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#!/usr/bin/env python
# -----------------------------------------------------------------------------
# Copyright (c) 2013, The Qiita Development Team.
#
# Distributed under the terms of the BSD 3-clause License.
#
# The full license is in the file LICENSE, distributed with this software.
# -----------------------------------------------------------------------------
from glob import glob
from setuptools import setup
__version__ = "2026.01"
classes = """
Development Status :: 5 - Production/Stable
License :: OSI Approved :: BSD License
Topic :: Scientific/Engineering :: Bio-Informatics
Topic :: Software Development :: Libraries :: Application Frameworks
Topic :: Software Development :: Libraries :: Python Modules
Programming Language :: Python
Programming Language :: Python :: 3.6
Programming Language :: Python :: Implementation :: CPython
Operating System :: POSIX :: Linux
Operating System :: MacOS :: MacOS X
"""
with open("README.rst") as f:
long_description = f.read()
classifiers = [s.strip() for s in classes.split("\n") if s]
setup(
name="qiita-spots",
version=__version__,
long_description=long_description,
license="BSD",
description="Qiita: Spot Patterns",
author="Qiita development team",
author_email="qiita.help@gmail.com",
url="https://github.com/biocore/qiita",
test_suite="nose.collector",
packages=[
"qiita_core",
"qiita_db",
"qiita_db/handlers",
"qiita_db/metadata_template",
"qiita_pet",
"qiita_pet/handlers",
"qiita_pet/handlers/study_handlers",
"qiita_pet/handlers/api_proxy",
"qiita_ware",
],
include_package_data=True,
package_data={
"qiita_core": [
"support_files/config_test.cfgsupport_files/ci_server.crt",
"support_files/ci_server.csr",
"support_files/ci_server.key",
],
"qiita_db": [
"support_files/*.sql",
"support_files/patches/*.sql",
"support_files/patches/python_patches/*.py",
"support_files/test_data/preprocessed_data/*",
"support_files/test_data/processed_data/*",
"support_files/test_data/raw_data/*",
"support_files/test_data/analysis/*",
"support_files/test_data/reference/*",
"support_files/test_data/job/*.txt",
"support_files/test_data/job/2_test_folder/*",
"support_files/test_data/uploads/1/a_folder/*.txt",
"support_files/test_data/uploads/1/.hidden_file.txt",
"support_files/test_data/uploads/1/uploaded_file.txt",
"support_files/test_data/templates/*",
"support_files/work_data/*",
],
"qiita_pet": [
"static/css/*.css",
"static/img/*.png",
"static/img/*.gif",
"static/img/*.ico",
"static/js/*.js",
"static/vendor/css/*.css",
"static/vendor/css/images/*.png",
"static/vendor/css/*.png",
"static/vendor/fonts/glyphicons*.*",
"static/vendor/images/*.png",
"static/vendor/js/*.js",
"results/admin/jobname/*.html",
"templates/*.html",
"support_files/config_portal.cfg",
"support_files/doc/Makefile",
"support_files/doc/README.md",
"support_files/doc/source/conf.py",
"support_files/doc/source/*.rst",
"support_files/doc/source/tutorials/*.rst",
"support_files/doc/source/admin/*.rst",
"support_files/doc/source/dev/*.rst",
"support_files/doc/source/qiita-philosophy/*.rst",
"support_files/doc/source/admin/images/*.png",
"support_files/doc/source/tutorials/images/*.png",
"support_files/doc/source/qiita-philosophy/images/*.png",
"support_files/doc/source/_static/*.png",
],
},
scripts=glob("scripts/*"),
# making sure that numpy is installed before biom
setup_requires=["numpy", "cython"],
install_requires=[
"psycopg2",
"click",
"bcrypt",
"pandas<2.0",
"biom-format",
"tornado<6.0",
"toredis",
"redis",
"scp",
"pyparsing",
"h5py",
"natsort",
"nose",
"pep8",
"networkx",
"humanize==4.11",
"wtforms<3.0.0",
"nltk<=3.8.1",
"openpyxl",
"sphinx-bootstrap-theme",
"Sphinx<3.0",
"gitpython",
"redbiom",
"pyzmq",
"sphinx_rtd_theme",
"paramiko",
"seaborn",
"matplotlib",
"scipy<=1.10.1",
"nose",
"ruff",
"six",
"qiita-files @ https://github.com/qiita-spots/qiita-files/archive/master.zip",
"mock",
"python-jose",
"markdown2",
"iteration_utilities",
"supervisor @ https://github.com/Supervisor/supervisor/archive/master.zip",
"joblib",
],
classifiers=classifiers,
)