I tried to install R Studio (version 1.1.456) using the anaconda navigator by simply clicking on the install button. It was taking more than an hour, so I just figured it should be stuck.
I then tried to install it through the anaconda prompt but now it has also been stuck for around 30 minutes here:
What can I do to get around this?
Thank you in advance!
For various reasons up-to-date RStudio versions are not availabe on any conda channel I know. #merv's answer is the easiest solution, if you are happy to work with an older version of rstudio. Here is another suggestion, where you install RStudio outside of conda, but configure it to use a particular R installation, which is maintained in your custom conda environment. Step by step, this is how you procede:
Install the latest RStudio from the official sources
Create your custom conda environment CUSTOMENV, including an installation of r-base
conda create -n CUSTOMENV -c conda-forge r-base'>=4.0.0' ... [further packages]
Activate the conda environment
conda activate CUSTOMENV
Start RStudio from console
rstudio &
Important Note: I strongly endorse #mfakaehler's answer since all RStudio builds on Conda have effectively been abandoned. Install RStudio natively and launch from activated environment.
Create a new env instead. E.g.,
conda create --name rstudio_env -c r rstudio
Best practice for Conda is to create new envs for each project rather than using a monolithic base env. Generally, I find that the less one installs in base the better their experience with Conda will be.
Related
I got my new computer (Mac Pro M1) lately but I am not quite familiar with the MacOS system...
I enjoy using VSCode so I configured it with R language. I created an virtual environment with commands:
conda create -n R python=3.8
conda activate R
conda install -c conda-forge r-base=4.1.2
conda install -c conda-forge r-languageserver
and configured everything following this website. Everything goes fine when I run R language except for installing R packages. Here is a screenshot of my problem.
I can only install packages on R.app:
Can anyone help me? Thanks so much in advance!!!
I really want to get everything ready for coding in R language with VSCode!!! How to solve it? It seems not a problem of permission?
Updated infomation here:
Below are some screenshots showing what are in my R conda environment:
Also, the paths of R and Radian are added to settings of VSCode:
I have installed Anaconda 3 for Mac M1 and I am trying to create a new environment for R. However, everytime I try to do this, I am faced with the below error:
Conda Prompt Error Message
I am faced with this error irrespective of whether I try to do this in anaconda navigator or conda prompt. I have already tried removing Anaconda completely and reinstalling it again but to no avail. Is there anything I can do here?
Update: As requested, here is an additional screenshot:
Mamba install r-eesentials
Mamba install r-essentials output
[Disclosure: I am a volunteer on the Conda Forge R team.]
Conda users who want to use R should prioritize Conda Forge. The Anaconda company has not actively maintained R packages since v3.6.
If installing Conda for the first time, I recommend Miniforge variants (specifically, Mambaforge), rather than the Anaconda distributions (which prioritize defaults/anaconda channel).
Also note that osx-arm64 support for R through Conda is currently sparse. We are actively working on migrating, but for simplicity of workflow, I still recommend Conda users to install a osx-64 version of Conda and use that platform when installing R. You can always create native osx-arm64 environments when you actually need them (e.g., native TensorFlow with Metal support).
i am trying to launch conda from the terminal on windows.
From the relevant folder ('Desktop > Course'), i installed the jupyter notebook ('pip install jupyter notebook') and 'nb_conda' ('conda install nb_conda'). Then i open the jupyter notebook by entering the command 'jupyter notebook'.
So far so good.
But when i go in the 'Conda' tab on the jupyter notebook, after 2 second i get the message ''EnvironmentLocationNotFound: Not a conda environment: Desktop > Course'
Why is that ?
It worked for me as well on Windows 10.
Some time ago, I installed Python. Later on, I installed Anaconda to run pandas_datareader, etc. It didn't work. Reinstallation didn't help, either. Then I cleaned all installation of Python and Anaconda and started from scratch.
I made a fresh new installation of Anaconda:
Then I ran the command line as admin
I proceed:
conda update conda
conda update anaconda-navigator
I went to "Environments" in the Anaconda Navigator
Then clicked on "Update Index" in the middle top
I waited for it to finish
Then, I went back to "Home" and launched the Jupyter
It seems like the environment was inconsistent, at least that was the message of conda update.
Not saying this is the right answer but this worked for me:
I went to "Environments" in the Anaconda Navigator
Then clicked on "Update Index" in the middle top
Waited for it to finish and went back to "Home"
Was able to launch Jupyter Notebook just fine.
There are two solutions-
1 - (not personally recommended) This is because you have probably not created the conda environment. For creating a new environment with all the dependencies look here- https://github.com/Anaconda-Platform/nb_conda
2 - (personally recommended) Install the complete anaconda distribution from here- https://github.com/Anaconda-Platform/nb_conda (check for windows and download for the python of your choice). After that either you can create a virtual environment and launch your jupyter from there or directly launch from the base environment. This will take care of all the dependencies and also it will help in all your future endeavors.
While following 2nd suggestion, make sure to uninstall all your previous python installations. Give it a fresh installation and while installation make sure to tick the box where it asks for adding conda to the system path.
Good Luck.
You could try using the command prompt from anaconda. This might solve your problem
I had the Not a conda environment error when re-installing conda while having the environment activated.
I've been trying to set up my R using conda (eventually to use with Beaker Notebook) and I want to be able to use RStudio with my conda-installed version of R.
My method of installing R:
conda install -c r r
conda install -c r r-essentials
conda install -c r r-rserve
conda install -c r r-devtools
conda install -c r r-rcurl
conda install -c r r-RJSONIO
conda install -c r r-jpeg
conda install -c r r-png
conda install -c r r-roxygen2
conda install --channel https://conda.anaconda.org/bioconda bioconductor-edger
I ran that version of R (I only installed this version)
> version
_
platform x86_64-apple-darwin11.0.0
arch x86_64
os darwin11.0.0
system x86_64, darwin11.0.0
status
major 3
minor 3.1
year 2016
month 06
day 21
svn rev 70800
language R
version.string R version 3.3.1 (2016-06-21)
nickname Bug in Your Hair
Running R in Jupyter is kind of buggy. For example, when it outputs errors, it outputs to stdout and splits every character in the string with a linebreak. I want to use RStudio but I don't want to install another version of R.
How can I route my conda version of R into RStudio?
Here's my .bash_profile not sure if this will be useful:
$ cat ~/.bash_profile
# added by Anaconda3 4.0.0 installer
export PATH="/Users/jespinoz/anaconda/bin:$PATH"
export RSTUDIO_WHICH_R=/Users/jespinoz/anaconda/bin/R
I've been trying to follow these tutorials but I am lost. I'm really not too familiar with environment variables and such things.
(1) https://support.rstudio.com/hc/en-us/community/posts/207830688-Using-RStudio-with-conda
(2) Launch mac eclipse with environment variables set
when I looked for my R it directed me to:
$ which R
/Users/jespinoz/anaconda/bin/R
but the directions from (1) is using this path which is very confusing:
/Users/jespinoz/anaconda/lib/R/bin/R
I tried doing what this guy did and added this to my .bash_profile but it didn't work. I even made a .bashrc but it still didn't work (I sourced both after I added the lines)
export RSTUDIO_WHICH_R=/Users/jespinoz/anaconda/bin/R
How to tell RStudio to use R version from Anaconda
Unfortunately, anaconda has no tutorial for this in https://docs.continuum.io/anaconda/ide_integration
See https://anaconda.org/r/rstudio:
$ conda install -c r rstudio
Then from command line:
$ rstudio
(It is how I installed it and it works.)
So long as which R shows up a working R interpreter (which it should do if you have installed the r package from conda and activated your environment) then launching rstudio from that same environment should pick it up just fine.
For a test, on ArchLinux, I built and installed: https://aur.archlinux.org/packages/rstudio-desktop-git/
.. then force removed the R interpreter (pacman -Rdd r), then installed r from conda (conda install -c r r) and it worked fine. I then closed my terminal and opened a new one (so that the correct conda environment was not activated and successfully launched RStudio with the following command: RSTUDIO_WHICH_R=/home/ray/r_3_3_1-x64-3.5/bin/R rstudio
I think the crux is to launch RStudio from the right environment? Your ~/.bash_profile and ~/.bashrc are only sourced when you run bash. For environment variables to be set so that the your desktop environment knows about them, on Linux, you should put them in ~/.profile or else in /etc/pam.d (you may need to logout or shutdown after making those changes) and on OS X, you should check out https://apple.stackexchange.com/q/57385
Update: ADD THIS TO ~/.bash_profile !
export RSTUDIO_WHICH_R="/Users/jespinoz/anaconda/bin/R"
launchctl setenv RSTUDIO_WHICH_R $RSTUDIO_WHICH_R
Credits to #Z-Shiyi for the last line https://github.com/conda/conda/issues/3316#issuecomment-241246755
An addition to what #Ray Donnelly said above. Basically, it has to be executed from the correct environment (i.e. run it from the terminal).
You can either:
(A) Put this in your ~/.bash_profile
export RSTUDIO_WHICH_R=/Users/[yourusername]/anaconda/bin/R (if youre using conda but you could put any R path)
(B) then type this in the terminal after it's been sourced (either restart terminal or do source .bash_profile): open -a RStudio
That should work.
or you can do what I did:
(A) open up automator (sorry if you're not on a mac; this will only work on mac)
(B) use a Run Shell Script
(C) then delete cat that's already in there and put in:
export RSTUDIO_WHICH_R=/Users/[yourusername]/anaconda/bin/R
open -a RStudio
(D) Save it as something like run_rstudio.app then just run that and it should work:
Launch RStudio from Activated Conda Environment
At least for Mac OS X, I find that it is sufficient to activate the environment in a shell session, then launch RStudio.
$ conda activate my_r_env
$ /Applications/RStudio.app/Contents/MacOS/RStudio
Once in R, one can verify that values of R.home() and .libPaths() point to the environment-specific locations.
The advantage here is that you aren't fixed to whatever was last set in the environment variables, e.g., via .bash_profile. Instead, one can have many R-based environments and switch between them (or run multiple ones simultaneously) without tampering with global settings.
Suggested Alias for Convenience
Perhaps the only global setting I might recommend is to add an alias for rstudio to your .bash_profile so you don't have to type the full path every time, like
alias rstudio='/Applications/RStudio.app/Contents/MacOS/RStudio &'
which enables one to then do
$ conda activate my_r_env
$ rstudio
$
where the & enables one to continue using the shell, or close it, without affecting the RStudio instance.
Update: The Anaconda Distribution now has packages for RStudio so you should be able to use that and not have to jump through any hoops at all. You can also install it directly the Anaconda Navigator.
Making a soft link works for me:
ln -s /opt/miniconda3/envs/r-4.2/bin/R /usr/bin/R
if is up to any good (now)... conda has the package rstudioapi which brings Rstudio to your local environment, and picks up the local/default r-base installed of your active environment.
you can install it (once your environment is activated) by typing:
conda install -c conda-forge r-rstudioapi
then you just type (inside your environment): rstudio
I have been using ipython notebook to run some R scripts. Now the problem is I have two R versions on my Ubuntu 14.04.
One is R.3.2.2 at /home/MYNAME/anaconda2/bin/R, another one is the R which I need for R studio,
now the problem is I want to only use R.3.3.1 for my system as I need some advanced task to be done.
I use conda uninstall r, after running this, according to the print out, a lot of R related packages is removed, if i run conda uninstall r again, it said
Fetching package metadata .......
Using Anaconda Cloud api site https://api.anaconda.org
Solving package specifications: ..........
Error: no packages found to remove from environment: /home/MyName/anaconda2
but when I run Which R again, still it is the anaconda R, if I run R in the terminal, it is still R3.2.2, anyone knows how could I remove this anaconda R version?
You probably needed to run hash -r in your session (or rehash if using zsh) to update your executables on PATH for the which command. A new terminal session would also fix the problem.
you can try conda uninstall r-base, this will remove R and all of the R-library.
The questions also implies that one cannot use anaconda R with rstudio.
On Linux you can
export RSTUDIO_WHICH_R=/home/USER/anaconda3/bin/R
and add to .profile (d/o your distro) to use rstudio with anaconda R and packages