ParBLiSS
compiling under MacOSX Mojave
When trying to compile under mojave, if I simply run autoconf ./configure --prefix=/usr/local make
I get: src/cgi/core_genome_identity.cpp:11:10: fatal error: 'omp.h' file not found
No compilation happens. So, I tried: ./configure --prefix=/usr/local --disable-openmp make
I still got: src/cgi/core_genome_identity.cpp:11:10: fatal error: 'omp.h' file not found
So, because I have gcc-8 from homebrew I tried: export CXX=/usr/local/bin/g++-8 ./configure --prefix=/usr/local make
I got: g++-8: error: unrecognized command line option '-stdlib=libc++'
So, I edited the Makefile and eliminated the "-stdlib=libc++"
That worked all right, and the program seems to do what's supposed to do (it's fast too!)
However, I thought you'd like to fix those issues to help Mac users get a clean first-try installation.
The first one is insisting on using omp.h, which seems to be used only by gcc (I might be wrong about this, am I? Is there a way to point to gcc's omg.h but still compile with clang?), the second wants to use a clang library, even though I was trying to use gcc's g++.
I am also interested in a user friendly solution. I cannot get it installed on mac OS X Sierra, and the workaround described by gaboentropy do not work for me.
@mikeds211. The solution suggested by @gaboentropy should work if you have gcc-8 from homebrew. Can you try installing gcc?
UPDATE: I made some changes to INSTALL.txt and Makefile to allow cleaner install on MacOS using clang. Hopefully this will work for you now.
Just FYI for those who also find themselves with this error- the following command fixed it for me
$ brew install libomp
