R version 4.0 was released on April 24. I would recommend that anyone who can update R do so. You have to reinstall all you packages, so do install.packages("rstan", dependencies = TRUE) And there are a few things that you may have to deal with. Windows You should uninstall previous versions of R and RTools. Then do, file.rename(from = "~/.R/Makevars.win", to = "~/.R/Makevars_old") file.remove("~/.R/Makevars") cat("CXX14FLAGS += -mtune=native -march=native -Wno-ignored-attributes -Wno-deprecated-declarations", file = "~/.R/Makevars.win") pkgbuild::has_build_tools(debug = TRUE) which will download Rtools40. If that does not work, you can always hard-code the path to the C++ compiler by putting CXX14 = C:\Rtools\mingw64\bin\g++ -m$(WIN) in your ~/.R/Makevars.win file. Mac In R, call file.edit("~/.Renviron") and delete any line that you may have adding something like /usr/local/clang? to the PATH. If you use RStudio, there may be problems sampling in parallel from an interactive session, but a workaround is given here [image] R 4.0.0 and CRAN MacOS binaries RStan I also was having issues with multiple chains running in parallel in MacOS using latest R-4.0.0 and RStan. I’ve found out that this is a problem of the package parallel from R-4.0.0 I’ve found this recently issue in RStudio’s GitHub that solved my problem: cl <- parallel::makeCluster(2, setup_strategy = "sequential") If this works, you could add the following to your ~/.Rprofile until this is fixed in R/RStudio: ## WORKAROUND: https://github.com/rstudio/rstudio/issues/6692 ## Revert to 'se… Linux There are no known new issues, but the most common old issue is trying to use a C++ compiler without C++14 support, particularly on RHEL and CentOS which need the RedHat developer toolset. Solaris There are no new issues, but you have to use the GNU toolchain rather than the Oracle one.

Yes, except for when using cores=4, but that’s an RStudio bug which there’s a workaround for :) [image] R 4.0.0 and CRAN MacOS binaries RStan I also was having issues with multiple chains running in parallel in MacOS using latest R-4.0.0 and RStan. I’ve found out that this is a problem of the package parallel from R-4.0.0 I’ve found this recently issue in RStudio’s GitHub that solved my problem: cl <- parallel::makeCluster(2, setup_strategy = "sequential") If this works, you could add the following to your ~/.Rprofile until this is fixed in R/RStudio: ## WORKAROUND: https://github.com/rstudio/rstudio/issues/6692 ## Revert to 'se…

Daniel - I don’t know if you have solved this problem already, but since I came across your post when looking for a solution to exactly the same issue, I thought I’d share what worked for me: putting the following in your Makevars file. Hope it solves your problem. CFLAGS=-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk CCFLAGS=-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk CXXFLAGS=-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk CPPFLAGS=-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk

There’s a lot of results when googling which seem to deal with the OSX side of the issue. I don’t use OSX but the underlying issues is described at https://github.com/Andersbakken/rtags/issues/937#issuecomment-293459813 and https://github.com/cbcrg/tcoffee/issues/7#issuecomment-626081446 . The issue is that somehow a math.h is ending up in the compiler search path before the C++ math.h. The solution will be to avoid this. An example of how this can happen is if you include say, glibc before the c++ stdlib.

Hi, I’ve installed R-4.0.0 and R-3.6.3 on Linux-Ubuntu 20.04 following the guide: https://docs.rstudio.com/resources/install-r/ Where I changed the curl download from ubuntu-1604 to ubuntu-2004. I can start both within Rstudio and with R-4.0.0 in Rstudio I ran the advised code in OP but ended up installing some extra packages with the Terminal in order to get shinystan to work. Rstan works indeed, thank you! Question: If i now start R-3.6.3 in Rstudio and run install.packages(‘rstan’, dependencies = TRUE) again, would you expect any complications? It is ok if Rstan just works in R4.0.0, but I could work more flexible if it works in multiple versions. However I am hesitant to just try it and risk breaking what is currently working.

On linux, you should be okay back to R 3.4.x and even previous versions if your C++ compiler supports the C++14 standard (although you may have to adjust the required version of R in the DESCRIPTION file).

[image] Ben_Stanley: CFLAGS=-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk CCFLAGS=-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk CXXFLAGS=-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk CPPFLAGS=-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk That was wonderful Ben. Works like a charm, thank you for sharing!

Dealing with R 4.0

Interfaces RStan

anon75146577 May 6, 2020, 1:30am 25

You can probably ask @martinmodrak to pin it!

Problem with running brms Mac OS X with R 4.0

Topic		Replies	Views
Stan not running after updating to r version 4.0.2 and stan updated from 2.19.3 to 2.21 RStan	72	7425	September 20, 2020
Rstan on Windows RStan	174	29714	September 2, 2020
Problems getting Stan to run after upgrading to R 4.0.2 RStan	48	11348	March 20, 2023
Error in compileCode(f, code, language = language, verbose = verbose) : Compilation ERROR, function(s)/method(s) not created! Again Interfaces rstan	59	8469	May 17, 2022
Modeling failed Warnings: 'C:/Users/R-34~1.3/rtools40/usr/mingw_/bin/g++' not found Errors: Multiple results for CXX14FLAGS found, something is wrong.FALSE RStan rstan , installation	73	4738	March 15, 2023

Dealing with R 4.0

Related topics