[R-SIG-Mac] catalina humbug

[Ken Beath]

clang7 seems to be unnecessary for current R. It isn’t in my system and from memory was one of the things I removed to get everything working. This involved removing the clang and fortran that had been previously installed. I may have needed some other things but my systems will build your package.

Ken

> On 14 Oct 2020, at 10:01 pm, Koenker, Roger W <rkoenker using illinois.edu> wrote:
> 
> Simon,
> 
> Thanks,  I still have the same error:
> 
> In file included from mcmb.c:11:
> /usr/local/clang7/include/c++/v1/stdio.h:108:15: fatal error: 'stdio.h' file not found
> #include_next <stdio.h>
> 
> I didn’t do anything beyond upgrading R and installing fortran 8.2.0, and the CLT 12.2.
> but I didn’t remove anything, should I have?  I now see:
> 
> yzzy: which clang
> /usr/bin/clang
> yzzy: clang --version
> Apple clang version 12.0.0 (clang-1200.0.32.2)
> Target: x86_64-apple-darwin19.6.0
> Thread model: posix
> InstalledDir: /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin
> 
> 
> The last time I faced this sort of thing James suggested this: 
> https://groups.google.com/g/r-sig-mac/c/rZeYeiyyxtY
> 
> but the names and locations are somewhat different now, so I’m reluctant to experiment.
> 
> Roger
> 
> 
> 
>> On Oct 14, 2020, at 11:48 AM, Simon Urbanek <simon.urbanek using R-project.org> wrote:
>> 
>> Roger,
>> 
>> the error points to an old local clang - did you remove (or move aside) that one? Check your /usr/local - you seem to have some old stuff there that is breaking. That would solve the original issue. You seem to have done a lot after that error, but didn't tell us what happened then… you can't have the same error if you removed it ;) 
>> 
>> Cheers,
>> Simon
>> 
>> 
>> 
>> 
>>> On Oct 14, 2020, at 10:28 PM, Koenker, Roger W <rkoenker using illinois.edu> wrote:
>>> 
>>> I’ve recently “upgraded” to catalina, and compilation of my quantreg package failed with:
>>> 
>>> In file included from mcmb.c:11:
>>> /usr/local/clang7/include/c++/v1/stdio.h:108:15: fatal error: 'stdio.h' file not found
>>> #include_next <stdio.h>
>>> 
>>> So I’ve tried the following:
>>> 
>>> 	1.  Upgraded R to 4.0.3
>>> 	2.  Upgraded the fortran compiler to 8.2.0 as suggested.
>>> 	3.  Attempted to reinstall command line tools with Xcode-select —install.  This fails with
>>> 		a popup that says:
>>> 
>>> 		Can’t install the software because it is not currently available from the Software Update server.
>>> 	4.  Tried again to reinstall Command line tools 12.2 beta 3 from https://developer.apple.com/download/more/
>>> 		which successfully installed, but my stdio.h error persisted.
>>> 	5.  Following thread: http://r-sig-mac.29524.n8.nabble.com/R-SIG-Mac-fatal-error-stdio-h-file-not-found-td889.html
>>> 		I  looked at:
>>> 
>>> 		yzzy: which clang /usr/bin/clang 
>>> 		yzzy: xcode-select -p /Applications/Xcode.app/Contents/Developer 
>>> 		yzzy: xcrun --show-sdk-path /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk
>>> 
>>> 		but that didn’t speak to me so further googling led me to:
>>> 		https://stackoverflow.com/questions/54557659/r-cant-update-packages-clang-cant-find-head-files
>>> 		so lurking in: /Library/Developer/CommandLineTools/usr/include/c++/v1
>>> 		is stdio.h, but I’m feeling a bit queasy  at this point and would appreciate some  expert advice.
>>> 
>>> Roger
>>> 
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>>> R-SIG-Mac using r-project.org
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>> 
> 
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