I am trying to install some packages to work with spatial data such as sf, stars, rgdal, on a Mac Book Air M1 with Ventura.
To do so, I need to have gdal installed to my compute, which I have. My problem is that when I try to install a library (see example with sf here below), the gdal-config file is not found.
But I have it on my computer, so my question is :
Is there a way to indicate the path to R to find that file ?
I tried to to uninstall and reinstall gdal with homebrew, I have proj that is also a dependency rightly installed.
I need to install from sf from sources as it is needed to install the stars package.
Should be found with that PATH order. If you’re trying this from the IDE without a .Renviron dot file, switch to iTerm2 or your favorite term app, fire up R and install from there.
It found gdal-config this way but I have another error now.
Do you have any idea ?
> install.packages("sf")
--- SVP sélectionner un miroir CRAN pour cette session ---
Fontconfig warning: ignoring UTF-8: not a valid region tag
Une version binaire est disponible mais la version du source est plus
récente:
binary source needs_compilation
sf 1.0-7 1.0-9 TRUE
Вы хотите установить из исходников пакет, который нуждается в компиляции? (Yes/no/cancel) Yes
installation du package source ‘sf’
essai de l'URL 'https://ftp.belnet.be/mirror/CRAN/src/contrib/sf_1.0-9.tar.gz'
Content type 'application/octet-stream' length 3480774 bytes (3.3 MB)
==================================================
downloaded 3.3 MB
* installing *source* package ‘sf’ ...
** package ‘sf’ correctement décompressé et sommes MD5 vérifiées
** using staged installation
configure: CC: clang -mmacosx-version-min=10.13
configure: CXX: clang++ -mmacosx-version-min=10.13 -std=gnu++11
checking for gdal-config... /opt/homebrew/bin/gdal-config
checking gdal-config usability... yes
configure: GDAL: 3.6.2
checking GDAL version >= 2.0.1... yes
checking for gcc... clang -mmacosx-version-min=10.13
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether the compiler supports GNU C... yes
checking whether clang -mmacosx-version-min=10.13 accepts -g... yes
checking for clang -mmacosx-version-min=10.13 option to enable C11 features... none needed
checking for stdio.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for strings.h... yes
checking for sys/stat.h... yes
checking for sys/types.h... yes
checking for unistd.h... yes
checking for gdal.h... yes
checking GDAL: linking with --libs only... no
checking GDAL: linking with --libs and --dep-libs... no
ld: warning: ignoring file /opt/homebrew/Cellar/gdal/3.6.2_2/lib/libgdal.dylib, building for macOS-x86_64 but attempting to link with file built for macOS-arm64
Undefined symbols for architecture x86_64:
"_GDALAllRegister", referenced from:
_main in gdal_test-4d19fe.o
ld: symbol(s) not found for architecture x86_64
clang: error: linker command failed with exit code 1 (use -v to see invocation)
ld: library not found for -lodbcinst
clang: error: linker command failed with exit code 1 (use -v to see invocation)
configure: Install failure: compilation and/or linkage problems.
configure: error: GDALAllRegister not found in libgdal.
ERROR: configuration failed for package ‘sf’
* removing ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library/sf’
* restoring previous ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library/sf’
I understand that I don't have gdal for macOS-arm64 (M1) but for macOS-x86_64 (Intel).
