I have python version 2.7.10 on macOS High Sierra and would like to install rpy2.
When I do sudo pip install rpy2
I get the error message:
Command "python setup.py egg_info" failed with error code 1 in /private/tmp/pip-build-Nwbha3/rpy2/
I have already upgraded setuptools (version 39.0.1).
I also downloaded the older version rpy2-2.7.0.tar.gz and tried installing it with sudo pip install rpy2-2.7.0.tar.gz. I then get the following error message:
clang: error: unsupported option '-fopenmp'
clang: error: unsupported option '-fopenmp'
error: command 'cc' failed with exit status 1
----------------------------------------
Command "/usr/bin/python -u -c "import setuptools, tokenize;__file__='/private/tmp/pip-O0cu4E-build/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record /tmp/pip-haDUA3-record/install-record.txt --single-version-externally-managed --compile" failed with error code 1 in /private/tmp/pip-O0cu4E-build/
If somebody has the answer to my installation problem, it would be greatly appreciate it. Many thanks in advance!
The clang that ships with Mac does not support openmp which is what the -fopenmp flag is for. You'll likely need a version of clang that supports openmp.
One possible solution would be to get the full llvm/clang build with openmp support. With homebrew you can do:
brew install llvm # clang/llvm
brew install libomp # OpenMP support
And then try installing rpy2 again with newly installed version of clang.
As an example, the current version is 6.0.0 so you would run
CC=/usr/local/Cellar/llvm/6.0.0/bin/clang pip install rpy2