[R-SIG-Mac] Problem installing RUcausal library on MAC

[Prof Brian Ripley]

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 using 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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> 
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-- 
Brian D. Ripley,                  ripley using stats.ox.ac.uk
Emeritus Professor of Applied Statistics, University of Oxford