui from the %path% environment variable, but I don't know an easy way to parse that.
The second, larger problem is how to call commands for R on startup from the command line. My first thought is that I could take a copy of ~/.Rprofile, append the extra command, and then replace the original copy of the file once R is loaded. This is awfully messy though, so I'd like an alternative.
Running R in batch mode isn't an option, firstly since I can't persuade GUIs to display themselves, and secondly because I would like the R console available, even if the users shouldn't need to use it.
If you want a toy GUI to test your ideas, try this:
loadGui <- function()
{
library(gWidgetstclck)
win <- gwindow("test")
rad <- gradio(letters[1:3], cont = win)
}
Problem 1: I simply do not ever install in the suggested default directory on Windows, but rather group R and a few related things in, say, c:/opt/ where I install R itself in, say,c:/opt/R-current so that the path c:/opt/R-current/bin will remain constant. On upgrade, I first renamed to R-previous and then install into a new R-current.
Problem 2: I think I solved that many moons ago with scripts. You can now use Rscript.exe to launch these, and there are tcltk examples for waiting for a prompt.
I have done similar a couple of times. In my cases the client was using windows so I just installed R on their computer and created a shortcut on their desktop to run R. Then I right click on the shortcut and choose properties to get the propertiest dialog. I then changed the "Start in" folder to the one where I wanted it to run from (which had the .Rdata file with the correct data and either a .First function in the .Rdata file or .Rprofile in the folder). There is also a "Run:" option that has a "Minimized" option to run the main R window minimized.
I had created the functions that I wanted to run (usually a specialized gui using tcltk) and any needed data and saved them in the .Rdata file and also either created .First or .Rprofile to run the comnand that showed the gui. The user double clicks on the icon on the desktop and up pops my GUI that they can work with while ignoring the other parts.
Take a look at the ProjectTemplate library. It does what you want to do. It loads used libraries from a batch file an run R files automatically after loading as well as a lot of other usefull stuff as well...
Using the answer from https://stackoverflow.com/a/27350487/41338 and a comment from Richie Cotton above I have arrived at the following solution to keeping a script alive until a window is closed by checking if the pointer to the window is valid.
For a RGtk2 window created and shown using:
library(RGtk2)
mainWindow <- gtkWindow("toplevel", show = TRUE)
Create a function which checks if the pointer to it exists:
isnull <- function(pointer){
a <- attributes(pointer)
attributes(pointer) <- NULL
out <- identical(pointer, new("externalptr"))
attributes(pointer) <- a
return(out)
}
and at the end of your script:
while(!isnull(mainWindow)) Sys.sleep(1)