setup.py

import sys
if sys.version_info < (3,):
    raise Exception("""
You are running Python {}.
This version of pmagpy is only compatible with Python 3.
Make sure you have pip ≥ 9.0 to avoid this kind of issue,
as well as setuptools ≥ 24.2:

 $ pip install pip setuptools --upgrade

Then you should be able to download the correct version of pmagpy:

 $ pip install pmagpy --upgrade

If this still gives you an error, please report the issue:
https://github.com/PmagPy/PmagPy/issues

Thanks!

""".format(sys.version))

# Always prefer setuptools over distutils
from setuptools import setup, find_packages
# To use a consistent encoding
from codecs import open
import os
from os import path
import glob
from pmagpy import version

version_num = version.version.strip('pmagpy-')
packages = find_packages(exclude=['programs', 'pmagpy_tests',
                                  'programs.conversion_scripts',
                                  'programs.conversion_scripts2',
                                  #'dialogs',
                                  'pmagpy_tests.examples', 'pmag_env',
                                  'pmagpy_tests.examples.my_project',
                                  'pmagpy_tests.examples.empty_dir',
                                  'pmagpy_tests.examples.my_project_with_errors'])
packages.append('pmag_env')
print('packages', packages)



here = path.abspath(path.dirname(__file__))

def do_walk(data_path):
    """
    Walk through data_files and list all in dict format
    """
    data_files = {}
    def cond(File, prefix):
        """
        Return True for useful files
        Return False for non-useful files
        """
        file_path = path.join(prefix, 'data_files', File)
        return (not File.startswith('!') and
                not File.endswith('~') and
                not File.endswith('#') and
                not File.endswith('.pyc') and
                not File.startswith('.') and
                path.exists(path.join(prefix, File)))

    for (dir_path, dirs, files) in os.walk(data_path):
        data_files[dir_path] = [f for f in files if cond(f, dir_path)]
        if not dirs:
            continue
        else:
            for Dir in dirs:
                do_walk(path.join(dir_path, Dir))
    return data_files

def parse_dict(dictionary):
    formatted = []
    formatted_dict = {}
    for key in list(dictionary.keys()):
        files = dictionary.pop(key)
        formatted_files = [path.join(key, f) for f in files]
        #ind = key.index('/data_files') + len('/data_files/')
        ind = key.index('data_files') + len('data_files/')
        new_key = key[ind:]
        #new_key = os.path.join('pmagpy_data_files', new_key)
        new_key = os.path.join('data_files', new_key)
        formatted.append((new_key, formatted_files))
        formatted_dict[new_key] = formatted_files
    return formatted, formatted_dict

# get formatted list of data_files for setup()
#data_files = do_walk(path.join(here, 'data_files'))
data_files = do_walk('data_files')
formatted, formatted_dict = parse_dict(data_files)
# add notebooks
notebooks = glob.glob("*.ipynb")
for notebook in notebooks:
    formatted.append(('data_files', [notebook]))


# Get the long description from the README file
#with open(path.join(here, 'README.md'), encoding='utf-8') as f:
#        long_description = f.read()

# skip the html part
with open('README.md', encoding='utf-8') as f:
    lines = f.readlines()[14:]
    long_description = "\n".join(lines)


setup(
        name='pmagpy',

        # Versions should comply with PEP440.  For a discussion on single-sourcing
        # the version across setup.py and the project code, see
        # https://packaging.python.org/en/latest/single_source_version.html
        version=version_num,

        description='Analysis tools for paleo/rock magnetic data',
        long_description=long_description,

        # The project's main homepage.
        url='https://github.com/PmagPy/PmagPy',

        # Author details
        author='PmagPy team',
        author_email='ltauxe@ucsd.edu',

        # Choose your license
        license='BSD-3',

        classifiers=[
                    # How mature is this project? Common values are
                    #   3 - Alpha
                    #   4 - Beta
                    #   5 - Production/Stable
                    'Development Status :: 4 - Beta',

                    # Indicate who your project is intended for
                    #'Intended Audience :: Geologists',

                    # Pick your license as you wish (should match "license" above)
                    'License :: OSI Approved :: MIT License',

                    # Specify the Python versions you support here. In particular, ensure
                    # that you indicate whether you support Python 2, Python 3 or both.
                    'Programming Language :: Python :: 2',
                    'Programming Language :: Python :: 2.6',
                    'Programming Language :: Python :: 2.7',
                    'Programming Language :: Python :: 3',
                    'Programming Language :: Python :: 3.5',
                    'Programming Language :: Python :: 3.6',

    ],

    keywords='geology paleomagnetism',

    # won't install if user has python 2
    python_requires='>=3.4',


    # You can just specify the packages manually here if your project is
    # simple. Or you can use find_packages().
    packages=packages,
    #packages=find_packages(exclude=['programs', 'pmagpy_tests',
    #                                'dialogs',
    #                                'pmagpy_tests.examples', 'pmag_env',
    #                                'pmagpy_tests.examples.my_project',
    #                                'pmagpy_tests.examples.empty_dir',
    #                                'pmagpy_tests.examples.my_project_with_errors']),


    # List run-time dependencies here.  These will be installed by pip when
    # your project is installed. For an analysis of "install_requires" vs pip's
    # requirements files see:
    # https://packaging.python.org/en/latest/requirements.html
    #install_requires=['cython', 'numpy', 'matplotlib', 'future', 'appdirs', 'pandas', 'scipy', 'cartopy'],

    # List additional groups of dependencies here (e.g. development
    # dependencies). You can install these using the following syntax,
    # for example:
    # $ pip install -e .[dev,test]
    #extras_require={
    #            'dev': ['check-manifest'],
    #            'test': ['coverage'],
    #        },

    # If there are data files included in your packages that need to be
    # installed, specify them here.  If using Python 2.6 or less, then these
    # have to be included in MANIFEST.in as well.
    #
    # removing MANIFEST.in doesn't help
    # changing this to False breaks data model, etc.
    # but it prevents this error:
    ##  setup() arguments must *always* be /-separated paths relative to the
    ## setup.py directory, *never* absolute paths.
    include_package_data=True,
    #package_data={
    #            'zebra': ['demag_gui.log'],
    #        },

    # Although 'package_data' is the preferred approach, in some case you may
    # need to place data files outside of your packages. See:
    # http://docs.python.org/3.4/distutils/setupscript.html#installing-additional-files # noqa
    # In this case, 'data_file' will be installed into '<sys.prefix>/my_data'
    data_files=formatted,

    # To provide executable scripts, use entry points in preference to the
    # "scripts" keyword. Entry points provide cross-platform support and allow
    # pip to create the appropriate form of executable for the target platform.
    entry_points={
                'console_scripts': [
                                'pmagpy=pmagpy:main',
                            ],
            },
)