two version of R2R are here HEAD master

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diff --git a/.venv/lib/python3.12/site-packages/setuptools/config/setupcfg.py b/.venv/lib/python3.12/site-packages/setuptools/config/setupcfg.py
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@@ -0,0 +1,780 @@
+"""
+Load setuptools configuration from ``setup.cfg`` files.
+
+**API will be made private in the future**
+
+To read project metadata, consider using
+``build.util.project_wheel_metadata`` (https://pypi.org/project/build/).
+For simple scenarios, you can also try parsing the file directly
+with the help of ``configparser``.
+"""
+
+from __future__ import annotations
+
+import contextlib
+import functools
+import os
+from collections import defaultdict
+from collections.abc import Iterable, Iterator
+from functools import partial, wraps
+from typing import TYPE_CHECKING, Any, Callable, ClassVar, Generic, TypeVar, cast
+
+from packaging.markers import default_environment as marker_env
+from packaging.requirements import InvalidRequirement, Requirement
+from packaging.version import InvalidVersion, Version
+
+from .. import _static
+from .._path import StrPath
+from ..errors import FileError, OptionError
+from ..warnings import SetuptoolsDeprecationWarning
+from . import expand
+
+if TYPE_CHECKING:
+    from typing_extensions import TypeAlias
+
+    from setuptools.dist import Distribution
+
+    from distutils.dist import DistributionMetadata
+
+SingleCommandOptions: TypeAlias = dict[str, tuple[str, Any]]
+"""Dict that associate the name of the options of a particular command to a
+tuple. The first element of the tuple indicates the origin of the option value
+(e.g. the name of the configuration file where it was read from),
+while the second element of the tuple is the option value itself
+"""
+AllCommandOptions: TypeAlias = dict[str, SingleCommandOptions]
+"""cmd name => its options"""
+Target = TypeVar("Target", "Distribution", "DistributionMetadata")
+
+
+def read_configuration(
+    filepath: StrPath, find_others: bool = False, ignore_option_errors: bool = False
+) -> dict:
+    """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
+
+    dist = Distribution()
+    filenames = dist.find_config_files() if find_others else []
+    handlers = _apply(dist, filepath, filenames, ignore_option_errors)
+    return configuration_to_dict(handlers)
+
+
+def apply_configuration(dist: Distribution, filepath: StrPath) -> Distribution:
+    """Apply the configuration from a ``setup.cfg`` file into an existing
+    distribution object.
+    """
+    _apply(dist, filepath)
+    dist._finalize_requires()
+    return dist
+
+
+def _apply(
+    dist: Distribution,
+    filepath: StrPath,
+    other_files: Iterable[StrPath] = (),
+    ignore_option_errors: bool = False,
+) -> tuple[ConfigMetadataHandler, ConfigOptionsHandler]:
+    """Read configuration from ``filepath`` and applies to the ``dist`` object."""
+    from setuptools.dist import _Distribution
+
+    filepath = os.path.abspath(filepath)
+
+    if not os.path.isfile(filepath):
+        raise FileError(f'Configuration file {filepath} does not exist.')
+
+    current_directory = os.getcwd()
+    os.chdir(os.path.dirname(filepath))
+    filenames = [*other_files, filepath]
+
+    try:
+        # TODO: Temporary cast until mypy 1.12 is released with upstream fixes from typeshed
+        _Distribution.parse_config_files(dist, filenames=cast(list[str], filenames))
+        handlers = parse_configuration(
+            dist, dist.command_options, ignore_option_errors=ignore_option_errors
+        )
+        dist._finalize_license_files()
+    finally:
+        os.chdir(current_directory)
+
+    return handlers
+
+
+def _get_option(target_obj: Distribution | DistributionMetadata, key: str):
+    """
+    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 = f'get_{key}'
+    by_attribute = functools.partial(getattr, target_obj, key)
+    getter = getattr(target_obj, getter_name, by_attribute)
+    return getter()
+
+
+def configuration_to_dict(
+    handlers: Iterable[
+        ConfigHandler[Distribution] | ConfigHandler[DistributionMetadata]
+    ],
+) -> dict:
+    """Returns configuration data gathered by given handlers as a dict.
+
+    :param Iterable[ConfigHandler] handlers: Handlers list,
+        usually from parse_configuration()
+
+    :rtype: dict
+    """
+    config_dict: 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: Distribution,
+    command_options: AllCommandOptions,
+    ignore_option_errors: bool = False,
+) -> tuple[ConfigMetadataHandler, ConfigOptionsHandler]:
+    """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
+    """
+    with expand.EnsurePackagesDiscovered(distribution) as ensure_discovered:
+        options = ConfigOptionsHandler(
+            distribution,
+            command_options,
+            ignore_option_errors,
+            ensure_discovered,
+        )
+
+        options.parse()
+        if not distribution.package_dir:
+            distribution.package_dir = options.package_dir  # Filled by `find_packages`
+
+        meta = ConfigMetadataHandler(
+            distribution.metadata,
+            command_options,
+            ignore_option_errors,
+            ensure_discovered,
+            distribution.package_dir,
+            distribution.src_root,
+        )
+        meta.parse()
+        distribution._referenced_files.update(
+            options._referenced_files, meta._referenced_files
+        )
+
+    return meta, options
+
+
+def _warn_accidental_env_marker_misconfig(label: str, orig_value: str, parsed: list):
+    """Because users sometimes misinterpret this configuration:
+
+    [options.extras_require]
+    foo = bar;python_version<"4"
+
+    It looks like one requirement with an environment marker
+    but because there is no newline, it's parsed as two requirements
+    with a semicolon as separator.
+
+    Therefore, if:
+        * input string does not contain a newline AND
+        * parsed result contains two requirements AND
+        * parsing of the two parts from the result ("<first>;<second>")
+        leads in a valid Requirement with a valid marker
+    a UserWarning is shown to inform the user about the possible problem.
+    """
+    if "\n" in orig_value or len(parsed) != 2:
+        return
+
+    markers = marker_env().keys()
+
+    try:
+        req = Requirement(parsed[1])
+        if req.name in markers:
+            _AmbiguousMarker.emit(field=label, req=parsed[1])
+    except InvalidRequirement as ex:
+        if any(parsed[1].startswith(marker) for marker in markers):
+            msg = _AmbiguousMarker.message(field=label, req=parsed[1])
+            raise InvalidRequirement(msg) from ex
+
+
+class ConfigHandler(Generic[Target]):
+    """Handles metadata supplied in configuration files."""
+
+    section_prefix: str
+    """Prefix for config sections handled by this handler.
+    Must be provided by class heirs.
+
+    """
+
+    aliases: ClassVar[dict[str, str]] = {}
+    """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: Target,
+        options: AllCommandOptions,
+        ignore_option_errors,
+        ensure_discovered: expand.EnsurePackagesDiscovered,
+    ) -> None:
+        self.ignore_option_errors = ignore_option_errors
+        self.target_obj: Target = target_obj
+        self.sections = dict(self._section_options(options))
+        self.set_options: list[str] = []
+        self.ensure_discovered = ensure_discovered
+        self._referenced_files = set[str]()
+        """After parsing configurations, this property will enumerate
+        all files referenced by the "file:" directive. Private API for setuptools only.
+        """
+
+    @classmethod
+    def _section_options(
+        cls, options: AllCommandOptions
+    ) -> Iterator[tuple[str, SingleCommandOptions]]:
+        for full_name, value in options.items():
+            pre, _sep, name = full_name.partition(cls.section_prefix)
+            if pre:
+                continue
+            yield name.lstrip('.'), value
+
+    @property
+    def parsers(self):
+        """Metadata item name to parser function mapping."""
+        raise NotImplementedError(
+            f'{self.__class__.__name__} must provide .parsers property'
+        )
+
+    def __setitem__(self, option_name, value) -> None:
+        target_obj = self.target_obj
+
+        # Translate alias into real name.
+        option_name = self.aliases.get(option_name, option_name)
+
+        try:
+            current_value = getattr(target_obj, option_name)
+        except AttributeError as e:
+            raise KeyError(option_name) from e
+
+        if current_value:
+            # Already inhabited. Skipping.
+            return
+
+        try:
+            parsed = self.parsers.get(option_name, lambda x: x)(value)
+        except (Exception,) * self.ignore_option_errors:
+            return
+
+        simple_setter = functools.partial(target_obj.__setattr__, option_name)
+        setter = getattr(target_obj, f"set_{option_name}", simple_setter)
+        setter(parsed)
+
+        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 OptionError(f"Unable to parse option value to dict: {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(
+                    f'Only strings are accepted for the {key} field, '
+                    'files are not accepted'
+                )
+            return _static.Str(value)
+
+        return parser
+
+    def _parse_file(self, value, root_dir: StrPath | None):
+        """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, str):
+            return value
+
+        if not value.startswith(include_directive):
+            return _static.Str(value)
+
+        spec = value[len(include_directive) :]
+        filepaths = [path.strip() for path in spec.split(',')]
+        self._referenced_files.update(filepaths)
+        # XXX: Is marking as static contents coming from files too optimistic?
+        return _static.Str(expand.read_files(filepaths, root_dir))
+
+    def _parse_attr(self, value, package_dir, root_dir: StrPath):
+        """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 _static.Str(value)
+
+        attr_desc = value.replace(attr_directive, '')
+
+        # Make sure package_dir is populated correctly, so `attr:` directives can work
+        package_dir.update(self.ensure_discovered.package_dir)
+        return expand.read_attr(attr_desc, package_dir, root_dir)
+
+    @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_with_key(cls, section_options, values_parser):
+        """Parses section options into a dictionary.
+
+        Applies a given parser to each option in a section.
+
+        :param dict section_options:
+        :param callable values_parser: function with 2 args corresponding to key, value
+        :rtype: dict
+        """
+        value = {}
+        for key, (_, val) in section_options.items():
+            value[key] = values_parser(key, val)
+        return value
+
+    @classmethod
+    def _parse_section_to_dict(cls, section_options, values_parser=None):
+        """Parses section options into a dictionary.
+
+        Optionally applies a given parser to each value.
+
+        :param dict section_options:
+        :param callable values_parser: function with 1 arg corresponding to option value
+        :rtype: dict
+        """
+        parser = (lambda _, v: values_parser(v)) if values_parser else (lambda _, v: v)
+        return cls._parse_section_to_dict_with_key(section_options, parser)
+
+    def parse_section(self, section_options) -> None:
+        """Parses configuration file section.
+
+        :param dict section_options:
+        """
+        for name, (_, value) in section_options.items():
+            with contextlib.suppress(KeyError):
+                # Keep silent for a new option may appear anytime.
+                self[name] = value
+
+    def parse(self) -> None:
+        """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 = f"_{section_name}"
+
+            section_parser_method: Callable | None = getattr(
+                self,
+                # Dots in section names are translated into dunderscores.
+                f'parse_section{method_postfix}'.replace('.', '__'),
+                None,
+            )
+
+            if section_parser_method is None:
+                raise OptionError(
+                    "Unsupported distribution option section: "
+                    f"[{self.section_prefix}.{section_name}]"
+                )
+
+            section_parser_method(section_options)
+
+    def _deprecated_config_handler(self, func, msg, **kw):
+        """this function will wrap around parameters that are deprecated
+
+        :param msg: deprecation message
+        :param func: function to be wrapped around
+        """
+
+        @wraps(func)
+        def config_handler(*args, **kwargs):
+            kw.setdefault("stacklevel", 2)
+            _DeprecatedConfig.emit("Deprecated config in `setup.cfg`", msg, **kw)
+            return func(*args, **kwargs)
+
+        return config_handler
+
+
+class ConfigMetadataHandler(ConfigHandler["DistributionMetadata"]):
+    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: DistributionMetadata,
+        options: AllCommandOptions,
+        ignore_option_errors: bool,
+        ensure_discovered: expand.EnsurePackagesDiscovered,
+        package_dir: dict | None = None,
+        root_dir: StrPath | None = os.curdir,
+    ) -> None:
+        super().__init__(target_obj, options, ignore_option_errors, ensure_discovered)
+        self.package_dir = package_dir
+        self.root_dir = root_dir
+
+    @property
+    def parsers(self):
+        """Metadata item name to parser function mapping."""
+        parse_list_static = self._get_parser_compound(self._parse_list, _static.List)
+        parse_dict_static = self._get_parser_compound(self._parse_dict, _static.Dict)
+        parse_file = partial(self._parse_file, root_dir=self.root_dir)
+        exclude_files_parser = self._exclude_files_parser
+
+        return {
+            'author': _static.Str,
+            'author_email': _static.Str,
+            'maintainer': _static.Str,
+            'maintainer_email': _static.Str,
+            'platforms': parse_list_static,
+            'keywords': parse_list_static,
+            'provides': parse_list_static,
+            'obsoletes': parse_list_static,
+            'classifiers': self._get_parser_compound(parse_file, parse_list_static),
+            'license': exclude_files_parser('license'),
+            'license_files': parse_list_static,
+            'description': parse_file,
+            'long_description': parse_file,
+            'long_description_content_type': _static.Str,
+            'version': self._parse_version,  # Cannot be marked as dynamic
+            'url': _static.Str,
+            'project_urls': parse_dict_static,
+        }
+
+    def _parse_version(self, value):
+        """Parses `version` option value.
+
+        :param value:
+        :rtype: str
+
+        """
+        version = self._parse_file(value, self.root_dir)
+
+        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
+            try:
+                Version(version)
+            except InvalidVersion as e:
+                raise OptionError(
+                    f'Version loaded from {value} does not '
+                    f'comply with PEP 440: {version}'
+                ) from e
+
+            return version
+
+        return expand.version(self._parse_attr(value, self.package_dir, self.root_dir))
+
+
+class ConfigOptionsHandler(ConfigHandler["Distribution"]):
+    section_prefix = 'options'
+
+    def __init__(
+        self,
+        target_obj: Distribution,
+        options: AllCommandOptions,
+        ignore_option_errors: bool,
+        ensure_discovered: expand.EnsurePackagesDiscovered,
+    ) -> None:
+        super().__init__(target_obj, options, ignore_option_errors, ensure_discovered)
+        self.root_dir = target_obj.src_root
+        self.package_dir: dict[str, str] = {}  # To be filled by `find_packages`
+
+    @classmethod
+    def _parse_list_semicolon(cls, value):
+        return cls._parse_list(value, separator=';')
+
+    def _parse_file_in_root(self, value):
+        return self._parse_file(value, root_dir=self.root_dir)
+
+    def _parse_requirements_list(self, label: str, value: str):
+        # Parse a requirements list, either by reading in a `file:`, or a list.
+        parsed = self._parse_list_semicolon(self._parse_file_in_root(value))
+        _warn_accidental_env_marker_misconfig(label, value, parsed)
+        # Filter it to only include lines that are not comments. `parse_list`
+        # will have stripped each line and filtered out empties.
+        return _static.List(line for line in parsed if not line.startswith("#"))
+        # ^-- Use `_static.List` to mark a non-`Dynamic` Core Metadata
+
+    @property
+    def parsers(self):
+        """Metadata item name to parser function mapping."""
+        parse_list = self._parse_list
+        parse_bool = self._parse_bool
+        parse_cmdclass = self._parse_cmdclass
+
+        return {
+            'zip_safe': parse_bool,
+            'include_package_data': parse_bool,
+            'package_dir': self._parse_dict,
+            'scripts': parse_list,
+            'eager_resources': parse_list,
+            'dependency_links': parse_list,
+            'namespace_packages': self._deprecated_config_handler(
+                parse_list,
+                "The namespace_packages parameter is deprecated, "
+                "consider using implicit namespaces instead (PEP 420).",
+                # TODO: define due date, see setuptools.dist:check_nsp.
+            ),
+            'install_requires': partial(  # Core Metadata
+                self._parse_requirements_list, "install_requires"
+            ),
+            'setup_requires': self._parse_list_semicolon,
+            'packages': self._parse_packages,
+            'entry_points': self._parse_file_in_root,
+            'py_modules': parse_list,
+            'python_requires': _static.SpecifierSet,  # Core Metadata
+            'cmdclass': parse_cmdclass,
+        }
+
+    def _parse_cmdclass(self, value):
+        package_dir = self.ensure_discovered.package_dir
+        return expand.cmdclass(self._parse_dict(value), package_dir, self.root_dir)
+
+    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)
+
+        # Read function arguments from a dedicated section.
+        find_kwargs = self.parse_section_packages__find(
+            self.sections.get('packages.find', {})
+        )
+
+        find_kwargs.update(
+            namespaces=(trimmed_value == find_directives[1]),
+            root_dir=self.root_dir,
+            fill_package_dir=self.package_dir,
+        )
+
+        return expand.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 = {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) -> None:
+        """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):
+        package_data = self._parse_section_to_dict(section_options, self._parse_list)
+        return expand.canonic_package_data(package_data)
+
+    def parse_section_package_data(self, section_options) -> None:
+        """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) -> None:
+        """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) -> None:  # Core Metadata
+        """Parses `extras_require` configuration file section.
+
+        :param dict section_options:
+        """
+        parsed = self._parse_section_to_dict_with_key(
+            section_options,
+            lambda k, v: self._parse_requirements_list(f"extras_require[{k}]", v),
+        )
+
+        self['extras_require'] = _static.Dict(parsed)
+        # ^-- Use `_static.Dict` to mark a non-`Dynamic` Core Metadata
+
+    def parse_section_data_files(self, section_options) -> None:
+        """Parses `data_files` configuration file section.
+
+        :param dict section_options:
+        """
+        parsed = self._parse_section_to_dict(section_options, self._parse_list)
+        self['data_files'] = expand.canonic_data_files(parsed, self.root_dir)
+
+
+class _AmbiguousMarker(SetuptoolsDeprecationWarning):
+    _SUMMARY = "Ambiguous requirement marker."
+    _DETAILS = """
+    One of the parsed requirements in `{field}` looks like a valid environment marker:
+
+        {req!r}
+
+    Please make sure that the configuration file is correct.
+    You can use dangling lines to avoid this problem.
+    """
+    _SEE_DOCS = "userguide/declarative_config.html#opt-2"
+    # TODO: should we include due_date here? Initially introduced in 6 Aug 2022.
+    # Does this make sense with latest version of packaging?
+
+    @classmethod
+    def message(cls, **kw):
+        docs = f"https://setuptools.pypa.io/en/latest/{cls._SEE_DOCS}"
+        return cls._format(cls._SUMMARY, cls._DETAILS, see_url=docs, format_args=kw)
+
+
+class _DeprecatedConfig(SetuptoolsDeprecationWarning):
+    _SEE_DOCS = "userguide/declarative_config.html"