package 'stats' in options("defaultPackages") was not found

[eohne]

Hi I am having trouble getting RCall to work.

It used to be fine until I decided to update R to version 4.4.1.

I have R as well as Rtools44 and R studio installed. RStudio works fine so does R on its own. I am installing all of this on a Windows 11 computer.

Interestingly RCall can find all standard library packages except stats.dll. The file exists I have checked and Julia/R can see it.
Here is what I did and the output:

julia> versioninfo()
Julia Version 1.9.1
Commit 147bdf428c (2023-06-07 08:27 UTC)
Platform Info:
  OS: Windows (x86_64-w64-mingw32)
  CPU: 16 × AMD Ryzen 7 5700X3D 8-Core Processor
  WORD_SIZE: 64
  LIBM: libopenlibm
  LLVM: libLLVM-14.0.6 (ORCJIT, znver3)
  Threads: 8 on 16 virtual cores
Environment:
  JULIA_NUM_THREADS = 8

julia> ENV["RTOOLS44_HOME"] = raw"C:\rtools44\usr\bin"
"C:\\rtools44\\usr\\bin"

julia> ENV["R_HOME"] = raw"C:\Program Files\R\R-4.4.1"
"C:\\Program Files\\R\\R-4.4.1"

(@v1.9) pkg> build RCall
    Building Conda → `C:\Users\XXX\.julia\scratchspaces\44cfe95a-1eb2-52ea-b672-e2afdf69b78f\b19db3927f0db4151cb86d073689f2428e524576\build.log`
    Building RCall → `C:\Users\XXX\.julia\scratchspaces\44cfe95a-1eb2-52ea-b672-e2afdf69b78f\0108d620933b25dbfde2e5ed492fce9aee767d95\build.log`

julia> using RCall
┌ Warning: RCall.jl: During startup - Warning message:
│ package 'stats' in options("defaultPackages") was not found
└ @ RCall C:\Users\XXX\.julia\packages\RCall\FEbLj\src\io.jl:172

julia> RCall.Rhome
"C:\\Program Files\\R\\R-4.4.1"

julia> ENV["R_HOME"]
"C:/Program Files/R/R-4.4.1"

R> version
               _
platform       x86_64-w64-mingw32
arch           x86_64
os             mingw32
crt            ucrt
system         x86_64, mingw32
status
major          4
minor          4.1
year           2024
month          06
day            14
svn rev        86737
language       R
version.string R version 4.4.1 (2024-06-14 ucrt)
nickname       Race for Your Life

Things that I have tried that seem to solve the issue for some people:

• add C:\Program Files\R\R-4.4.1\bin to path
• also add C:\Program Files\R\R-4.4.1\bin\x64 to path
• add rtools to path
• uninstalling and reinstalling all R related things (R, RStudio, RTools)
• tried different R versions (4.4.0, 4.3.3 and 4.3.0)
• rtools uninstalled (even though I need it to build some R packages).
• Removed and added RCall
• RCall v0.14.4
• RCall v0.14.3

None of these things seem to help.

Would be happy about any pointers, suggestions, solutions etc.
Thanks in advance!

Edit: Added a couple more things I have tried (been at this for hours so likely tried more things than mentioned)

Edit 2: Just saw that there is a log file created when building RCall. This was in it: [ Info: Using R at C:\Program Files\R\R-4.4.1 and libR at C:\Program Files\R\R-4.4.1\bin\x64\R.dll. which i guess looks fine?

[eohne]

Some how a conda R version was installed at some point in the .julia/conda folder. After getting rid of that everything seems to work fine.
Can be closed but maybe still worth looking into as the behaviour is still weird.

[palday]

Something wonky seems to happen, especially on Windows systems, when R is upgraded "behind RCall's back". I don't know what it exactly causes it but it can grab DLLs from two different R versions. You did everything I know to do.