However, if the user's application uses native Windows compilers such as MSVC++ or the Intel compilers, or if the resulting executable is to invoked direclty from Windows (not in a cygwin window), then you need to install ATLAS using the MinGW GNU compilers, which provide gcc/gfortran that interoperate with native compilers. To tell ATLAS to build using the MinGW compilers, you should add `-Si nocygwin 1' to your normal configure flags.
If you are using the MinGW compilers, configure will try to autofind the correct MinGW binutils, but this may fail. If configure does not work, you may have to specify where your MinGW binutils are installed, as discussed in Section .
R. Clint Whaley 2016-07-28