[R-pkg-devel] Problems with devtools::build() in R

[Jarrett Phillips]

Installing from the URL you provide, as well as doing R CMD build HACSim as
suggested by @JeffNewmiller fails.

When trying the latter solution, I get the same error as the one provided
in my original post.

Any thoughts?





On Tue, May 16, 2023 at 12:52 PM Jarrett Phillips <
phillipsjarrett1 using gmail.com> wrote:

> Hi Duncan,
>
> I actually installed gfortran from
>
> https://github.com/fxcoudert/gfortran-for-macOS/releases
>
> but I can instead install from the URL you provide.
>
> Hopefully this fixes the problem.
>
> I will respond here if there are still issues.
>
> Thanks.
>
> Cheers,
>
> Jarrett
>
>
> On Tue, May 16, 2023 at 12:39 PM Duncan Murdoch <murdoch.duncan using gmail.com>
> wrote:
>
>> On 16/05/2023 12:07 p.m., Jarrett Phillips wrote:
>> > Hi All,
>> >
>> > I'm trying to generate a `tar.gz` file on a Mac for R package
>> submission to
>> > CRAN but am having issues.
>> >
>> > I'm using `devtools`, specifically `build()` and `install()`.
>> >
>> > My package relies on compiled code via `Rcpp/RcppArmadillo`.
>> >
>> >      build("HACSim_OO")
>> >      ── R CMD build
>> > ─────────────────────────────────────────────────────────────────
>> >      ✔  checking for file ‘/Users/jarrettphillips/Desktop/HAC
>> > simulation/HACSim_OO/DESCRIPTION’ ...
>> >      ─  preparing ‘HACSim’:
>> >      ✔  checking DESCRIPTION meta-information ...
>> >      ─  cleaning src
>> >      ─  installing the package to process help pages
>> >           -----------------------------------
>> >      ─  installing *source* package ‘HACSim’ ...
>> >         ** using staged installation
>> >         ** libs
>> >         clang++ -arch arm64 -std=gnu++11 -
>> > 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 -fdiagnostics-color=always -c RcppExports.cpp -o RcppExports.o
>> >         clang++ -arch arm64 -std=gnu++11
>> > -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 -fdiagnostics-color=always -c accumulate.cpp -o accumulate.o
>> >         clang++ -arch arm64 -std=gnu++11 -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 HACSim.so RcppExports.o accumulate.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: *** [HACSim.so] Error 1
>> >         ERROR: compilation failed for package ‘HACSim’
>> >      ─  removing
>> >
>> ‘/private/var/folders/r4/xm5blbcd2tn06tjv00lm1c780000gn/T/RtmpN4uaYR/Rinstdf4219594de/HACSim’
>> >           -----------------------------------
>> >      ERROR: package installation failed
>> >      Error in `(function (command = NULL, args = character(),
>> > error_on_status = TRUE, …`:
>> >      ! System command 'R' failed
>> >       ---
>> >       Exit status: 1
>> >       stdout & stderr: <printed>
>> >       ---
>> >      Type .Last.error to see the more details.
>> >
>> > `clang` is installed (since I am able to run the code within my package)
>> > and I've verified by typing `gcc` in the Mac Terminal. I've also
>> installed
>> > `Homebrew` and `gfortran`, verifying via typing in the Terminal.
>> >
>> > Any idea on what's going on how to fix the issue(s)?
>>
>> You don't say how you installed gfortran, but it sounds as though you
>> installed Homebrew's build of it.  You should install the tools as
>> available from https://mac.r-project.org/tools/.
>>
>> Duncan Murdoch
>>
>>

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