Old engine for Continuous Time Bayesian Networks. Superseded by reCTBN. 🐍
https://github.com/madlabunimib/PyCTBN
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497 lines
14 KiB
497 lines
14 KiB
4 years ago
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import os
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import sys
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import tempfile
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import operator
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import functools
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import itertools
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import re
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import contextlib
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import pickle
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import textwrap
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import builtins
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import pkg_resources
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from distutils.errors import DistutilsError
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from pkg_resources import working_set
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if sys.platform.startswith('java'):
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import org.python.modules.posix.PosixModule as _os
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else:
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_os = sys.modules[os.name]
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try:
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_file = file
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except NameError:
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_file = None
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_open = open
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__all__ = [
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"AbstractSandbox", "DirectorySandbox", "SandboxViolation", "run_setup",
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]
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def _execfile(filename, globals, locals=None):
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"""
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Python 3 implementation of execfile.
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"""
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mode = 'rb'
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with open(filename, mode) as stream:
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script = stream.read()
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if locals is None:
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locals = globals
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code = compile(script, filename, 'exec')
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exec(code, globals, locals)
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@contextlib.contextmanager
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def save_argv(repl=None):
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saved = sys.argv[:]
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if repl is not None:
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sys.argv[:] = repl
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try:
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yield saved
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finally:
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sys.argv[:] = saved
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@contextlib.contextmanager
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def save_path():
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saved = sys.path[:]
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try:
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yield saved
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finally:
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sys.path[:] = saved
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@contextlib.contextmanager
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def override_temp(replacement):
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"""
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Monkey-patch tempfile.tempdir with replacement, ensuring it exists
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"""
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os.makedirs(replacement, exist_ok=True)
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saved = tempfile.tempdir
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tempfile.tempdir = replacement
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try:
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yield
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finally:
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tempfile.tempdir = saved
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@contextlib.contextmanager
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def pushd(target):
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saved = os.getcwd()
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os.chdir(target)
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try:
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yield saved
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finally:
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os.chdir(saved)
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class UnpickleableException(Exception):
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"""
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An exception representing another Exception that could not be pickled.
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"""
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@staticmethod
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def dump(type, exc):
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"""
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Always return a dumped (pickled) type and exc. If exc can't be pickled,
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wrap it in UnpickleableException first.
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"""
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try:
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return pickle.dumps(type), pickle.dumps(exc)
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except Exception:
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# get UnpickleableException inside the sandbox
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from setuptools.sandbox import UnpickleableException as cls
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return cls.dump(cls, cls(repr(exc)))
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class ExceptionSaver:
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"""
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A Context Manager that will save an exception, serialized, and restore it
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later.
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"""
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def __enter__(self):
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return self
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def __exit__(self, type, exc, tb):
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if not exc:
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return
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# dump the exception
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self._saved = UnpickleableException.dump(type, exc)
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self._tb = tb
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# suppress the exception
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return True
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def resume(self):
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"restore and re-raise any exception"
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if '_saved' not in vars(self):
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return
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type, exc = map(pickle.loads, self._saved)
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raise exc.with_traceback(self._tb)
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@contextlib.contextmanager
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def save_modules():
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"""
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Context in which imported modules are saved.
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Translates exceptions internal to the context into the equivalent exception
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outside the context.
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"""
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saved = sys.modules.copy()
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with ExceptionSaver() as saved_exc:
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yield saved
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sys.modules.update(saved)
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# remove any modules imported since
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del_modules = (
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mod_name for mod_name in sys.modules
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if mod_name not in saved
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# exclude any encodings modules. See #285
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and not mod_name.startswith('encodings.')
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)
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_clear_modules(del_modules)
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saved_exc.resume()
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def _clear_modules(module_names):
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for mod_name in list(module_names):
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del sys.modules[mod_name]
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@contextlib.contextmanager
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def save_pkg_resources_state():
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saved = pkg_resources.__getstate__()
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try:
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yield saved
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finally:
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pkg_resources.__setstate__(saved)
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@contextlib.contextmanager
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def setup_context(setup_dir):
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temp_dir = os.path.join(setup_dir, 'temp')
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with save_pkg_resources_state():
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with save_modules():
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with save_path():
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hide_setuptools()
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with save_argv():
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with override_temp(temp_dir):
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with pushd(setup_dir):
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# ensure setuptools commands are available
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__import__('setuptools')
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yield
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_MODULES_TO_HIDE = {
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'setuptools',
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'distutils',
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'pkg_resources',
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'Cython',
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'_distutils_hack',
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}
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def _needs_hiding(mod_name):
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"""
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>>> _needs_hiding('setuptools')
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True
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>>> _needs_hiding('pkg_resources')
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True
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>>> _needs_hiding('setuptools_plugin')
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False
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>>> _needs_hiding('setuptools.__init__')
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True
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>>> _needs_hiding('distutils')
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True
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>>> _needs_hiding('os')
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False
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>>> _needs_hiding('Cython')
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True
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"""
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base_module = mod_name.split('.', 1)[0]
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return base_module in _MODULES_TO_HIDE
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def hide_setuptools():
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"""
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Remove references to setuptools' modules from sys.modules to allow the
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invocation to import the most appropriate setuptools. This technique is
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necessary to avoid issues such as #315 where setuptools upgrading itself
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would fail to find a function declared in the metadata.
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"""
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_distutils_hack = sys.modules.get('_distutils_hack', None)
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if _distutils_hack is not None:
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_distutils_hack.remove_shim()
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modules = filter(_needs_hiding, sys.modules)
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_clear_modules(modules)
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def run_setup(setup_script, args):
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"""Run a distutils setup script, sandboxed in its directory"""
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setup_dir = os.path.abspath(os.path.dirname(setup_script))
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with setup_context(setup_dir):
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try:
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sys.argv[:] = [setup_script] + list(args)
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sys.path.insert(0, setup_dir)
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# reset to include setup dir, w/clean callback list
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working_set.__init__()
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working_set.callbacks.append(lambda dist: dist.activate())
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with DirectorySandbox(setup_dir):
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ns = dict(__file__=setup_script, __name__='__main__')
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_execfile(setup_script, ns)
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except SystemExit as v:
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if v.args and v.args[0]:
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raise
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# Normal exit, just return
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class AbstractSandbox:
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"""Wrap 'os' module and 'open()' builtin for virtualizing setup scripts"""
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_active = False
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def __init__(self):
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self._attrs = [
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name for name in dir(_os)
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if not name.startswith('_') and hasattr(self, name)
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]
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def _copy(self, source):
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for name in self._attrs:
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setattr(os, name, getattr(source, name))
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def __enter__(self):
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self._copy(self)
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if _file:
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builtins.file = self._file
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builtins.open = self._open
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self._active = True
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def __exit__(self, exc_type, exc_value, traceback):
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self._active = False
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if _file:
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builtins.file = _file
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builtins.open = _open
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self._copy(_os)
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def run(self, func):
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"""Run 'func' under os sandboxing"""
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with self:
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return func()
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def _mk_dual_path_wrapper(name):
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original = getattr(_os, name)
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def wrap(self, src, dst, *args, **kw):
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if self._active:
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src, dst = self._remap_pair(name, src, dst, *args, **kw)
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return original(src, dst, *args, **kw)
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return wrap
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for name in ["rename", "link", "symlink"]:
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if hasattr(_os, name):
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locals()[name] = _mk_dual_path_wrapper(name)
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def _mk_single_path_wrapper(name, original=None):
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original = original or getattr(_os, name)
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def wrap(self, path, *args, **kw):
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if self._active:
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path = self._remap_input(name, path, *args, **kw)
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return original(path, *args, **kw)
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return wrap
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if _file:
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_file = _mk_single_path_wrapper('file', _file)
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_open = _mk_single_path_wrapper('open', _open)
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for name in [
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"stat", "listdir", "chdir", "open", "chmod", "chown", "mkdir",
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"remove", "unlink", "rmdir", "utime", "lchown", "chroot", "lstat",
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"startfile", "mkfifo", "mknod", "pathconf", "access"
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]:
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if hasattr(_os, name):
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locals()[name] = _mk_single_path_wrapper(name)
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def _mk_single_with_return(name):
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original = getattr(_os, name)
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def wrap(self, path, *args, **kw):
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if self._active:
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path = self._remap_input(name, path, *args, **kw)
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return self._remap_output(name, original(path, *args, **kw))
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return original(path, *args, **kw)
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return wrap
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for name in ['readlink', 'tempnam']:
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if hasattr(_os, name):
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locals()[name] = _mk_single_with_return(name)
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def _mk_query(name):
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original = getattr(_os, name)
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def wrap(self, *args, **kw):
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retval = original(*args, **kw)
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if self._active:
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return self._remap_output(name, retval)
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return retval
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return wrap
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for name in ['getcwd', 'tmpnam']:
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if hasattr(_os, name):
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locals()[name] = _mk_query(name)
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def _validate_path(self, path):
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"""Called to remap or validate any path, whether input or output"""
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return path
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def _remap_input(self, operation, path, *args, **kw):
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"""Called for path inputs"""
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return self._validate_path(path)
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def _remap_output(self, operation, path):
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"""Called for path outputs"""
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return self._validate_path(path)
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def _remap_pair(self, operation, src, dst, *args, **kw):
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"""Called for path pairs like rename, link, and symlink operations"""
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return (
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self._remap_input(operation + '-from', src, *args, **kw),
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self._remap_input(operation + '-to', dst, *args, **kw)
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)
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if hasattr(os, 'devnull'):
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_EXCEPTIONS = [os.devnull]
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else:
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_EXCEPTIONS = []
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class DirectorySandbox(AbstractSandbox):
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"""Restrict operations to a single subdirectory - pseudo-chroot"""
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write_ops = dict.fromkeys([
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"open", "chmod", "chown", "mkdir", "remove", "unlink", "rmdir",
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"utime", "lchown", "chroot", "mkfifo", "mknod", "tempnam",
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])
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_exception_patterns = [
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# Allow lib2to3 to attempt to save a pickled grammar object (#121)
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r'.*lib2to3.*\.pickle$',
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]
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"exempt writing to paths that match the pattern"
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def __init__(self, sandbox, exceptions=_EXCEPTIONS):
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self._sandbox = os.path.normcase(os.path.realpath(sandbox))
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self._prefix = os.path.join(self._sandbox, '')
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self._exceptions = [
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os.path.normcase(os.path.realpath(path))
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for path in exceptions
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]
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AbstractSandbox.__init__(self)
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def _violation(self, operation, *args, **kw):
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from setuptools.sandbox import SandboxViolation
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raise SandboxViolation(operation, args, kw)
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if _file:
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def _file(self, path, mode='r', *args, **kw):
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if mode not in ('r', 'rt', 'rb', 'rU', 'U') and not self._ok(path):
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self._violation("file", path, mode, *args, **kw)
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return _file(path, mode, *args, **kw)
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def _open(self, path, mode='r', *args, **kw):
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if mode not in ('r', 'rt', 'rb', 'rU', 'U') and not self._ok(path):
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self._violation("open", path, mode, *args, **kw)
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return _open(path, mode, *args, **kw)
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def tmpnam(self):
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self._violation("tmpnam")
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def _ok(self, path):
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active = self._active
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try:
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self._active = False
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realpath = os.path.normcase(os.path.realpath(path))
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return (
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self._exempted(realpath)
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or realpath == self._sandbox
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or realpath.startswith(self._prefix)
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)
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finally:
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self._active = active
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def _exempted(self, filepath):
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start_matches = (
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filepath.startswith(exception)
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for exception in self._exceptions
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)
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pattern_matches = (
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re.match(pattern, filepath)
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for pattern in self._exception_patterns
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)
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candidates = itertools.chain(start_matches, pattern_matches)
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return any(candidates)
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def _remap_input(self, operation, path, *args, **kw):
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"""Called for path inputs"""
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if operation in self.write_ops and not self._ok(path):
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self._violation(operation, os.path.realpath(path), *args, **kw)
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return path
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def _remap_pair(self, operation, src, dst, *args, **kw):
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"""Called for path pairs like rename, link, and symlink operations"""
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if not self._ok(src) or not self._ok(dst):
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self._violation(operation, src, dst, *args, **kw)
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return (src, dst)
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def open(self, file, flags, mode=0o777, *args, **kw):
|
||
|
"""Called for low-level os.open()"""
|
||
|
if flags & WRITE_FLAGS and not self._ok(file):
|
||
|
self._violation("os.open", file, flags, mode, *args, **kw)
|
||
|
return _os.open(file, flags, mode, *args, **kw)
|
||
|
|
||
|
|
||
|
WRITE_FLAGS = functools.reduce(
|
||
|
operator.or_, [
|
||
|
getattr(_os, a, 0) for a in
|
||
|
"O_WRONLY O_RDWR O_APPEND O_CREAT O_TRUNC O_TEMPORARY".split()]
|
||
|
)
|
||
|
|
||
|
|
||
|
class SandboxViolation(DistutilsError):
|
||
|
"""A setup script attempted to modify the filesystem outside the sandbox"""
|
||
|
|
||
|
tmpl = textwrap.dedent("""
|
||
|
SandboxViolation: {cmd}{args!r} {kwargs}
|
||
|
|
||
|
The package setup script has attempted to modify files on your system
|
||
|
that are not within the EasyInstall build area, and has been aborted.
|
||
|
|
||
|
This package cannot be safely installed by EasyInstall, and may not
|
||
|
support alternate installation locations even if you run its setup
|
||
|
script by hand. Please inform the package's author and the EasyInstall
|
||
|
maintainers to find out if a fix or workaround is available.
|
||
|
""").lstrip()
|
||
|
|
||
|
def __str__(self):
|
||
|
cmd, args, kwargs = self.args
|
||
|
return self.tmpl.format(**locals())
|