I am using an Rstudio Server (0.98.490) on a CentOS machine, that uses the default installation in the machine which is an older version of R. I also have a newer version of R compiled elsewhere in the system. Can I, as a non-root user, tell Rstudio to use the new installation instead of the old one when I start a session?
I'm not sure if there are any peculiarities for CentOS, but I believe you should be able to change your ~/.profile or ~/.bash_profile file to include the following line: export RSTUDIO_WHICH_R=/path/to/desired/compiled/R.
You can see which version of R RStudio is currently running by entering which R into a terminal. the export command listed above should change it to your desired build.
These links might help:
https://support.rstudio.com/hc/en-us/articles/200486138-Using-Different-Versions-of-R
Running newer version of R from terminal when older version is invoked by default
Hope this helps
The first answer was relevant RStudio, not rstudio-server as the question asks. The question is addressed in the section "RStudio Desktop and RStudio Server Open-Source".
However, adding a line like export RSTUDIO_WHICH_R=/usr/local/bin/R to my ~/.profile and ~/.bash_profile does not actually seem to affect rstudio-server for me. So I am giving up for now. The Pro version seems to have other options, as listed here.
Starting in RStudio Server 1.3 (newest version is 1.4.1106, released February 22, 2021), a user’s preferred version of R can be specified in the rstudio-prefs.json file in the global-level /etc/rstudio folder or in the user-level ~/.config/rstudio folder.
See https://blog.rstudio.com/2020/02/18/rstudio-1-3-preview-configuration/ and https://docs.rstudio.com/ide/server-pro/session-user-settings.html for user setting options in newer versions of RStudio Server.
See https://support.rstudio.com/hc/en-us/articles/200716783-RStudio-Release-History for RStudio release history and https://www.rstudio.com/products/rstudio/download-server/redhat-centos/ for Red Hat downloads of the newest version of RStudio Server.
Related
I'm an Ubuntu user and I used to work with the standard version of Rstudio on my computer. After reading about the server version I installed it on my PC and I'm working with it now. Although I'm very happy with rstudio-server version, I have been facing some difficulties to keep with some old practices. Particularly, I use to launch, open and create new files from the terminal using rstudio keyword - I'm specially fond to the possibility of open files in current rstudio session through the terminal window within rstudio. However, I cannot figure out which command is equivalent in rstudio-server.
I tried, without success, the following commands:
rstudio-server
and
r-server
Interestingly, when I type which rstudio (to find the path of the program's binary files), the terminal did not return any results. The program is installed and working normally, but I just can't find it on my PC
Any help will be appreciated
I have downloaded and installed R.
I see it here in Applications folder (I am on a Mac with Yosemite):
Fine. I can launch R.app and indeed, yes, I am running the version I want, which is 3.2.2:
So far so good. I can even open up RStudio and see that I am indeed running 3.2.2!
So after all this, I simply go to my terminal, type
r
and turns out I am running 3.1.1!
I understand the old user of my work computer probably had installed this older version.
So here's what I'm wondering:
If I just installed R.app correctly, WHY is this old version still living on my computer, and how do I get rid of it?
If this is some sort of $PATH thing, WHY doesn't the most obvious location for an app, the Applications folder, get checked for the existence of R?
Thanks.
UPDATE
Turns out the old version of R has been installed by homebrew.
Typing which r in your terminal will give you where the shell thinks R is. Then, you need only uninstall it from that location.
Since we've determined it's homebrew, all you need to do now is brew unlink r; rm -Rf /usr/local/Cellar/r/3.1.1 and you should be golden after you rehash in your shell.
It worked because you installed it using homebrew. To remove it from the system, you must first unlink it and then remove it from the system.
I attempted to update R on Ubuntu by adding the line
deb http://cran.cnr.berkeley.edu/bin/linux/ubuntu/ raring/
To my sources.list file in /etc/apt
However, this is path is not found, since the code 'raring' version of Ubuntu isn't listed as an option on the R updates for ubuntu page http://cran.cnr.berkeley.edu/bin/linux/ubuntu/
(my choices being lucid, precise, quantal, etc).
Which /bin/linux/ubuntu directory could I use for this update on the 'raring' version?
RAndFriends, which includes all the items needed to run RExcel, includes just R 2.15.2.
I am currently using the latest version of R but rcom 2.3.1 and rscproxy 2.0.5, which I am currently using, do not allow me to start an R server within Excel.
Setting foreground R server whithin Excel returns a fatal error and R rejects any connection with Excel via rcom.
I get two error messages:
R Server not available
There seems to be no R process connected to Excel
The main difference with a running RExcel session is that in the latter you may see rscproxy and rcom to be loaded when you start a RExcel session.
Is there anyone who is currently using RExcel with R 3.0.1 who can explain me how he succeeded in running it (step by step)?
Found it on statconn's Wiki section.
Assuming you have a suitable version of R installed, the following steps are necessary to install RExcel and the infrastructure. You need to be logged into Windows with administrator privileges to do this!
You also need to follow these instructions if you upgrade R, i.e. you install a new release of R after you have installed RExcel.
Download the statconn DCOM server and execute the program you downloaded.
Start R as administrator (on Windows 7 you need to right-click the R icon and click the corresponding item).
In R, run the following commands (you must start R as administrator to do this).
Commands:
install.packages(c("rscproxy", "rcom"), repos = "http://rcom.univie.ac.at/download", lib = .Library)
library(rcom)
comRegisterRegistry()
Now you have rcom installed, but RExcel is not installed yet.
To install RExcel: download the RExcel installer and run this installation program. Installing RExcel this way will set the background server of R as the default R server for RExcel. You can change this in the configuration settings in R. If you want to set the foreground server as the default site wide server, there is an appropriate option in one of the dialogs of the installation.
The RExcel installer modifies one of the configuration files of R, the file Rprofile.site, usually found at a location like C:\Program Files\R\R-2.13.1\etc\Rprofile.site.
If you do not install RExcel and want the package rcom to be loaded into R each time you start it, you have to add the line
library(rcom)
to Rprofile.site. You have to start your editor as administrator to be able to modify this file.
I thint that focus of those instuctions are on "Assuming you have a suitable version of R installed". R 3.0.1 do not work with RExcel.
I have noticed all development of Rmetrics products have ceased development since Diethelm Wuertz untimely passing, some of his associates on the team maintain it, but further development stopped abruptly after Diethelm Wuertz the project leader and main inspiration behind the team, died in a car accident in 2015, that is how long it has been since any serious development has occurred on Rexcel and all the range of Rmetric products, it is a real tragedy they are still cutting edge 6 years after Diethelm's passing, he would be sad to see his legacy slowly die. I am looking at xlwings and converting not too difficult code to python for speed and power, as far as many great R libraries go, I have not the time to reinvent the wheel within python, it is not a labour of love for me.
I'm trying to get R to recognize that I have installed Rtools.exe. I've tried installing it in several different locations. However, whenever I restart R and load devtools I get the same error:
> library(devtools)
WARNING: Rtools is required to build R packages, but is not currently installed.
Please download and install Rtools 3.0 from http://cran.r-project.org/bin/windows
/Rtools/ and then run find_rtools().
Naturally, whenever I try the function find_rtools() I get the same error message. I'm done trying to figure this out with help files, as the devtools help doesn't offer much. I've tried installing in several of the locations returned by get_path() but the problem persists.
FYI, currently my R is installed at D:/R.
Has anyone else had this problem, and more importantly, can anyone help me?
I'm sorry if this is a duplicate, and I've tried to include as many relevant details as possible so if you need any clarification please let me know.
Thanks,
Nick
Grab the batch file Rpathset.bat from batchfiles, edit the SET statements in it appropriately and then run R like this from the Windows console:
Rpathset
Rgui
I ran into this issue running a Windows 7 machine without admin rights. I leveraged G. Grothendieck's response, with a few additional steps.
Get Rpathset.bat from https://code.google.com/p/batchfiles/
Edit the Set statements in Rpathset.bat to your paths
Run CMD and change directories to where Rpathset.bat is stored
In the command prompt, run rpathset.bat > mypath.txt
Open mypath.txt with a text editor
Click Windows Start and search for environment
Click Edit environment variables for your account
Click path and then edit
Copy and paste the entire path from mypath.txt into the Windows path (everything after the path statement)
Restart RStudio and check that devtools::find_rtools() is TRUE
This file rtools.r contains the code for find_rtools(). It looks like it is trying to find ls and gcc in your system path (and then does some more checks based on the version) and if that fails it tries to look up SOFTWARE\R-core\Rtools in the the Windows registry.
As Thomas mentioned here, "Rtools is not a package." This is what I did to install Rtools. My RStudio is running R version 3.1.3. So I downloaded Rtools31.exe from https://cran.r-project.org/bin/windows/Rtools/. I executed the exe file, selected all the default options in the Setup Wizard and installed. (I had admin privilege on the computer I was using but I am not sure if that makes any difference.) To check that it was properly installed, you can enter find_rtools() in the R prompt which should return TRUE if Rtools installed properly.
For R 3.0, you probably just need to download Rtools30.exe and follow the same steps above.
I ran into this problem trying to install Rtools33 to use Hadley Wickham's lineprof package. I got that error multiple times. I'm running Windows 7 on a laptop.
I was able to fix the problem by running the Rtools installation file as the windows Admin (i.e. right-click the Rtools33.exe and choose "Run as administrator")
I also made sure to point the path to the R source directory, which I kept in C:\Rtools\ (which contains C:\Rtools\bin\ and C:\Rtools\gcc-4.6.3\).
This solved the problem for me and I am now able to install lineprof from GitHub and make use of it.