[Bioc-devel] -fopenmp switch issue on mac

[Kasper Daniel Hansen]

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 <stvjc using 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’
>
> --
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