setup.py

#!/usr/bin/env python

import os
from setuptools import setup
from setuptools.extension import Extension
import sysconfig
import pybind11


# All package metadata is contained in `pyproject.toml`.
# Here, we only run code to set up environment variables for compilation of
# the binary extension and register it with the `ext_modules` argument.

LIBOMP_INCLUDE = os.environ['LIBOMP_INCLUDE']
PYBIND11_INCLUDE = os.path.join(pybind11.__path__[0], "include")
if os.name == 'posix':  # macOS or Linux
    LIBDIR = sysconfig.get_config_var('LIBDIR')
elif os.name == 'nt':  # Windows
    LIBDIR = sysconfig.get_config_var('LIBDEST')

BEMEWS = Extension('BEMEWS._ext',
                   define_macros = [('MAJOR_VERSION', '1'), ('MINOR_VERSION', '0')],
                   include_dirs = [LIBOMP_INCLUDE, PYBIND11_INCLUDE, './src/BEMEWS/_ext', './src/BEMEWS/_ext/mstl', './src/BEMEWS/_ext/mstl/math2', './src/BEMEWS/_ext/mstl/math2/algebra', './src/BEMEWS/_ext/mstl/math2/analysis', './src/BEMEWS/_ext/mstl/math2/spline', './src/BEMEWS/_ext/mstl/physics'],
                   # libraries = ['stdc++', 'm', 'gomp', 'python3'],
                   library_dirs = [LIBDIR],
                   extra_compile_args = ['-std=c++17', '-fPIC', '-nostartfiles'],
                   # extra_link_args = ['-shared'],
                   sources = ['./src/BEMEWS/_ext/BEMEWS.cpp', './src/BEMEWS/_ext/adiabatic_basis.cpp', './src/BEMEWS/_ext/eigenvalues.cpp', './src/BEMEWS/_ext/flavour_basis.cpp', './src/BEMEWS/_ext/input_class.BEMEWS.cpp', './src/BEMEWS/_ext/jacobians.cpp', './src/BEMEWS/_ext/mixing_angles.cpp', './src/BEMEWS/_ext/output.BEMEWS.cpp', './src/BEMEWS/_ext/output_matrix.BEMEWS.cpp', './src/BEMEWS/_ext/parameters.cpp', './src/BEMEWS/_ext/potentials.cpp', './src/BEMEWS/_ext/RK.BEMEWS.cpp', './src/BEMEWS/_ext/update.BEMEWS.cpp', './src/BEMEWS/_ext/mstl/errors2.cpp', './src/BEMEWS/_ext/mstl/messages.cpp', './src/BEMEWS/_ext/mstl/miscellaneous functions.cpp', './src/BEMEWS/_ext/mstl/stdarg2.cpp', './src/BEMEWS/_ext/mstl/math2/algebra/column and row vectors.cpp', './src/BEMEWS/_ext/mstl/math2/algebra/linear algebra.cpp', './src/BEMEWS/_ext/mstl/math2/algebra/mmatrix.cpp', './src/BEMEWS/_ext/mstl/math2/analysis/algorithm3.cpp', './src/BEMEWS/_ext/mstl/math2/analysis/complex2.cpp', './src/BEMEWS/_ext/mstl/math2/analysis/derivative.cpp', './src/BEMEWS/_ext/mstl/math2/analysis/polynomial.cpp', './src/BEMEWS/_ext/mstl/math2/analysis/roots.cpp', './src/BEMEWS/_ext/mstl/math2/analysis/runge kutta.cpp', './src/BEMEWS/_ext/mstl/math2/analysis/special functions.cpp', './src/BEMEWS/_ext/mstl/math2/spline/discontinuous.cpp', './src/BEMEWS/_ext/mstl/math2/spline/interpolation data.cpp', './src/BEMEWS/_ext/mstl/physics/units and constants.cpp'])

setup(ext_modules=[BEMEWS])