I was running into the `clang: *error: *unsupported option '-fopenmp’` yesterday myself. I’m not on Sierra, but I fixed it with the top answer on this page: https://stackoverflow.com/questions/43595457/alternate-compiler-for-installing-r-packages-clang-error-unsupported-option/43943631#43943631?newreg=e3bd1c44b597485f981795398d9432b6.
Specifically, I used the solution #3 there to turn of the addition of the -fopenmp option: 1) Made a folder in my `~/` called .R 2) Made a file in ~/.R/Makevars containing: SHLIB_OPENMP_CFLAGS= SHLIB_OPENMP_CXXFLAGS= Then I was able to install all the packages for which I’d been getting the -fopenmp error. I hope this solution works for you as well! -Dan On Dec 4, 2019, at 8:07 AM, Kasper Daniel Hansen <kasperdanielhan...@gmail.com<mailto:kasperdanielhan...@gmail.com>> wrote: Are you using the clang 6 (R 3.5) / 7 (R 3.6) / 8 (R 4.0) which Simon supplies? This is for clang 6 with full path /usr/local/clang6/bin/clang --version clang version 6.0.0 (tags/RELEASE_600/final) Target: x86_64-apple-darwin18.7.0 Thread model: posix InstalledDir: /usr/local/clang6/bin On Wed, Dec 4, 2019 at 11:03 AM Vincent Carey <st...@channing.harvard.edu<mailto:st...@channing.harvard.edu>> wrote: When installing packages from source, I frequently run into this error with %vjcair> clang --version Apple LLVM version 9.0.0 (clang-900.0.39.2) Target: x86_64-apple-darwin16.7.0 Thread model: posix InstalledDir: /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin I am still running macos Sierra ... is there a solution within this platform? I have been getting around this by modifying Makevars when needed * installing *source* package ‘sitmo’ ... ** package ‘sitmo’ successfully unpacked and MD5 sums checked ** using staged installation ** libs clang++ -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../inst/include/ -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include -fopenmp -fPIC -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o clang: *error: *unsupported option '-fopenmp' make: *** [RcppExports.o] Error 1 ERROR: compilation failed for package ‘sitmo’ -- The information in this e-mail is intended only for th...{{dropped:15}} _______________________________________________ Bioc-devel@r-project.org<mailto:Bioc-devel@r-project.org> mailing list https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_bioc-2Ddevel&d=DwIFaQ&c=iORugZls2LlYyCAZRB3XLg&r=basuzE7-VlMupNUhjOlOjq3Z71OZ7WVlqjvCai9jtug&m=8ndw52WAHTohPcPQItPQQDlzi2GSSFsa48rBNYORZzQ&s=3Bk4CmiTOaGnnX2gf7KvkUvv3pW8P1ek4otRy5jvrPE&e= [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
