Thanks, Simon and Dirk, I can install the packages normally on macOS. However, I want to install it in a conda environment. Thanks for sharing the link. I really appreciate it.
Here is a reproducible example, in case you have time to try. On macOS: Step 1: create a conda environment and install R conda create -n r-environment r-essentials r-base Step 2: activate the environment conda activate r-environment Step 3: Install rstudio conda install -c r rstudio Step 4: Install some required packages conda install -c r r-devtools conda install -c r r-wcorr conda install -c r r-ranger conda install -c conda-forge r-rcpparmadillo conda install -c r r-testthat conda install -c conda-forge r-superlearner conda install -c conda-forge r-polycor conda install -c conda-forge r-logger Step 6: According to this page, download dependencies: https://mac.r-project.org/openmp/ And copied them into the environment include and lib directory. Step 7: According to this page, I exported variables in step 6. https://docs.conda.io/projects/conda/en/latest/user-guide/tasks/manage-environments.html#set-env-vars #!/bin/sh export PKG_CPPFLAGS='-Xclang -fopenmp' export PKG_LIBS='-lomp' Step 8: Reactivated the conda environment Step 9: run: rstudio Step 10: inside rstudio library(devtools) install_github("fasrc/CausalGPS") I get the following error: Downloading GitHub repo fasrc/CausalGPS@master Error: Could not find tools necessary to compile a package I think something is wrong with Step 7. Because apparently, I lost the path to Xcode. Without Step 7, I get the following error: In file included from ColorSpace.cpp:1: In file included from ./ColorSpace.h:4: In file included from env/bin/../include/c++/v1/typeinfo:60: In file included from env/bin/../include/c++/v1/exception:81: In file included from env/bin/../include/c++/v1/cstdlib:85: In file included from env/bin/../include/c++/v1/stdlib.h:100: env/bin/../include/c++/v1/math.h:773:12: error: no member named 'labs' in the global namespace; did you mean 'abs'? return ::labs(__x); ~~^ ~/env/bin/../include/c++/v1/math.h:772:39: note: 'abs' declared here inline _LIBCPP_INLINE_VISIBILITY long abs(long __x) _NOEXCEPT { ^ ~/env/bin/../include/c++/v1/math.h:777:12: error: no member named 'llabs' in the global namespace return ::llabs(__x); ~~^ ~/env/bin/../include/c++/v1/math.h:785:12: error: no member named 'fabsf' in the global namespace return ::fabsf(__lcpp_x); ~~^ ~/env/bin/../include/c++/v1/math.h:789:12: error: no member named 'fabs' in the global namespace; did you mean 'abs'? return ::fabs(__lcpp_x); ~~^ ~/env/bin/../include/c++/v1/math.h:772:39: note: 'abs' declared here inline _LIBCPP_INLINE_VISIBILITY long abs(long __x) _NOEXCEPT { ^ ~/env/bin/../include/c++/v1/math.h:794:12: error: no member named 'fabsl' in the global namespace return ::fabsl(__lcpp_x); ~~^ Best regards, Naeem On Thu, Jul 15, 2021 at 3:25 AM Simon Urbanek <simon.urba...@r-project.org> wrote: > Naeem, > > I'm not sure which issues are you talking about specifically. If your > package is well written, the instructions at > https://mac.r-project.org/openmp/ should be sufficient with regular CRAN > installation of R and standard tools. > > Cheers, > Simon > > > > > On Jul 15, 2021, at 02:41, Naeem Khoshnevis <khoshnevis.na...@gmail.com> > wrote: > > > > Hi, > > > > I hope this email finds you well. > > I wondered what the best approaches to troubleshooting C++ dependencies > issues in general and specifically in R are; specifically, those packages > which are using OpenMP and we want to install on macOS. > > So far, I am just googling the error and finding out what the problem > is. However, it is hard to address issues and come up with long-term > solutions without internalizing the concepts. > > One example is creating a conda environment for each R package project > and installing llvm, clang, etc into each environment. > > I talked to several software engineers; however, I could not find a > convincing answer. I think I do not know what I do not know about this > topic, which prevents me from asking good questions. I would be grateful if > you could let me know your thoughts about these questions. > > > > Where is a good place to start learning about this topic? > > Is a professional C++ developer necessarily good at troubleshooting > problems with compilers and linkers? Or these are two different topics. > > > > Best regards, > > Naeem Khoshnevis > > _______________________________________________ > > Rcpp-devel mailing list > > Rcpp-devel@lists.r-forge.r-project.org > > https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/rcpp-devel > >
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