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Find tools needed to build R packages
https://pkgbuild.r-lib.org
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Build tools not installing #116

Closed ghost closed 2 years ago

ghost commented 3 years ago

Hey there,

I had an issue with stan recently that led me to try reinstalling it. Now when I try to reinstall it, it prompts me to install build tools, and then fails to install it. I think it may be something to do with buildtools, which also won't install now (seems to be what's blocking the installation of stan). If I run

pkgbuild::check_build_tools(debug = TRUE)

I get the following error:

Error: Could not find tools necessary to compile a package Call pkgbuild::check_build_tools(debug = TRUE) to diagnose the problem.

If I try and run

xcode-select --install

from terminal, I get this error

xcode-select: error: command line tools are already installed, use “Software Update” to install updates

and removing and reinstalling command line tools didn't help either. Anyone know what the issue may be?

jphill01 commented 3 years ago

I have the exact same problem it seems, except concerning R packages requiring compilation generally. I noticed this after updating R, RStudio, Xcode and macOS. I posted an issue today and am waiting for any sort of reply.

Seeing that you've gotten no response here from the RStudio folks, I'm wondering if you've managed to solve this.

ghost commented 3 years ago

Hi I'm sorry I just saw this, unfortunately I have not been able to solve it and have not encountered a solution anywhere. Let me know if you figure anything out.

jimhester commented 3 years ago

You could try the instructions on https://thecoatlessprofessor.com/programming/cpp/r-compiler-tools-for-rcpp-on-macos/, and you may want to try either installing the full version of XCode or removing the command line tools and reinstalling them.

Unfortunately it is hard to know exactly what the problem is on your machine just based on the description provided above.

jphill01 commented 3 years ago

Like at @gabe-schulman , I am also unable to solve the issue (which is similar to my #118). I've uninstalled both Xcode and CLT, but this didn't solve anything. As such, I'm unable to run Stan models in addition to testing my packages that utilize complied code. Oddly, my .R folder still contains a Makevars with Clang4 instead of Clang12. I am unable to edit and save the file in any way and following Coatless' instructions at https://thecoatlessprofessor.com/programming/cpp/r-compiler-tools-for-rcpp-on-macos/ doesn't appear to help.

jimhester commented 3 years ago

If ~/.R/Makevars is pointing to the wrong or non-existent compiler than that is definitely your issue. You need to either edit the relevant entries or delete the file.

jphill01 commented 3 years ago

@jimhester Thanks! I did

sudo rm ~/.R/Makevars

to remove it, but upon trying to compile a simple Stan program as a test, I receive the following error:

Error in compileCode(f, code, language = language, verbose = verbose) : 
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/cmath:653:25: error: no template named       
'numeric_limits'  return _FloatBigger ? numeric_limits<_IntT>::max() :  (numeric_limits<_IntT>::max() >> _Bits << _Bits);                           
^fatal error: too many errors emitted, stopping now [-ferror-limit=]20 errors generated.make: *** [file30b5c416eb3.o] Error    1
Error in sink(type = "output") : invalid connection

Any ideas?

jimhester commented 3 years ago

Something is wrong with your include paths, R isn't able to find standard headers correctly. You can try some of the things in https://stackoverflow.com/questions/58628377/catalina-c-using-cmath-headers-yield-error-no-member-named-signbit-in-th and see if any work for you.

gaborcsardi commented 2 years ago

This was a while ago, I am closing it. Please open new issues if you still gave problems.