setup.py

#!/usr/bin/env python3
# Part of TotalDepth: Petrophysical data processing and presentation
# Copyright (C) 2011-2021 Paul Ross
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation; either version 2 of the License, or
# (at your option) any later version.
#
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License along
# with this program; if not, write to the Free Software Foundation, Inc.,
# 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
#
# Paul Ross: apaulross@gmail.com
"""The setup script.
copyright 2010-2020, Paul Ross
"""
import os
import sysconfig

from setuptools import Extension, setup, find_packages

COPYRIGHT = '2010-2020, Paul Ross'

# from Cython.Build import cythonize

# Mac OS:
# MACOSX_DEPLOYMENT_TARGET=10.9 CC=clang CXX=clang++ python setup.py develop

# Obtain TotalDepth.ENTRY_POINTS_CONSOLE_SCRIPTS as we can't import TotalDepth
with open(os.path.join('src', 'TotalDepth', '__init__.py')) as init_file:
    code = compile(init_file.read(), __file__, 'exec')
    exec(code)

with open('README.rst') as readme_file:
    readme = readme_file.read()

with open('HISTORY.rst') as history_file:
    history = history_file.read()

install_requirements = [
    'Cython',
    'Pillow',
    'beautifulsoup4',
    'colorama',
    'lxml',
    'numpy',
    'psutil',
    'requests',
]

setup_requirements = [
    'setuptools>=18.0',
    'Cython',
    'wheel',
    'pytest-runner',
]

test_requirements = [
    'pytest',
    'asv',
]

XML_FORMAT_FILES = [
    'src/TotalDepth/util/plot/formats/Azimuthal_Density_3Track.xml',
    'src/TotalDepth/util/plot/formats/Azimuthal_Density_Image.xml',
    'src/TotalDepth/util/plot/formats/Azimuthal_Resistivity_3Track.xml',
    'src/TotalDepth/util/plot/formats/Blank_3Track_Depth.xml',
    'src/TotalDepth/util/plot/formats/Blank_3Track_Time.xml',
    'src/TotalDepth/util/plot/formats/Formation_Micro_Image_Aligned.xml',
    'src/TotalDepth/util/plot/formats/Formation_Micro_Image_Processed.xml',
    'src/TotalDepth/util/plot/formats/Formation_Test_Time.xml',
    'src/TotalDepth/util/plot/formats/HDT.xml',
    'src/TotalDepth/util/plot/formats/Micro_Resistivity_3Track.xml',
    'src/TotalDepth/util/plot/formats/Natural_GR_Spectrometry_3Track.xml',
    'src/TotalDepth/util/plot/formats/OilBaseMicroImager_Equalized.xml',
    'src/TotalDepth/util/plot/formats/Porosity_GR_3Track.xml',
    'src/TotalDepth/util/plot/formats/Pulsed_Neutron_3Track.xml',
    'src/TotalDepth/util/plot/formats/Pulsed_Neutron_Time.xml',
    'src/TotalDepth/util/plot/formats/Resistivity_3Track_Correlation.xml',
    'src/TotalDepth/util/plot/formats/Resistivity_3Track_Logrithmic.xml',
    'src/TotalDepth/util/plot/formats/Resistivity_Porosity_GR_3Track.xml',
    'src/TotalDepth/util/plot/formats/Resistivity_Radial_Investigation_Image.xml',
    'src/TotalDepth/util/plot/formats/Resistivity_at_the_Bit.xml',
    'src/TotalDepth/util/plot/formats/Resistivity_at_the_bit_deep_image.xml',
    'src/TotalDepth/util/plot/formats/Resistivity_at_the_bit_medium_image.xml',
    'src/TotalDepth/util/plot/formats/Resistivity_at_the_bit_shallow_image.xml',
    'src/TotalDepth/util/plot/formats/Sonic_3Track.xml',
    'src/TotalDepth/util/plot/formats/Sonic_LowerDipole_VDL.xml',
    'src/TotalDepth/util/plot/formats/Sonic_P_S_VDL.xml',
    'src/TotalDepth/util/plot/formats/Sonic_Stonely_VDL.xml',
    'src/TotalDepth/util/plot/formats/Sonic_UpperDipole_VDL.xml',
    'src/TotalDepth/util/plot/formats/Sonic_Waveform4_Depth.xml',
]

XML_FORMAT_FILES = [os.path.join(*p.split('/')) for p in XML_FORMAT_FILES]

data_files = [
    # XML Format files
    (
        os.path.join('TotalDepth', 'util', 'plot', 'formats'),
        XML_FORMAT_FILES
    ),
    # Example data
    (
        os.path.join('TotalDepth', 'example_data', 'BIT', 'data'),
        (
            os.path.join('example_data', 'BIT', 'data', '29_10-_3Z_dwl_DWL_WIRE_1644659.bit'),
        ),
    ),
    (
        os.path.join('TotalDepth', 'example_data', 'LAS', 'data'),
        (
            os.path.join('example_data', 'LAS', 'data', '1000079714.las'),
            os.path.join('example_data', 'LAS', 'data', '206_05a-_3_DWL_DWL_WIRE_258276498_0_2000T.las'),
            os.path.join('example_data', 'LAS', 'data', 'BASIC_FILE_0_50.las'),
        ),
    ),
    (
        os.path.join('TotalDepth', 'example_data', 'LIS', 'data'),
        (
            os.path.join('example_data', 'LIS', 'data', 'DILLSON-1_WELL_LOGS_FILE-013.LIS'),
            os.path.join('example_data', 'LIS', 'data', 'DILLSON-1_WELL_LOGS_FILE-037.LIS'),
            os.path.join('example_data', 'LIS', 'data', 'DILLSON-1_WELL_LOGS_FILE-049.LIS'),
        ),
    ),
    (
        os.path.join('TotalDepth', 'example_data', 'RP66V1', 'data'),
        (
            os.path.join('example_data', 'RP66V1', 'data', '206_05a-_3_DWL_DWL_WIRE_258276498.DLIS'),
            os.path.join('example_data', 'RP66V1', 'data', 'BASIC_FILE.dlis'),
            os.path.join('example_data', 'RP66V1', 'data', 'BASIC_FILE_WITH_TWO_VISIBLE_RECORDS_NO_IFLRS.dlis'),
            os.path.join('example_data', 'RP66V1', 'data', 'MINIMAL_FILE.dlis'),
        ),
    ),
    # Static units data
    (
        os.path.join('TotalDepth', 'common', 'data',),
        (
            os.path.join('src', 'TotalDepth', 'common', 'data', 'osdd_units.json'),
        ),
    ),
]

# ext_modules = cythonize(
#     module_list="src/TotalDepth/LIS/core/*.pyx",
# )

extra_compile_args = []
cflags = sysconfig.get_config_var('CFLAGS')
if cflags != None:
    extra_compile_args = sysconfig.get_config_var('CFLAGS').split()

ext_modules = [
    Extension(
        "TotalDepth.LIS.core.cRepCode",
        sources=[
            "src/TotalDepth/LIS/core/src/cython/cRepCode.pyx",
        ]
    ),
    Extension(
        "TotalDepth.LIS.core.cFrameSet",
        sources=[
            "src/TotalDepth/LIS/core/src/cython/cFrameSet.pyx",
        ]
    ),
    Extension(
        "TotalDepth.LIS.core.cpRepCode",
        sources=[
            "src/TotalDepth/LIS/core/src/cp/cpLISRepCode.cpp",
            "src/TotalDepth/LIS/core/src/cpp/LISRepCode.cpp",
        ],
        extra_compile_args=extra_compile_args + [
            "-Isrc/TotalDepth/LIS/core/src/cp",
            "-Isrc/TotalDepth/LIS/core/src/cpp",
            '-std=c++14',
        ],
    ),
]



setup(
    name='TotalDepth',
    version='0.4.0',
    description="TotalDepth is a software collection that can process petrophysical data such as wireline logs.",
    long_description=readme + '\n\n' + history,
    long_description_content_type='text/x-rst',
    author="Paul Ross",
    author_email='apaulross@gmail.com',
    url='https://github.com/paulross/TotalDepth',
    packages=find_packages('src'),
    package_dir={'' : 'src'},
    # package_data={'' : ['TotalDepth/util/plot/formats/*.xml']},
    data_files=data_files,
    entry_points={
        'console_scripts': ENTRY_POINTS_CONSOLE_SCRIPTS,
    },
    include_package_data=True,
    license="GPLv2",
    zip_safe=False,
    keywords='TotalDepth',
    classifiers=[
        'Development Status :: 5 - Production/Stable',
        'Intended Audience :: Developers',
        'License :: OSI Approved :: GNU General Public License v2 (GPLv2)',
        'Natural Language :: English',
        'Programming Language :: Python :: 3',
        'Programming Language :: Python :: 3.7',
        'Programming Language :: Python :: 3.8',
        'Programming Language :: Python :: 3.9',
    ],
    test_suite='tests',
    setup_requires=setup_requirements,
    install_requires=install_requirements,
    tests_require=test_requirements,
    # cmdclass = {'build_ext': build_ext},
    ext_modules=ext_modules
)