https://doi.org/10.5281/zenodo.3597474
setup.py
import setuptools
from setuptools import setup
install_deps = [
'numpy>=1.20.0',
'scipy',
'scikit-learn',
'tqdm',
'torch>=2.1.0',
'numba',
'faiss-cpu',
'psutil',
'matplotlib'
]
gui_deps = [
'pyqtgraph>=0.13.0',
'qtpy',
'pyqt6',
'pyqt6.sip',
]
docs_deps = [
'sphinx>=3.0',
'sphinxcontrib-apidoc',
'nbsphinx',
'myst_parser',
'sphinx_rtd_theme',
'pandoc'
]
### remove torch install if already installed
try:
import torch
a = torch.ones(2, 3)
version = int(torch.__version__.split(".")[1])
if version >= 6:
install_deps.remove("torch>=1.6")
except:
pass
### remove pyqt6 install if other qt backend installed
try:
import PyQt5
gui_deps.remove("pyqt6")
gui_deps.remove("pyqt6.sip")
gui_deps.append("pyqt5")
gui_deps.append("pyqt5.sip")
except:
pass
try:
import PySide2
gui_deps.remove("pyqt6")
gui_deps.remove("pyqt6.sip")
except:
pass
try:
import PySide6
gui_deps.remove("pyqt6")
gui_deps.remove("pyqt6.sip")
except:
pass
with open("README.md", "r") as fh:
long_description = fh.read()
setup(
name="kilosort",
python_requires='>=3.9',
license="BSD",
author="Marius Pachitariu",
author_email="pachitarium@janelia.hhmi.org",
description="spike sorting pipeline",
long_description=long_description,
long_description_content_type="text/markdown",
url="https://github.com/MouseLand/kilosort",
setup_requires=[
'pytest-runner',
'setuptools-scm',
],
packages=setuptools.find_packages(),
use_scm_version=True,
install_requires=install_deps,
tests_require=[
'pytest'
],
extras_require={
'docs': docs_deps,
'gui': gui_deps,
'all': gui_deps,
},
include_package_data=True,
classifiers=[
"Programming Language :: Python :: 3",
"License :: OSI Approved :: GNU General Public License v3 (GPLv3)",
"Operating System :: OS Independent",
],
entry_points={
'console_scripts': [
]
}
)