Install error, macOS 14.0, R-4.4.0 (devel): dlopen(.../systemfonts.so): symbol not found in flat namespace '_hb_blob_create'
#108
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This occurs in R4.3.2 for me as well on macOS 14.3.1. I ran into it trying to restore an {renv} environment. Installing directly from CRAN works as a binary, but if I try to install from source it fails with this both in a normal session and an {renv} session. |
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My best bet is that you have a borked FreeType installation on your system. The referenced symbol is from Harfbuzz but systemfonts does not use, nor depend on it. However, FreeType can be compiled with HarfBuzz support so maybe something went wrong there. Try reinstalling FreeType from brew and see if it solves the issue? |
This issue has been frustrating me for ages without answer until I stumbled upon your reply! reinstalling Harfbuzz fixed the problem. Thank you :) |
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Hm... I'm running also into this with macOS 14.5 and R 4.5 (devel). I did try to install Error: package or namespace load failed for ‘systemfonts’ in dyn.load(file, DLLpath = DLLpath, ...):
unable to load shared object '/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/00LOCK-systemfonts/00new/systemfonts/libs/systemfonts.so':
dlopen(/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/00LOCK-systemfonts/00new/systemfonts/libs/systemfonts.so, 0x0006): symbol not found in flat namespace '_hb_blob_create'
Error: loading failedDetails: plus then > install.packages(c('systemfonts', 'textshaping'))
Warning: unable to access index for repository https://cloud.r-project.org/bin/macosx/big-sur-arm64/contrib/4.5:
cannot open URL 'https://cloud.r-project.org/bin/macosx/big-sur-arm64/contrib/4.5/PACKAGES'
Packages which are only available in source form, and may need
compilation of C/C++/Fortran: ‘systemfonts’ ‘textshaping’
Do you want to attempt to install these from sources? (Yes/no/cancel) y
installing the source packages ‘systemfonts’, ‘textshaping’
trying URL 'https://cloud.r-project.org/src/contrib/systemfonts_1.1.0.tar.gz'
trying URL 'https://cloud.r-project.org/src/contrib/textshaping_0.4.1.tar.gz'
Loading required package: colorout
* installing *source* package ‘systemfonts’ ...
** package ‘systemfonts’ successfully unpacked and MD5 sums checked
** using staged installation
Found pkg-config cflags and libs!
Using PKG_CFLAGS=-I/opt/homebrew/opt/freetype/include/freetype2 -I/opt/homebrew/opt/libpng/include/libpng16
Using PKG_LIBS=-L/opt/homebrew/opt/freetype/lib -L/opt/homebrew/opt/libpng/lib -lfreetype -lbz2 -lpng16 -lz
** libs
using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.3.9.4)’
using SDK: ‘MacOSX14.4.sdk’
rm -f systemfonts.so caches.o cpp11.o dev_metrics.o font_matching.o font_registry.o ft_cache.o string_shape.o font_metrics.o font_fallback.o string_metrics.o emoji.o cache_store.o init.o mac/FontManagerMac.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/homebrew/opt/freetype/include/freetype2 -I/opt/homebrew/opt/libpng/include/libpng16 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/cpp11/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c caches.cpp -o caches.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/homebrew/opt/freetype/include/freetype2 -I/opt/homebrew/opt/libpng/include/libpng16 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/cpp11/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c cpp11.cpp -o cpp11.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/homebrew/opt/freetype/include/freetype2 -I/opt/homebrew/opt/libpng/include/libpng16 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/cpp11/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c dev_metrics.cpp -o dev_metrics.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/homebrew/opt/freetype/include/freetype2 -I/opt/homebrew/opt/libpng/include/libpng16 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/cpp11/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c font_matching.cpp -o font_matching.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/homebrew/opt/freetype/include/freetype2 -I/opt/homebrew/opt/libpng/include/libpng16 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/cpp11/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c font_registry.cpp -o font_registry.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/homebrew/opt/freetype/include/freetype2 -I/opt/homebrew/opt/libpng/include/libpng16 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/cpp11/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c ft_cache.cpp -o ft_cache.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/homebrew/opt/freetype/include/freetype2 -I/opt/homebrew/opt/libpng/include/libpng16 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/cpp11/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c string_shape.cpp -o string_shape.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/homebrew/opt/freetype/include/freetype2 -I/opt/homebrew/opt/libpng/include/libpng16 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/cpp11/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c font_metrics.cpp -o font_metrics.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/homebrew/opt/freetype/include/freetype2 -I/opt/homebrew/opt/libpng/include/libpng16 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/cpp11/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c font_fallback.cpp -o font_fallback.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/homebrew/opt/freetype/include/freetype2 -I/opt/homebrew/opt/libpng/include/libpng16 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/cpp11/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c string_metrics.cpp -o string_metrics.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/homebrew/opt/freetype/include/freetype2 -I/opt/homebrew/opt/libpng/include/libpng16 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/cpp11/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c emoji.cpp -o emoji.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/homebrew/opt/freetype/include/freetype2 -I/opt/homebrew/opt/libpng/include/libpng16 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/cpp11/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c cache_store.cpp -o cache_store.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/homebrew/opt/freetype/include/freetype2 -I/opt/homebrew/opt/libpng/include/libpng16 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/cpp11/include' -I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -DR_NO_REMAP -c init.cpp -o init.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/homebrew/opt/freetype/include/freetype2 -I/opt/homebrew/opt/libpng/include/libpng16 -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/cpp11/include' -I/opt/R/arm64/include -fobjc-arc -fPIC -c mac/FontManagerMac.mm -o mac/FontManagerMac.o
clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o systemfonts.so caches.o cpp11.o dev_metrics.o font_matching.o font_registry.o ft_cache.o string_shape.o font_metrics.o font_fallback.o string_metrics.o emoji.o cache_store.o init.o mac/FontManagerMac.o -L/opt/homebrew/opt/freetype/lib -L/opt/homebrew/opt/libpng/lib -lfreetype -lbz2 -lpng16 -lz -framework CoreText -framework Foundation -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/00LOCK-systemfonts/00new/systemfonts/libs
** R
** inst
** byte-compile and prepare package for lazy loading
Loading required package: colorout
** help
*** installing help indices
*** copying figures
** building package indices
Loading required package: colorout
** installing vignettes
** testing if installed package can be loaded from temporary location
Loading required package: colorout
Error: package or namespace load failed for ‘systemfonts’ in dyn.load(file, DLLpath = DLLpath, ...):
unable to load shared object '/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/00LOCK-systemfonts/00new/systemfonts/libs/systemfonts.so':
dlopen(/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/00LOCK-systemfonts/00new/systemfonts/libs/systemfonts.so, 0x0006): symbol not found in flat namespace '_hb_blob_create'
Error: loading failed
Execution halted
ERROR: loading failed
* removing ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/systemfonts’
Loading required package: colorout
ERROR: dependency ‘systemfonts’ is not available for package ‘textshaping’
Perhaps try a variation of:
install.packages('systemfonts')
* removing ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/textshaping’
The downloaded source packages are in
‘/private/var/folders/_2/hqcmhc1d1bl3lqxgcrkpv8_00000gn/T/RtmpQ38Zsc/downloaded_packages’
Warning messages:
1: In install.packages(c("systemfonts", "textshaping")) :
installation of package ‘systemfonts’ had non-zero exit status
2: In install.packages(c("systemfonts", "textshaping")) :
installation of package ‘textshaping’ had non-zero exit status
>
> sessionInfo()
R Under development (unstable) (2024-12-07 r87428)
Platform: aarch64-apple-darwin20
Running under: macOS Sonoma 14.5
Matrix products: default
BLAS: /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/lib/libRblas.0.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/lib/libRlapack.dylib; LAPACK version 3.12.0
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
time zone: America/New_York
tzcode source: internal
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] testthat_3.2.2 usethis_3.1.0 colorout_1.3-2
loaded via a namespace (and not attached):
[1] compiler_4.5.0 R6_2.5.1 magrittr_2.0.3 cli_3.6.3
[5] tools_4.5.0 fs_1.6.5 glue_1.8.0 vctrs_0.6.5
[9] brio_1.1.5 lifecycle_1.0.4 rlang_1.1.4 prompt_1.0.2.9000
[13] purrr_1.0.2
> |
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