On 24/04/2023 07:17, Simon Urbanek wrote:
Varin,
you're missing the Fortran compiler which the package requires. To make the
life a bit easier on you, upgrade to R 4.3.0 and then install GNU Fortran from
https://mac.r-project.org/tools/
If you don't want to upgrade R then you'll need the Fortran from here:
https://github.com/R-macos/gcc-darwin-arm64/releases/tag/R-4.2.0-release
Or if you do have a gfortran installation which does not match that used
for a binary installation of R you can use a ~/.R/Makevars file, as in
https://cran.r-project.org/doc/manuals/r-devel/R-admin.html#Customizing-package-compilation
.
Cheers,
Simon
On Apr 24, 2023, at 9:05 AM, varin sacha via R-SIG-Mac
<r-sig-mac@r-project.org> wrote:
R-experts,
What is going wrong?
At the end of this page there is the installation command :
https://gitlab.science.ru.nl/gbucur/RUcausal/-/blob/master/README.Rmd
Working with a MAC, I have tried to install the RUcausal library (copy and
paste the installation command).
It is written that the package has been built on Linux using the GNU Compiler
Collection. To install the package, open an R instance and run:
install.packages('devtools') # required package
devtools::install_git('https://gitlab.science.ru.nl/gbucur/RUcausal')
I get this error message :
ERROR: package installation failed
Error: Failed to install 'RUcausal' from Git:
! System command 'R' failed
0d0bz2p4xg640000gn/T/RtmpMs1teQ/Rinst6453ee77bb8/RUcausal’
install.packages('devtools') # required package
--- Please select a CRAN mirror for use in this session ---
trying URL
'https://stat.ethz.ch/CRAN/bin/macosx/big-sur-arm64/contrib/4.2/devtools_2.4.5.tgz'
Content type 'application/x-gzip' length 421790 bytes (411 KB)
==================================================
downloaded 411 KB
The downloaded binary packages are in
/var/folders/t_/myv0vvms11g40d0bz2p4xg640000gn/T//Rtmp7SUtUd/downloaded_packages
devtools::install_git('https://gitlab.science.ru.nl/gbucur/RUcausal')
Downloading git repo https://gitlab.science.ru.nl/gbucur/RUcausal
'/usr/bin/git' clone --depth 1 --no-hardlinks
https://gitlab.science.ru.nl/gbucur/RUcausal
/var/folders/t_/myv0vvms11g40d0bz2p4xg640000gn/T//Rtmp7SUtUd/file61a2a8e336a
── R CMD build
──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
─ installing the package to process help pages
-----------------------------------ges
─ installing *source* package ‘RUcausal’ ...
** using staged installation
** libs
clang++ -arch arm64 -std=gnu++14
-I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rcpp/include'
-I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/RcppArmadillo/include'
-I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -Wall -pedantic -c
RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++14
-I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG
-I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rcpp/include'
-I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/RcppArmadillo/include'
-I/opt/R/arm64/include -fPIC -falign-functions=64 -Wall -g -O2 -Wall -pedantic -c
compute_DAG_probabilities_BGe_fast.cpp -o compute_DAG_probabilities_BGe_fast.o
clang++ -arch arm64 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names
-undefined dynamic_lookup -single_module -multiply_defined suppress
-L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o
RUcausal.so RcppExports.o compute_DAG_probabilities_BGe_fast.o
-L/Library/Frameworks/R.framework/Resources/lib -lRlapack
-L/Library/Frameworks/R.framework/Resources/lib -lRblas
-L/opt/R/arm64/gfortran/lib/gcc/aarch64-apple-darwin20.6.0/12.0.1
-L/opt/R/arm64/gfortran/lib -lgfortran -lemutls_w -lquadmath
-F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework
-Wl,CoreFoundation
ld: warning: directory not found for option
'-L/opt/R/arm64/gfortran/lib/gcc/aarch64-apple-darwin20.6.0/12.0.1'
ld: warning: directory not found for option '-L/opt/R/arm64/gfortran/lib'
ld: library not found for -lgfortran
clang: error: linker command failed with exit code 1 (use -v to see
invocation)
make: *** [RUcausal.so] Error 1
ERROR: compilation failed for package ‘RUcausal’
─ removing
‘/private/var/folders/t_/myv0vvms11g40d0bz2p4xg640000gn/T/RtmpMs1teQ/Rinst6453ee77bb8/RUcausal’
-----------------------------------
ERROR: package installation failed
Error: Failed to install 'RUcausal' from Git:
! System command 'R' failed
0d0bz2p4xg640000gn/T/RtmpMs1teQ/Rinst6453ee77bb8/RUcausal’
Envoyé de mon iPhone
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--
Brian D. Ripley, rip...@stats.ox.ac.uk
Emeritus Professor of Applied Statistics, University of Oxford
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