Dear Simon Unfortunately, the problems reported are real. The rgdal version from CRAN fails to recognise images in JPEG2000 format used by Copernicus Sentinel-2 satellite. I have investigated the matter carefully with Roger Bivand.
I tried many combinations on Mac OS Big Sur: (a) rgdal from CRAN (binary) + GDAL from homebrew. (b) rgdal from CRAN (source) + GDAL from homebrew. (c) rgdal from CRAN (binary) + GDAL Mac OS Frameworks from https://www.kyngchaos.com/software/frameworks/ (d) rgdal from CRAN (source) + GDAL from kyngchaos. (e) rgdal from CRAN (source) + GDAL/GEOS/etc (source) with Apple clang 11.0 (f) rgdal from CRAN (source) + GDAL/GEOS/etc (source) with Apple clang 12.0 Only option (f) works correctly. Best regards Gilberto > On 2 Dec 2020, at 22:44, Simon Urbanek <simon.urba...@r-project.org> wrote: > > Are you chasing a red herring here? Switching tools won help you - in fact > they cause more issues since you'd need R-devel version of R to avoid > breakage with the most recent tools or extra flags. I'm not sure which issue > you are trying to solve. For gdal et al - make sure you install the latest > version for CRAN - it is compatible with BigSur, older versions (before > BigSur) were not. > > Please start a new thread about questions unrelated to the original post as > it's unclear if there are any open questions in the thread. Also please only > answer if your have anything useful to say - if someone asks a question about > the GUI it's rather pointless to post when you say you don't use it ... And > if you ask a question, please be specific so we can help. > > There is a lot of misinformation around, so be careful with random > suggestions, they are very often plain wrong. > > Cheers, > Simon > > > > >> On 3/12/2020, at 6:52 AM, Spencer Graves <spencer.gra...@prodsyse.com> wrote: >> >> Sorry: Typo: I tried "sudo xcode-select --install" and got the same >> error. This was in Terminal where "The default interactive shell is now >> zsh." It's not critical, because "I was able to update Xcode from App >> Store." >> >> >> Thanks for the reply. sg >> >> >> On 2020-12-02 11:48, Dr Eberhard W Lisse wrote: >>> 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.gra...@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 <b...@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.gra...@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@r-project.org >>>>>>>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac >>>>>>>>> >>>>>>>> >>>>>>>> [[alternative HTML version deleted]] >>>>>>>> >>>>>>>> _______________________________________________ >>>>>>>> R-SIG-Mac mailing list >>>>>>>> R-SIG-Mac@r-project.org >>>>>>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac >>>>>>> >>>>>> >>>>>> _______________________________________________ >>>>>> R-SIG-Mac mailing list >>>>>> R-SIG-Mac@r-project.org >>>>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac >>>>> >>>> >>>> _______________________________________________ >>>> R-SIG-Mac mailing list >>>> R-SIG-Mac@r-project.org >>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac >>> >> >> _______________________________________________ >> R-SIG-Mac mailing list >> R-SIG-Mac@r-project.org >> https://stat.ethz.ch/mailman/listinfo/r-sig-mac >> > > _______________________________________________ > R-SIG-Mac mailing list > R-SIG-Mac@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-mac _______________________________________________ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
