mirror of
https://github.com/galaxyproject/galaxy.git
synced 2026-11-03 21:34:30 +08:00
Nicola Soranzo
0c80836c34
using `ack --type=python -f | grep -v '^tools/' | xargs pyupgrade --py37-plus` Also more refactoring of Python files in `packages/` .
160 lines
4.6 KiB
Python
160 lines
4.6 KiB
Python
#!/usr/bin/env python
|
|
|
|
import ast
|
|
import os
|
|
import re
|
|
|
|
try:
|
|
from setuptools import setup
|
|
except ImportError:
|
|
from distutils.core import setup
|
|
|
|
SOURCE_DIR = "galaxy"
|
|
|
|
_version_re = re.compile(r"__version__\s+=\s+(.*)")
|
|
|
|
project_short_name = os.path.basename(os.path.dirname(os.path.realpath(__file__)))
|
|
with open(f"{SOURCE_DIR}/project_galaxy_{project_short_name}.py") as f:
|
|
init_contents = f.read()
|
|
|
|
|
|
def get_var(var_name):
|
|
pattern = re.compile(rf"{var_name}\s+=\s+(.*)")
|
|
match = pattern.search(init_contents).group(1)
|
|
return str(ast.literal_eval(match))
|
|
|
|
|
|
version = get_var("__version__")
|
|
PROJECT_NAME = get_var("PROJECT_NAME")
|
|
PROJECT_URL = get_var("PROJECT_URL")
|
|
PROJECT_AUTHOR = get_var("PROJECT_AUTHOR")
|
|
PROJECT_EMAIL = get_var("PROJECT_EMAIL")
|
|
PROJECT_DESCRIPTION = get_var("PROJECT_DESCRIPTION")
|
|
|
|
TEST_DIR = "tests"
|
|
PACKAGES = [
|
|
"galaxy",
|
|
"galaxy.actions",
|
|
"galaxy.app_unittest_utils",
|
|
"galaxy.authnz",
|
|
"galaxy.dependencies",
|
|
"galaxy.forms",
|
|
"galaxy.jobs",
|
|
"galaxy.jobs.rules",
|
|
"galaxy.jobs.runners",
|
|
"galaxy.jobs.runners.state_handlers",
|
|
"galaxy.jobs.runners.util",
|
|
"galaxy.jobs.runners.util.cli",
|
|
"galaxy.jobs.runners.util.cli.job",
|
|
"galaxy.jobs.runners.util.cli.shell",
|
|
"galaxy.jobs.runners.util.condor",
|
|
"galaxy.jobs.runners.util.job_script",
|
|
"galaxy.jobs.splitters",
|
|
"galaxy.managers",
|
|
"galaxy.tools",
|
|
"galaxy.tools.actions",
|
|
"galaxy.tools.data",
|
|
"galaxy.tools.data_manager",
|
|
"galaxy.tools.error_reports",
|
|
"galaxy.tools.expressions",
|
|
"galaxy.tools.filters",
|
|
"galaxy.tools.imp_exp",
|
|
"galaxy.tools.parameters",
|
|
"galaxy.tools.search",
|
|
"galaxy.tools.util",
|
|
"galaxy.tools.util.galaxyops",
|
|
"galaxy.tool_shed",
|
|
"galaxy.tool_shed.galaxy_install",
|
|
"galaxy.tool_shed.galaxy_install.datatypes",
|
|
"galaxy.tool_shed.galaxy_install.metadata",
|
|
"galaxy.tool_shed.galaxy_install.repository_dependencies",
|
|
"galaxy.tool_shed.galaxy_install.tool_dependencies",
|
|
"galaxy.tool_shed.galaxy_install.tool_dependencies.recipe",
|
|
"galaxy.tool_shed.galaxy_install.tools",
|
|
"galaxy.tool_shed.util",
|
|
"galaxy.tool_shed.metadata",
|
|
"galaxy.tool_shed.tools",
|
|
"galaxy.tours",
|
|
"galaxy.visualization",
|
|
"galaxy.visualization.data_providers",
|
|
"galaxy.visualization.data_providers.phyloviz",
|
|
"galaxy.visualization.genome",
|
|
"galaxy.visualization.plugins",
|
|
"galaxy.visualization.tracks",
|
|
"galaxy.webhooks",
|
|
"galaxy.work",
|
|
"galaxy.workflow",
|
|
"galaxy.workflow.refactor",
|
|
"galaxy.workflow.reports",
|
|
"galaxy.workflow.resources",
|
|
"galaxy.workflow.schedulers",
|
|
"galaxy_ext",
|
|
"galaxy_ext.container_monitor",
|
|
"galaxy_ext.expressions",
|
|
"galaxy_ext.metadata",
|
|
]
|
|
ENTRY_POINTS = """
|
|
[console_scripts]
|
|
galaxy-main=galaxy.main:main
|
|
"""
|
|
PACKAGE_DATA = {
|
|
# Be sure to update MANIFEST.in for source dist.
|
|
"tool_shed": [
|
|
"scripts/bootstrap_tool_shed/user_info.xml",
|
|
],
|
|
}
|
|
PACKAGE_DIR = {
|
|
SOURCE_DIR: SOURCE_DIR,
|
|
}
|
|
|
|
readme = open("README.rst").read()
|
|
history = open("HISTORY.rst").read().replace(".. :changelog:", "")
|
|
|
|
if os.path.exists("requirements.txt"):
|
|
requirements = open("requirements.txt").read().split("\n")
|
|
else:
|
|
# In tox, it will cover them anyway.
|
|
requirements = []
|
|
|
|
|
|
test_requirements = open("test-requirements.txt").read().split("\n")
|
|
|
|
|
|
setup(
|
|
name=PROJECT_NAME,
|
|
version=version,
|
|
description=PROJECT_DESCRIPTION,
|
|
long_description=readme + "\n\n" + history,
|
|
long_description_content_type="text/x-rst",
|
|
author=PROJECT_AUTHOR,
|
|
author_email=PROJECT_EMAIL,
|
|
url=PROJECT_URL,
|
|
packages=PACKAGES,
|
|
entry_points=ENTRY_POINTS,
|
|
package_data=PACKAGE_DATA,
|
|
package_dir=PACKAGE_DIR,
|
|
include_package_data=True,
|
|
install_requires=requirements,
|
|
license="AFL",
|
|
zip_safe=False,
|
|
keywords="galaxy",
|
|
classifiers=[
|
|
"Development Status :: 5 - Production/Stable",
|
|
"Intended Audience :: Developers",
|
|
"Environment :: Console",
|
|
"License :: OSI Approved :: Academic Free License (AFL)",
|
|
"Operating System :: POSIX",
|
|
"Topic :: Software Development",
|
|
"Topic :: Software Development :: Code Generators",
|
|
"Topic :: Software Development :: Testing",
|
|
"Natural Language :: English",
|
|
"Programming Language :: Python :: 3",
|
|
"Programming Language :: Python :: 3.7",
|
|
"Programming Language :: Python :: 3.8",
|
|
"Programming Language :: Python :: 3.9",
|
|
"Programming Language :: Python :: 3.10",
|
|
],
|
|
test_suite=TEST_DIR,
|
|
tests_require=test_requirements,
|
|
)
|