FeatureEnVi: Visual Analytics for Feature Engineering Using Stepwise Selection and Semi-Automatic Extraction Approaches
https://doi.org/10.1109/TVCG.2022.3141040
You can not select more than 25 topics
Topics must start with a letter or number, can include dashes ('-') and can be up to 35 characters long.
656 lines
20 KiB
656 lines
20 KiB
from __future__ import absolute_import, unicode_literals
|
|
import io
|
|
import os
|
|
import sys
|
|
|
|
import warnings
|
|
import functools
|
|
from collections import defaultdict
|
|
from functools import partial
|
|
from functools import wraps
|
|
from importlib import import_module
|
|
|
|
from distutils.errors import DistutilsOptionError, DistutilsFileError
|
|
from setuptools.extern.packaging.version import LegacyVersion, parse
|
|
from setuptools.extern.six import string_types, PY3
|
|
|
|
|
|
__metaclass__ = type
|
|
|
|
|
|
def read_configuration(
|
|
filepath, find_others=False, ignore_option_errors=False):
|
|
"""Read given configuration file and returns options from it as a dict.
|
|
|
|
:param str|unicode filepath: Path to configuration file
|
|
to get options from.
|
|
|
|
:param bool find_others: Whether to search for other configuration files
|
|
which could be on in various places.
|
|
|
|
:param bool ignore_option_errors: Whether to silently ignore
|
|
options, values of which could not be resolved (e.g. due to exceptions
|
|
in directives such as file:, attr:, etc.).
|
|
If False exceptions are propagated as expected.
|
|
|
|
:rtype: dict
|
|
"""
|
|
from setuptools.dist import Distribution, _Distribution
|
|
|
|
filepath = os.path.abspath(filepath)
|
|
|
|
if not os.path.isfile(filepath):
|
|
raise DistutilsFileError(
|
|
'Configuration file %s does not exist.' % filepath)
|
|
|
|
current_directory = os.getcwd()
|
|
os.chdir(os.path.dirname(filepath))
|
|
|
|
try:
|
|
dist = Distribution()
|
|
|
|
filenames = dist.find_config_files() if find_others else []
|
|
if filepath not in filenames:
|
|
filenames.append(filepath)
|
|
|
|
_Distribution.parse_config_files(dist, filenames=filenames)
|
|
|
|
handlers = parse_configuration(
|
|
dist, dist.command_options,
|
|
ignore_option_errors=ignore_option_errors)
|
|
|
|
finally:
|
|
os.chdir(current_directory)
|
|
|
|
return configuration_to_dict(handlers)
|
|
|
|
|
|
def _get_option(target_obj, key):
|
|
"""
|
|
Given a target object and option key, get that option from
|
|
the target object, either through a get_{key} method or
|
|
from an attribute directly.
|
|
"""
|
|
getter_name = 'get_{key}'.format(**locals())
|
|
by_attribute = functools.partial(getattr, target_obj, key)
|
|
getter = getattr(target_obj, getter_name, by_attribute)
|
|
return getter()
|
|
|
|
|
|
def configuration_to_dict(handlers):
|
|
"""Returns configuration data gathered by given handlers as a dict.
|
|
|
|
:param list[ConfigHandler] handlers: Handlers list,
|
|
usually from parse_configuration()
|
|
|
|
:rtype: dict
|
|
"""
|
|
config_dict = defaultdict(dict)
|
|
|
|
for handler in handlers:
|
|
for option in handler.set_options:
|
|
value = _get_option(handler.target_obj, option)
|
|
config_dict[handler.section_prefix][option] = value
|
|
|
|
return config_dict
|
|
|
|
|
|
def parse_configuration(
|
|
distribution, command_options, ignore_option_errors=False):
|
|
"""Performs additional parsing of configuration options
|
|
for a distribution.
|
|
|
|
Returns a list of used option handlers.
|
|
|
|
:param Distribution distribution:
|
|
:param dict command_options:
|
|
:param bool ignore_option_errors: Whether to silently ignore
|
|
options, values of which could not be resolved (e.g. due to exceptions
|
|
in directives such as file:, attr:, etc.).
|
|
If False exceptions are propagated as expected.
|
|
:rtype: list
|
|
"""
|
|
options = ConfigOptionsHandler(
|
|
distribution, command_options, ignore_option_errors)
|
|
options.parse()
|
|
|
|
meta = ConfigMetadataHandler(
|
|
distribution.metadata, command_options, ignore_option_errors,
|
|
distribution.package_dir)
|
|
meta.parse()
|
|
|
|
return meta, options
|
|
|
|
|
|
class ConfigHandler:
|
|
"""Handles metadata supplied in configuration files."""
|
|
|
|
section_prefix = None
|
|
"""Prefix for config sections handled by this handler.
|
|
Must be provided by class heirs.
|
|
|
|
"""
|
|
|
|
aliases = {}
|
|
"""Options aliases.
|
|
For compatibility with various packages. E.g.: d2to1 and pbr.
|
|
Note: `-` in keys is replaced with `_` by config parser.
|
|
|
|
"""
|
|
|
|
def __init__(self, target_obj, options, ignore_option_errors=False):
|
|
sections = {}
|
|
|
|
section_prefix = self.section_prefix
|
|
for section_name, section_options in options.items():
|
|
if not section_name.startswith(section_prefix):
|
|
continue
|
|
|
|
section_name = section_name.replace(section_prefix, '').strip('.')
|
|
sections[section_name] = section_options
|
|
|
|
self.ignore_option_errors = ignore_option_errors
|
|
self.target_obj = target_obj
|
|
self.sections = sections
|
|
self.set_options = []
|
|
|
|
@property
|
|
def parsers(self):
|
|
"""Metadata item name to parser function mapping."""
|
|
raise NotImplementedError(
|
|
'%s must provide .parsers property' % self.__class__.__name__)
|
|
|
|
def __setitem__(self, option_name, value):
|
|
unknown = tuple()
|
|
target_obj = self.target_obj
|
|
|
|
# Translate alias into real name.
|
|
option_name = self.aliases.get(option_name, option_name)
|
|
|
|
current_value = getattr(target_obj, option_name, unknown)
|
|
|
|
if current_value is unknown:
|
|
raise KeyError(option_name)
|
|
|
|
if current_value:
|
|
# Already inhabited. Skipping.
|
|
return
|
|
|
|
skip_option = False
|
|
parser = self.parsers.get(option_name)
|
|
if parser:
|
|
try:
|
|
value = parser(value)
|
|
|
|
except Exception:
|
|
skip_option = True
|
|
if not self.ignore_option_errors:
|
|
raise
|
|
|
|
if skip_option:
|
|
return
|
|
|
|
setter = getattr(target_obj, 'set_%s' % option_name, None)
|
|
if setter is None:
|
|
setattr(target_obj, option_name, value)
|
|
else:
|
|
setter(value)
|
|
|
|
self.set_options.append(option_name)
|
|
|
|
@classmethod
|
|
def _parse_list(cls, value, separator=','):
|
|
"""Represents value as a list.
|
|
|
|
Value is split either by separator (defaults to comma) or by lines.
|
|
|
|
:param value:
|
|
:param separator: List items separator character.
|
|
:rtype: list
|
|
"""
|
|
if isinstance(value, list): # _get_parser_compound case
|
|
return value
|
|
|
|
if '\n' in value:
|
|
value = value.splitlines()
|
|
else:
|
|
value = value.split(separator)
|
|
|
|
return [chunk.strip() for chunk in value if chunk.strip()]
|
|
|
|
@classmethod
|
|
def _parse_dict(cls, value):
|
|
"""Represents value as a dict.
|
|
|
|
:param value:
|
|
:rtype: dict
|
|
"""
|
|
separator = '='
|
|
result = {}
|
|
for line in cls._parse_list(value):
|
|
key, sep, val = line.partition(separator)
|
|
if sep != separator:
|
|
raise DistutilsOptionError(
|
|
'Unable to parse option value to dict: %s' % value)
|
|
result[key.strip()] = val.strip()
|
|
|
|
return result
|
|
|
|
@classmethod
|
|
def _parse_bool(cls, value):
|
|
"""Represents value as boolean.
|
|
|
|
:param value:
|
|
:rtype: bool
|
|
"""
|
|
value = value.lower()
|
|
return value in ('1', 'true', 'yes')
|
|
|
|
@classmethod
|
|
def _exclude_files_parser(cls, key):
|
|
"""Returns a parser function to make sure field inputs
|
|
are not files.
|
|
|
|
Parses a value after getting the key so error messages are
|
|
more informative.
|
|
|
|
:param key:
|
|
:rtype: callable
|
|
"""
|
|
def parser(value):
|
|
exclude_directive = 'file:'
|
|
if value.startswith(exclude_directive):
|
|
raise ValueError(
|
|
'Only strings are accepted for the {0} field, '
|
|
'files are not accepted'.format(key))
|
|
return value
|
|
return parser
|
|
|
|
@classmethod
|
|
def _parse_file(cls, value):
|
|
"""Represents value as a string, allowing including text
|
|
from nearest files using `file:` directive.
|
|
|
|
Directive is sandboxed and won't reach anything outside
|
|
directory with setup.py.
|
|
|
|
Examples:
|
|
file: README.rst, CHANGELOG.md, src/file.txt
|
|
|
|
:param str value:
|
|
:rtype: str
|
|
"""
|
|
include_directive = 'file:'
|
|
|
|
if not isinstance(value, string_types):
|
|
return value
|
|
|
|
if not value.startswith(include_directive):
|
|
return value
|
|
|
|
spec = value[len(include_directive):]
|
|
filepaths = (os.path.abspath(path.strip()) for path in spec.split(','))
|
|
return '\n'.join(
|
|
cls._read_file(path)
|
|
for path in filepaths
|
|
if (cls._assert_local(path) or True)
|
|
and os.path.isfile(path)
|
|
)
|
|
|
|
@staticmethod
|
|
def _assert_local(filepath):
|
|
if not filepath.startswith(os.getcwd()):
|
|
raise DistutilsOptionError(
|
|
'`file:` directive can not access %s' % filepath)
|
|
|
|
@staticmethod
|
|
def _read_file(filepath):
|
|
with io.open(filepath, encoding='utf-8') as f:
|
|
return f.read()
|
|
|
|
@classmethod
|
|
def _parse_attr(cls, value, package_dir=None):
|
|
"""Represents value as a module attribute.
|
|
|
|
Examples:
|
|
attr: package.attr
|
|
attr: package.module.attr
|
|
|
|
:param str value:
|
|
:rtype: str
|
|
"""
|
|
attr_directive = 'attr:'
|
|
if not value.startswith(attr_directive):
|
|
return value
|
|
|
|
attrs_path = value.replace(attr_directive, '').strip().split('.')
|
|
attr_name = attrs_path.pop()
|
|
|
|
module_name = '.'.join(attrs_path)
|
|
module_name = module_name or '__init__'
|
|
|
|
parent_path = os.getcwd()
|
|
if package_dir:
|
|
if attrs_path[0] in package_dir:
|
|
# A custom path was specified for the module we want to import
|
|
custom_path = package_dir[attrs_path[0]]
|
|
parts = custom_path.rsplit('/', 1)
|
|
if len(parts) > 1:
|
|
parent_path = os.path.join(os.getcwd(), parts[0])
|
|
module_name = parts[1]
|
|
else:
|
|
module_name = custom_path
|
|
elif '' in package_dir:
|
|
# A custom parent directory was specified for all root modules
|
|
parent_path = os.path.join(os.getcwd(), package_dir[''])
|
|
sys.path.insert(0, parent_path)
|
|
try:
|
|
module = import_module(module_name)
|
|
value = getattr(module, attr_name)
|
|
|
|
finally:
|
|
sys.path = sys.path[1:]
|
|
|
|
return value
|
|
|
|
@classmethod
|
|
def _get_parser_compound(cls, *parse_methods):
|
|
"""Returns parser function to represents value as a list.
|
|
|
|
Parses a value applying given methods one after another.
|
|
|
|
:param parse_methods:
|
|
:rtype: callable
|
|
"""
|
|
def parse(value):
|
|
parsed = value
|
|
|
|
for method in parse_methods:
|
|
parsed = method(parsed)
|
|
|
|
return parsed
|
|
|
|
return parse
|
|
|
|
@classmethod
|
|
def _parse_section_to_dict(cls, section_options, values_parser=None):
|
|
"""Parses section options into a dictionary.
|
|
|
|
Optionally applies a given parser to values.
|
|
|
|
:param dict section_options:
|
|
:param callable values_parser:
|
|
:rtype: dict
|
|
"""
|
|
value = {}
|
|
values_parser = values_parser or (lambda val: val)
|
|
for key, (_, val) in section_options.items():
|
|
value[key] = values_parser(val)
|
|
return value
|
|
|
|
def parse_section(self, section_options):
|
|
"""Parses configuration file section.
|
|
|
|
:param dict section_options:
|
|
"""
|
|
for (name, (_, value)) in section_options.items():
|
|
try:
|
|
self[name] = value
|
|
|
|
except KeyError:
|
|
pass # Keep silent for a new option may appear anytime.
|
|
|
|
def parse(self):
|
|
"""Parses configuration file items from one
|
|
or more related sections.
|
|
|
|
"""
|
|
for section_name, section_options in self.sections.items():
|
|
|
|
method_postfix = ''
|
|
if section_name: # [section.option] variant
|
|
method_postfix = '_%s' % section_name
|
|
|
|
section_parser_method = getattr(
|
|
self,
|
|
# Dots in section names are translated into dunderscores.
|
|
('parse_section%s' % method_postfix).replace('.', '__'),
|
|
None)
|
|
|
|
if section_parser_method is None:
|
|
raise DistutilsOptionError(
|
|
'Unsupported distribution option section: [%s.%s]' % (
|
|
self.section_prefix, section_name))
|
|
|
|
section_parser_method(section_options)
|
|
|
|
def _deprecated_config_handler(self, func, msg, warning_class):
|
|
""" this function will wrap around parameters that are deprecated
|
|
|
|
:param msg: deprecation message
|
|
:param warning_class: class of warning exception to be raised
|
|
:param func: function to be wrapped around
|
|
"""
|
|
@wraps(func)
|
|
def config_handler(*args, **kwargs):
|
|
warnings.warn(msg, warning_class)
|
|
return func(*args, **kwargs)
|
|
|
|
return config_handler
|
|
|
|
|
|
class ConfigMetadataHandler(ConfigHandler):
|
|
|
|
section_prefix = 'metadata'
|
|
|
|
aliases = {
|
|
'home_page': 'url',
|
|
'summary': 'description',
|
|
'classifier': 'classifiers',
|
|
'platform': 'platforms',
|
|
}
|
|
|
|
strict_mode = False
|
|
"""We need to keep it loose, to be partially compatible with
|
|
`pbr` and `d2to1` packages which also uses `metadata` section.
|
|
|
|
"""
|
|
|
|
def __init__(self, target_obj, options, ignore_option_errors=False,
|
|
package_dir=None):
|
|
super(ConfigMetadataHandler, self).__init__(target_obj, options,
|
|
ignore_option_errors)
|
|
self.package_dir = package_dir
|
|
|
|
@property
|
|
def parsers(self):
|
|
"""Metadata item name to parser function mapping."""
|
|
parse_list = self._parse_list
|
|
parse_file = self._parse_file
|
|
parse_dict = self._parse_dict
|
|
exclude_files_parser = self._exclude_files_parser
|
|
|
|
return {
|
|
'platforms': parse_list,
|
|
'keywords': parse_list,
|
|
'provides': parse_list,
|
|
'requires': self._deprecated_config_handler(
|
|
parse_list,
|
|
"The requires parameter is deprecated, please use "
|
|
"install_requires for runtime dependencies.",
|
|
DeprecationWarning),
|
|
'obsoletes': parse_list,
|
|
'classifiers': self._get_parser_compound(parse_file, parse_list),
|
|
'license': exclude_files_parser('license'),
|
|
'description': parse_file,
|
|
'long_description': parse_file,
|
|
'version': self._parse_version,
|
|
'project_urls': parse_dict,
|
|
}
|
|
|
|
def _parse_version(self, value):
|
|
"""Parses `version` option value.
|
|
|
|
:param value:
|
|
:rtype: str
|
|
|
|
"""
|
|
version = self._parse_file(value)
|
|
|
|
if version != value:
|
|
version = version.strip()
|
|
# Be strict about versions loaded from file because it's easy to
|
|
# accidentally include newlines and other unintended content
|
|
if isinstance(parse(version), LegacyVersion):
|
|
tmpl = (
|
|
'Version loaded from {value} does not '
|
|
'comply with PEP 440: {version}'
|
|
)
|
|
raise DistutilsOptionError(tmpl.format(**locals()))
|
|
|
|
return version
|
|
|
|
version = self._parse_attr(value, self.package_dir)
|
|
|
|
if callable(version):
|
|
version = version()
|
|
|
|
if not isinstance(version, string_types):
|
|
if hasattr(version, '__iter__'):
|
|
version = '.'.join(map(str, version))
|
|
else:
|
|
version = '%s' % version
|
|
|
|
return version
|
|
|
|
|
|
class ConfigOptionsHandler(ConfigHandler):
|
|
|
|
section_prefix = 'options'
|
|
|
|
@property
|
|
def parsers(self):
|
|
"""Metadata item name to parser function mapping."""
|
|
parse_list = self._parse_list
|
|
parse_list_semicolon = partial(self._parse_list, separator=';')
|
|
parse_bool = self._parse_bool
|
|
parse_dict = self._parse_dict
|
|
|
|
return {
|
|
'zip_safe': parse_bool,
|
|
'use_2to3': parse_bool,
|
|
'include_package_data': parse_bool,
|
|
'package_dir': parse_dict,
|
|
'use_2to3_fixers': parse_list,
|
|
'use_2to3_exclude_fixers': parse_list,
|
|
'convert_2to3_doctests': parse_list,
|
|
'scripts': parse_list,
|
|
'eager_resources': parse_list,
|
|
'dependency_links': parse_list,
|
|
'namespace_packages': parse_list,
|
|
'install_requires': parse_list_semicolon,
|
|
'setup_requires': parse_list_semicolon,
|
|
'tests_require': parse_list_semicolon,
|
|
'packages': self._parse_packages,
|
|
'entry_points': self._parse_file,
|
|
'py_modules': parse_list,
|
|
}
|
|
|
|
def _parse_packages(self, value):
|
|
"""Parses `packages` option value.
|
|
|
|
:param value:
|
|
:rtype: list
|
|
"""
|
|
find_directives = ['find:', 'find_namespace:']
|
|
trimmed_value = value.strip()
|
|
|
|
if trimmed_value not in find_directives:
|
|
return self._parse_list(value)
|
|
|
|
findns = trimmed_value == find_directives[1]
|
|
if findns and not PY3:
|
|
raise DistutilsOptionError(
|
|
'find_namespace: directive is unsupported on Python < 3.3')
|
|
|
|
# Read function arguments from a dedicated section.
|
|
find_kwargs = self.parse_section_packages__find(
|
|
self.sections.get('packages.find', {}))
|
|
|
|
if findns:
|
|
from setuptools import find_namespace_packages as find_packages
|
|
else:
|
|
from setuptools import find_packages
|
|
|
|
return find_packages(**find_kwargs)
|
|
|
|
def parse_section_packages__find(self, section_options):
|
|
"""Parses `packages.find` configuration file section.
|
|
|
|
To be used in conjunction with _parse_packages().
|
|
|
|
:param dict section_options:
|
|
"""
|
|
section_data = self._parse_section_to_dict(
|
|
section_options, self._parse_list)
|
|
|
|
valid_keys = ['where', 'include', 'exclude']
|
|
|
|
find_kwargs = dict(
|
|
[(k, v) for k, v in section_data.items() if k in valid_keys and v])
|
|
|
|
where = find_kwargs.get('where')
|
|
if where is not None:
|
|
find_kwargs['where'] = where[0] # cast list to single val
|
|
|
|
return find_kwargs
|
|
|
|
def parse_section_entry_points(self, section_options):
|
|
"""Parses `entry_points` configuration file section.
|
|
|
|
:param dict section_options:
|
|
"""
|
|
parsed = self._parse_section_to_dict(section_options, self._parse_list)
|
|
self['entry_points'] = parsed
|
|
|
|
def _parse_package_data(self, section_options):
|
|
parsed = self._parse_section_to_dict(section_options, self._parse_list)
|
|
|
|
root = parsed.get('*')
|
|
if root:
|
|
parsed[''] = root
|
|
del parsed['*']
|
|
|
|
return parsed
|
|
|
|
def parse_section_package_data(self, section_options):
|
|
"""Parses `package_data` configuration file section.
|
|
|
|
:param dict section_options:
|
|
"""
|
|
self['package_data'] = self._parse_package_data(section_options)
|
|
|
|
def parse_section_exclude_package_data(self, section_options):
|
|
"""Parses `exclude_package_data` configuration file section.
|
|
|
|
:param dict section_options:
|
|
"""
|
|
self['exclude_package_data'] = self._parse_package_data(
|
|
section_options)
|
|
|
|
def parse_section_extras_require(self, section_options):
|
|
"""Parses `extras_require` configuration file section.
|
|
|
|
:param dict section_options:
|
|
"""
|
|
parse_list = partial(self._parse_list, separator=';')
|
|
self['extras_require'] = self._parse_section_to_dict(
|
|
section_options, parse_list)
|
|
|
|
def parse_section_data_files(self, section_options):
|
|
"""Parses `data_files` configuration file section.
|
|
|
|
:param dict section_options:
|
|
"""
|
|
parsed = self._parse_section_to_dict(section_options, self._parse_list)
|
|
self['data_files'] = [(k, v) for k, v in parsed.items()]
|
|
|