Old engine for Continuous Time Bayesian Networks. Superseded by reCTBN. 🐍
https://github.com/madlabunimib/PyCTBN
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281 lines
9.3 KiB
281 lines
9.3 KiB
"""Utilities related archives.
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"""
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from __future__ import absolute_import
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import logging
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import os
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import shutil
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import stat
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import tarfile
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import zipfile
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from pip._internal.exceptions import InstallationError
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from pip._internal.utils.filetypes import (
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BZ2_EXTENSIONS,
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TAR_EXTENSIONS,
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XZ_EXTENSIONS,
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ZIP_EXTENSIONS,
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)
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from pip._internal.utils.misc import ensure_dir
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from pip._internal.utils.typing import MYPY_CHECK_RUNNING
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if MYPY_CHECK_RUNNING:
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from typing import Iterable, List, Optional, Text, Union
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from zipfile import ZipInfo
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logger = logging.getLogger(__name__)
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SUPPORTED_EXTENSIONS = ZIP_EXTENSIONS + TAR_EXTENSIONS
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try:
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import bz2 # noqa
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SUPPORTED_EXTENSIONS += BZ2_EXTENSIONS
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except ImportError:
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logger.debug('bz2 module is not available')
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try:
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# Only for Python 3.3+
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import lzma # noqa
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SUPPORTED_EXTENSIONS += XZ_EXTENSIONS
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except ImportError:
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logger.debug('lzma module is not available')
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def current_umask():
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# type: () -> int
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"""Get the current umask which involves having to set it temporarily."""
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mask = os.umask(0)
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os.umask(mask)
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return mask
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def split_leading_dir(path):
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# type: (Union[str, Text]) -> List[Union[str, Text]]
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path = path.lstrip('/').lstrip('\\')
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if (
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'/' in path and (
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('\\' in path and path.find('/') < path.find('\\')) or
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'\\' not in path
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)
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):
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return path.split('/', 1)
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elif '\\' in path:
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return path.split('\\', 1)
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else:
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return [path, '']
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def has_leading_dir(paths):
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# type: (Iterable[Union[str, Text]]) -> bool
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"""Returns true if all the paths have the same leading path name
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(i.e., everything is in one subdirectory in an archive)"""
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common_prefix = None
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for path in paths:
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prefix, rest = split_leading_dir(path)
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if not prefix:
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return False
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elif common_prefix is None:
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common_prefix = prefix
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elif prefix != common_prefix:
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return False
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return True
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def is_within_directory(directory, target):
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# type: ((Union[str, Text]), (Union[str, Text])) -> bool
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"""
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Return true if the absolute path of target is within the directory
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"""
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abs_directory = os.path.abspath(directory)
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abs_target = os.path.abspath(target)
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prefix = os.path.commonprefix([abs_directory, abs_target])
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return prefix == abs_directory
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def set_extracted_file_to_default_mode_plus_executable(path):
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# type: (Union[str, Text]) -> None
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"""
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Make file present at path have execute for user/group/world
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(chmod +x) is no-op on windows per python docs
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"""
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os.chmod(path, (0o777 & ~current_umask() | 0o111))
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def zip_item_is_executable(info):
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# type: (ZipInfo) -> bool
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mode = info.external_attr >> 16
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# if mode and regular file and any execute permissions for
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# user/group/world?
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return bool(mode and stat.S_ISREG(mode) and mode & 0o111)
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def unzip_file(filename, location, flatten=True):
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# type: (str, str, bool) -> None
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"""
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Unzip the file (with path `filename`) to the destination `location`. All
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files are written based on system defaults and umask (i.e. permissions are
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not preserved), except that regular file members with any execute
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permissions (user, group, or world) have "chmod +x" applied after being
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written. Note that for windows, any execute changes using os.chmod are
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no-ops per the python docs.
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"""
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ensure_dir(location)
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zipfp = open(filename, 'rb')
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try:
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zip = zipfile.ZipFile(zipfp, allowZip64=True)
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leading = has_leading_dir(zip.namelist()) and flatten
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for info in zip.infolist():
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name = info.filename
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fn = name
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if leading:
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fn = split_leading_dir(name)[1]
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fn = os.path.join(location, fn)
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dir = os.path.dirname(fn)
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if not is_within_directory(location, fn):
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message = (
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'The zip file ({}) has a file ({}) trying to install '
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'outside target directory ({})'
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)
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raise InstallationError(message.format(filename, fn, location))
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if fn.endswith('/') or fn.endswith('\\'):
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# A directory
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ensure_dir(fn)
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else:
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ensure_dir(dir)
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# Don't use read() to avoid allocating an arbitrarily large
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# chunk of memory for the file's content
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fp = zip.open(name)
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try:
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with open(fn, 'wb') as destfp:
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shutil.copyfileobj(fp, destfp)
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finally:
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fp.close()
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if zip_item_is_executable(info):
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set_extracted_file_to_default_mode_plus_executable(fn)
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finally:
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zipfp.close()
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def untar_file(filename, location):
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# type: (str, str) -> None
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"""
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Untar the file (with path `filename`) to the destination `location`.
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All files are written based on system defaults and umask (i.e. permissions
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are not preserved), except that regular file members with any execute
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permissions (user, group, or world) have "chmod +x" applied after being
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written. Note that for windows, any execute changes using os.chmod are
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no-ops per the python docs.
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"""
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ensure_dir(location)
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if filename.lower().endswith('.gz') or filename.lower().endswith('.tgz'):
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mode = 'r:gz'
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elif filename.lower().endswith(BZ2_EXTENSIONS):
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mode = 'r:bz2'
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elif filename.lower().endswith(XZ_EXTENSIONS):
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mode = 'r:xz'
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elif filename.lower().endswith('.tar'):
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mode = 'r'
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else:
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logger.warning(
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'Cannot determine compression type for file %s', filename,
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)
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mode = 'r:*'
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tar = tarfile.open(filename, mode)
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try:
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leading = has_leading_dir([
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member.name for member in tar.getmembers()
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])
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for member in tar.getmembers():
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fn = member.name
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if leading:
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# https://github.com/python/mypy/issues/1174
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fn = split_leading_dir(fn)[1] # type: ignore
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path = os.path.join(location, fn)
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if not is_within_directory(location, path):
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message = (
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'The tar file ({}) has a file ({}) trying to install '
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'outside target directory ({})'
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)
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raise InstallationError(
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message.format(filename, path, location)
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)
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if member.isdir():
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ensure_dir(path)
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elif member.issym():
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try:
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# https://github.com/python/typeshed/issues/2673
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tar._extract_member(member, path) # type: ignore
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except Exception as exc:
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# Some corrupt tar files seem to produce this
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# (specifically bad symlinks)
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logger.warning(
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'In the tar file %s the member %s is invalid: %s',
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filename, member.name, exc,
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)
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continue
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else:
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try:
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fp = tar.extractfile(member)
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except (KeyError, AttributeError) as exc:
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# Some corrupt tar files seem to produce this
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# (specifically bad symlinks)
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logger.warning(
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'In the tar file %s the member %s is invalid: %s',
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filename, member.name, exc,
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)
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continue
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ensure_dir(os.path.dirname(path))
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assert fp is not None
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with open(path, 'wb') as destfp:
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shutil.copyfileobj(fp, destfp)
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fp.close()
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# Update the timestamp (useful for cython compiled files)
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# https://github.com/python/typeshed/issues/2673
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tar.utime(member, path) # type: ignore
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# member have any execute permissions for user/group/world?
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if member.mode & 0o111:
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set_extracted_file_to_default_mode_plus_executable(path)
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finally:
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tar.close()
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def unpack_file(
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filename, # type: str
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location, # type: str
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content_type=None, # type: Optional[str]
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):
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# type: (...) -> None
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filename = os.path.realpath(filename)
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if (
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content_type == 'application/zip' or
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filename.lower().endswith(ZIP_EXTENSIONS) or
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zipfile.is_zipfile(filename)
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):
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unzip_file(
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filename,
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location,
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flatten=not filename.endswith('.whl')
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)
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elif (
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content_type == 'application/x-gzip' or
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tarfile.is_tarfile(filename) or
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filename.lower().endswith(
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TAR_EXTENSIONS + BZ2_EXTENSIONS + XZ_EXTENSIONS
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)
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):
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untar_file(filename, location)
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else:
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# FIXME: handle?
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# FIXME: magic signatures?
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logger.critical(
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'Cannot unpack file %s (downloaded from %s, content-type: %s); '
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'cannot detect archive format',
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filename, location, content_type,
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)
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raise InstallationError(
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'Cannot determine archive format of {}'.format(location)
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)
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