Running RStudio in MAC (not server) and would like to know where to locate the Rprofile.site file in my working directory. Yes I have read ?Startup and I know exactly what I want to do with it (provided I find the file first) and yes I know where my getwd() is.
I have also gone through a bunch of posts in SO already which vaguely touch on/ answer this. Surely this will keep coming up so I will ask the question: Is there a literal file we can open and update with all the great start up code that has been shared and if so, where is it located in a MAC directory OR is there something more to it as I cannot locate this file.
1 answer I found mentions to create a text file then use terminal to copy visible contents of text file to invisible Rprofile? INVISIBLE??
Rprofile.site and .Rprofile are different files. Only files with a lead "." are treated as invisible by the Mac Finder. You didn't specify which OSX version you're using. If it's pre-Mountain Lion, you can IIRC use System Preferences to choose to display invisible files in Finder windows. Apparently it's more difficult in MountainLion. There are third-party tools like Onyx which allow you do set invisibility as well.
Given all that, I recommend you check the FAQ and forums at RStudio for specific info on where RStudio's installation expects to see these files.
Related
I tried to download the latest version (4.2.0) of R on my windows computer and received this error message upon trying to open the program. "Fatal error: 'R_TempDir' contains space". Has anyone ever had this issue or have any ideas on how to resolve it? I have tried reinstalling the program and moving where the program is stored but no luck.
I also experienced this issue with 4.2.0 of R on Windows 10 but not prior versions of R.
In my case, the reason was the default temporary file folder was within my user directory and my user ID has a space in it. Apparently this causes an issue.
I was able to work around it by setting the global environment variable TMPDIR in windows:
Go to the search box next to the start button and type "environment"
Click on the choice which says "Edit the system environment variables"
Click the button that says "Environment Variables" near the bottom of the window
Click "New" and enter TMPDIR for variable name and some suitable directory without spaces under variable value (I chose C:\Temp)
As an aside, I do not believe this is an RStudio specific issue (and 4.2.0 isn't a version for RStudio anyway).
Thank you Venk for your post. It didn't work for me, but it pointed me in the direction of a solution that did.
I changed the values of my TEMP and TMP variables to a folder that had no spaces in it or in any folder name in the path (as you note).
I'm working on a Windows 10 machine.
Rob
P.S. My first solution was to revert to an earlier version of R, which initially worked. Recently though, I got the same error, even using a previous version. I'm no expert, but the whole thing is very weird IMO.
Had the same issue, and the other proposed solutions didn't resolve it for me. (R 4.2.2 and Windows 10.)
Solution found here worked for me:
create a file named renviron.site that contains the following text, and save it to the Desktop, using a text-editing program.
TMP=C:/Temp TEMP=C:/Temp TMPDIR=C:/Temp
if a copy already exists, may need to handle that case-by-case
move the file to C:\Program Files\R\R-4.2.x\etc
I wasn't able to save directly to this folder, despite being in the admin account.
I tried the other solutions and none worked. I came across this post that suggested to not install R in the /Program Files/ folder, to instead modify the installation to the folder C:\R\ which worked.
I didn't go back and undo the work done based on previous suggestions, so I'm not sure if they too are needed.
I have recently started using R for uni. I want to save my code using either save as or ctrl+s. However, the saved file is empty more often than not. For some reason, the files save normally on a few occasions. However, they also became empty after saving changes to the script.
I couldn't find any solution for the problem, neither here nor anywhere else.
I am using RStudio installed via Anaconda on an Windows 10 x64 Notebook, if that helps.
Thanks a lot for the responses! I'd be glad to provide more details if needed!
This is what the saved files look like from File Explorer:
I just meet the exactly same problem. I solved it by checking and changing RStudio -> File -> "Save as Encoding" from "ISO-8859-1 (System default)" to "UTF-8", then the file was saved. I'm trying to recover my previous 0kb files...
i couldn't reproduce the error but i also don't like to use the anaconda environment.
if the problem is saving the text file than may i suggest to do just that and save the code in a regular .txt file?
if this is not an option you can try to find out what happens if you save the r studio code on a different drive (or usb/flash drive)
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EDIT 14.07.2022
Interestingly enough, just today (14.07.2022) I had the same problem. After installing R 4.2.1 everything worked fine until I changed the encoding (from utf-8 to windows 1252), at which point all the files in my project were overwritten and are now empty. Changing back to an older version of R (4.1.3) allowed me to display/save/use all scripts again (from backups).
Using the answer provided by #Shidan it is possible to open the data in R-4.2.1 as well.
This problem does not seem to be connected to Anaconda but an encoding issue between Rstudio and any R distribution above (and including) 4.2.
In addition to the .Rhistory file,
RStudio maintains a database of all commands which you have ever entered into the Console. You can browse and search this database using the History pane. (source)
This one appears to still be searchable even when .Rhistory has been deleted.
How can I empty it? Cleaning it up might be necessary after, for example, installing from a private repo using a password, when I know other users have access to the computer. For example, I was a bit anxious seeing this popping up, after entering pass into the search field... (ﾉﾟ0ﾟ)ﾉ~
Thanks to Phann's hint, I found:
Deleting history_database seems to do the job. An empty database file is automatically recreated when starting RStudio again (tested on MacOS and Linux). The folder where to find history_database depends on your os and is described for the more general case here.
MacOS and Linux
~/.rstudio-desktop
Windows Vista, 7 and 8
%localappdata%\RStudio-Desktop # (i.e. Phann's path, I guess)
Windows XP
%USERPROFILE%\Local Settings\Application Data\RStudio-Desktop
Linux RStudio-Server
~/.rstudio
On my Win7 system, I found the file history_database within C:/Users/../AppData/Local/RStudio-Desktop. It has a unix-like time stamp per line followed by a command.
I would guess that if you empty this file, the history is cleared. But I haven't tried the solution yet, so better make a copy of the file to be on the save side.
The file should be in a similar folder in Win10.
I had a R script open in RStudio. The file was saved many times over the course of several weeks and worked perfectly fine when RStudio was opened and closed. However, today, I restarted my computer and when I opened RStudio and more specifically the script that I mentioned, all of the R code vanished, leaving a single long row of "....." with red highlighting.
When I tried to open the R file in other text processors such as Sublime Text and Notepad++, only a line of zeroes was visible. None of my other R files were affected. I'm currently running Windows 8.1 and have the latest version of R and RStudio. What can I do to recover the code in the file and prevent something like this from happening again?
It might be an old thread and it might have been covered in 'user4458796' answer in suggestion #1 ("Use the history..."), but:
My friend had the same problem and we managed to recover the code from a 'history_database' files located on Windows at:
'C:\Users\%user%\AppData\Local\RStudio-Desktop\'
I assume there is an equivalent location in Linux in general.
Hopefully I won't get downvoted, just sharing my 2cents.
Ben.
It's not clear what happened to corrupt your file (and thus how to fix it if possible) and it is kind of ominous that you're just seeing 0's in other text editors, but I'll give you my best suggestion and some tips.
Suggestions for Attempting Recovery
Since your other R files were unaffected, you should have a messy record of your code in the history. Use the history to reconstruct your code.
Access a copy of your file from any version control, cloud, or offline backup you may have used -- git, SVN, iCloud, SugarSync, Dropbox, etc (I realize you probably wouldn't have posted this question if that were an option, but I had to throw it out there).
Use a Hex or sector editor to try to recover the data.
Use a data recover program to find an old version of your file.
Inspect your trash or recycling bin to see if it has an old version. Depending on your OS and the settings of how you (insecurely or securely) delete files, then you may be able to undelete a deleted version, even if it's not immediately available.
Try different methods of recovering text data from corrupted text files like OpenOffice's and Microsoft's suggestions.
Tips for the Future
I know that hindsight is 20/20, but a few quick tips for good measure:
Use version control. Git is supported in RStudio's GUI interface.
Have more than one version of your file. Many professors and professionals recommend writing/storing code in a text editor and using your IDE only for the working copy.
Make backups. Distinct from #2, you should backup your files to a hard drive, flash drive, or cloud service like Dropbox or Spideroak.
I found this site which details iCloud a bit more, on it, it talks about .CDT files and how they can be 'unzipped' and read as a .plist. As I am having issues with iCloud I thought I could at least see what was in them and see what exactly is being uploaded.
However, when right-clicking on the .CDT files there is no option to unzip them, nor do they open in Xcode.
Thanks for any replies!
They're zip files all right, but the cdt extension makes Mac OS X think they're something else. You can either
Copy them somewhere and change the "cdt" extension to "zip", or
Unzip them at the command line, using "unzip".
They contain a binary property list file named "contents".