[R-SIG-Mac] Problems with R and Big Sur

[Dr Eberhard W Lisse]

sudo xcode-select --install

el

On 2020-12-02 18:52 , Spencer Graves wrote:
> $ clang --version
> Apple clang version 11.0.3 (clang-1103.0.32.59)
> Target: x86_64-apple-darwin20.1.0
> Thread model: posix
> InstalledDir:
> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin
> 
> 
> 
>       ** "sudo rm -rf /Library/Developer/CommandLineTools" deleted
> "CommandLineTools".  Then "sudo xcode-select —install" gave me "invalid
> argument '—install'".  "sudo xcode-select —install" gave me the same.
> 
> 
>       ** Fortunately, I was able to update Xcode from App Store.  Now I
> get:
> 
> 
> $ clang --version
> Apple clang version 12.0.0 (clang-1200.0.32.27)
> Target: x86_64-apple-darwin20.1.0
> Thread model: posix
> InstalledDir:
> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin
> 
> 
> 
>       If you also have a problem with "sudo xcode-select —install", you
> might try the App Store.
> 
> 
>       Thanks, Spencer
> 
> 
> On 2020-12-02 08:18, Gilberto Camara wrote:
>> For me, it worked as follows
>>
>> sudo rm -rf /Library/Developer/CommandLineTools
>> sudo xcode-select —install
>>
>> Best
>> Gilberto
>>
>>
>>> On 2 Dec 2020, at 15:15, Spencer Graves <spencer.graves using prodsyse.com>
>>> wrote:
>>>
>>>       What should I do to "make sure to have installed the latest
>>> version of Apple's development environment, including version 12.0 of
>>> the compiler"?
>>>
>>>
>>>       Thanks,
>>>       Spencer Graves
>>>
>>>
>>> On 2020-12-02 07:36, GilbertoCamara wrote:
>>>> Dear all,
>>>> I am running R 4.0.3 on BigSur without major performance issues. I
>>>> am using RStudio instead of the R GUI.
>>>> I had to build all spatial packages (rgdal, sf, terra and raster)
>>>> from source using the Apple clang version 12.0.0 compiler. I also
>>>> had to build GDAL from scratch, since neither the “homebrew” version
>>>> nor the “kyngchaos” version work well with BigSur.
>>>> If anyone is building packages from source, please make sure to have
>>>> installed the latest version of Apple’s development environment,
>>>> including version 12.0 of the compiler as earlier versions do not
>>>> work well in BigSur.
>>>> Best
>>>> Gilberto
>>>> ===========================
>>>> Prof Dr Gilberto Camara
>>>> Secretariat Director
>>>> GEO - Group on Earth Observations
>>>>> On 2 Dec 2020, at 14:15, Bob Rudis <bob using rud.is> wrote:
>>>>>
>>>>> After a bit of git and google poking it seems this is happening to
>>>>> users
>>>>> of MacVim (https://github.com/macvim-dev/macvim/issues/1114) and a few
>>>>> other FOSS projects.
>>>>>
>>>>> In various GH issues (like that one) the issue claims to be
>>>>> resolved by
>>>>> using the latest Xcode & SDK but that’s not likely to be a solution
>>>>> for R
>>>>> GUI (which I’m assuming you're using and where this error is coming
>>>>> up).
>>>>>
>>>>> Some of the threads I saw made it seem like it was happening
>>>>> especially on
>>>>> Touch Bar-equipped MacBook Pros (but that’s not confirmed).
>>>>>
>>>>> When I try R GUI on Big Sur (on the new M1 Mini) — either just plain R
>>>>> scripts or plotting — I do not see this, nor do I see this on my Intel
>>>>> MacBook Pro (both are on the latest Big Sur beta and R 4.0.3).
>>>>>
>>>>> On Dec 2, 2020 at 7:53:26 AM, Spencer Graves
>>>>> <spencer.graves using prodsyse.com>
>>>>> wrote:
>>>>>
>>>>>> I didn't get this with R 4.0.3 under macOS Big Sur 11.0.1 with "time
>>>>>> R CMD build" / check.  I have not tried it under RStudio.
>>>>>>
>>>>>>
>>>>>> sg
>>>>>>
>>>>>>
>>>>>> On 2020-12-02 05:01, Dr Eberhard W Lisse wrote:
>>>>>>
>>>>>> I don't get this in 4.0.3 (using the command line version of R) and I
>>>>>>
>>>>>> don't get this in RStudio 1.3.1093 either.  I use the homebrew
>>>>>> versions
>>>>>>
>>>>>> without the R GUI even installed.
>>>>>>
>>>>>>
>>>>>> I am sure more detail will be helpful to the developers.
>>>>>>
>>>>>>
>>>>>> el
>>>>>>
>>>>>>
>>>>>> On 02/12/2020 11:09, Maria-Angeles Casares-de-Cal via R-SIG-Mac
>>>>>> wrote:
>>>>>>
>>>>>>> To those in charge of R for Mac OS X:
>>>>>>
>>>>>>>
>>>>>>
>>>>>>> I have installed the new Big Sur operating system and now I
>>>>>>> always get
>>>>>>
>>>>>>> a warning similar to:
>>>>>>
>>>>>>>
>>>>>>
>>>>>>> 2020-12-02 09:52:00.647 R[703:11786] Warning: Expected min height of
>>>>>>
>>>>>>> view: (<NSPopoverTouchBarItemButton: 0x7f9c6bb3df50>) to be less
>>>>>>> than
>>>>>>
>>>>>>> or equal to 30 but got a height of 32.000000.  This error will be
>>>>>>
>>>>>>> logged once per view in violation.
>>>>>>
>>>>>>>
>>>>>>
>>>>>>> and the computer becomes very slow.
>>>>>>
>>>>>>>
>>>>>>
>>>>>>> Can I do something to fix it, or will we have to wait for an R
>>>>>>> update?
>>>>>>
>>>>>>>
>>>>>>
>>>>>>> Thank you very much for your attention.
>>>>>>
>>>>>>>
>>>>>>
>>>>>>> Sincerely,
>>>>>>
>>>>>>>
>>>>>>
>>>>>>> María-Ángeles Casares-de-Cal
>>>>>>
>>>>>> [...]
>>>>>>
>>>>>>
>>>>>>
>>>>>> _______________________________________________
>>>>>> R-SIG-Mac mailing list
>>>>>> R-SIG-Mac using r-project.org
>>>>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>>>>>>
>>>>>
>>>>>     [[alternative HTML version deleted]]
>>>>>
>>>>> _______________________________________________
>>>>> R-SIG-Mac mailing list
>>>>> R-SIG-Mac using r-project.org
>>>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>>>>
>>>
>>> _______________________________________________
>>> R-SIG-Mac mailing list
>>> R-SIG-Mac using r-project.org
>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>>
> 
> _______________________________________________
> R-SIG-Mac mailing list
> R-SIG-Mac using r-project.org
> https://stat.ethz.ch/mailman/listinfo/r-sig-mac

-- 
Dr. Eberhard W. Lisse   \         /       Obstetrician & Gynaecologist
el using lisse.NA             / *      |  Telephone: +264 81 124 6733 (cell)
PO Box 8421 Bachbrecht  \      /  If this email is signed with GPG/PGP
10007, Namibia           ;____/ Sect 20 of Act No. 4 of 2019 may apply