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require_jinja2
(test_func)
Decorator to enable a Jinja2 template engine in addition to the regular Django template engine for a test or skip it if Jinja2 isn't available.
Decorator to enable a Jinja2 template engine in addition to the regular Django template engine for a test or skip it if Jinja2 isn't available.
def require_jinja2(test_func): """ Decorator to enable a Jinja2 template engine in addition to the regular Django template engine for a test or skip it if Jinja2 isn't available. """ test_func = skipIf(jinja2 is None, "this test requires jinja2")(test_func) test_func = override_settings(TEMPLATE...
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[ 806, 0 ]
[ 820, 20 ]
python
en
['en', 'error', 'th']
False
tag
(*tags)
Decorator to add tags to a test class or method.
Decorator to add tags to a test class or method.
def tag(*tags): """ Decorator to add tags to a test class or method. """ def decorator(obj): setattr(obj, 'tags', set(tags)) return obj return decorator
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[ 885, 0 ]
[ 892, 20 ]
python
en
['en', 'error', 'th']
False
ContextList.keys
(self)
Flattened keys of subcontexts.
Flattened keys of subcontexts.
def keys(self): """ Flattened keys of subcontexts. """ keys = set() for subcontext in self: for dict in subcontext: keys |= set(dict.keys()) return keys
[ "def", "keys", "(", "self", ")", ":", "keys", "=", "set", "(", ")", "for", "subcontext", "in", "self", ":", "for", "dict", "in", "subcontext", ":", "keys", "|=", "set", "(", "dict", ".", "keys", "(", ")", ")", "return", "keys" ]
[ 89, 4 ]
[ 97, 19 ]
python
en
['en', 'error', 'th']
False
guess_content_type
(filename, default="application/octet-stream")
Guess the "Content-Type" of a file. :param filename: The filename to guess the "Content-Type" of using :mod:`mimetypes`. :param default: If no "Content-Type" can be guessed, default to `default`.
Guess the "Content-Type" of a file.
def guess_content_type(filename, default="application/octet-stream"): """ Guess the "Content-Type" of a file. :param filename: The filename to guess the "Content-Type" of using :mod:`mimetypes`. :param default: If no "Content-Type" can be guessed, default to `default`. """ if fi...
[ "def", "guess_content_type", "(", "filename", ",", "default", "=", "\"application/octet-stream\"", ")", ":", "if", "filename", ":", "return", "mimetypes", ".", "guess_type", "(", "filename", ")", "[", "0", "]", "or", "default", "return", "default" ]
[ 9, 0 ]
[ 20, 18 ]
python
en
['en', 'error', 'th']
False
format_header_param_rfc2231
(name, value)
Helper function to format and quote a single header parameter using the strategy defined in RFC 2231. Particularly useful for header parameters which might contain non-ASCII values, like file names. This follows `RFC 2388 Section 4.4 <https://tools.ietf.org/html/rfc2388#section-4.4>`_. :param...
Helper function to format and quote a single header parameter using the strategy defined in RFC 2231.
def format_header_param_rfc2231(name, value): """ Helper function to format and quote a single header parameter using the strategy defined in RFC 2231. Particularly useful for header parameters which might contain non-ASCII values, like file names. This follows `RFC 2388 Section 4.4 <https://to...
[ "def", "format_header_param_rfc2231", "(", "name", ",", "value", ")", ":", "if", "isinstance", "(", "value", ",", "six", ".", "binary_type", ")", ":", "value", "=", "value", ".", "decode", "(", "\"utf-8\"", ")", "if", "not", "any", "(", "ch", "in", "va...
[ 23, 0 ]
[ 62, 16 ]
python
en
['en', 'error', 'th']
False
format_header_param_html5
(name, value)
Helper function to format and quote a single header parameter using the HTML5 strategy. Particularly useful for header parameters which might contain non-ASCII values, like file names. This follows the `HTML5 Working Draft Section 4.10.22.7`_ and matches the behavior of curl and modern browsers. ...
Helper function to format and quote a single header parameter using the HTML5 strategy.
def format_header_param_html5(name, value): """ Helper function to format and quote a single header parameter using the HTML5 strategy. Particularly useful for header parameters which might contain non-ASCII values, like file names. This follows the `HTML5 Working Draft Section 4.10.22.7`_ and ...
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[ 94, 0 ]
[ 118, 37 ]
python
en
['en', 'error', 'th']
False
RequestField.from_tuples
(cls, fieldname, value, header_formatter=format_header_param_html5)
A :class:`~urllib3.fields.RequestField` factory from old-style tuple parameters. Supports constructing :class:`~urllib3.fields.RequestField` from parameter of key/value strings AND key/filetuple. A filetuple is a (filename, data, MIME type) tuple where the MIME type is optional. ...
A :class:`~urllib3.fields.RequestField` factory from old-style tuple parameters.
def from_tuples(cls, fieldname, value, header_formatter=format_header_param_html5): """ A :class:`~urllib3.fields.RequestField` factory from old-style tuple parameters. Supports constructing :class:`~urllib3.fields.RequestField` from parameter of key/value strings AND key/filetuple. A f...
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[ 159, 4 ]
[ 192, 28 ]
python
en
['en', 'error', 'th']
False
RequestField._render_part
(self, name, value)
Overridable helper function to format a single header parameter. By default, this calls ``self.header_formatter``. :param name: The name of the parameter, a string expected to be ASCII only. :param value: The value of the parameter, provided as a unicode string....
Overridable helper function to format a single header parameter. By default, this calls ``self.header_formatter``.
def _render_part(self, name, value): """ Overridable helper function to format a single header parameter. By default, this calls ``self.header_formatter``. :param name: The name of the parameter, a string expected to be ASCII only. :param value: The value...
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[ 194, 4 ]
[ 205, 49 ]
python
en
['en', 'error', 'th']
False
RequestField._render_parts
(self, header_parts)
Helper function to format and quote a single header. Useful for single headers that are composed of multiple items. E.g., 'Content-Disposition' fields. :param header_parts: A sequence of (k, v) tuples or a :class:`dict` of (k, v) to format as `k1="v1"; k2="v2";...
Helper function to format and quote a single header.
def _render_parts(self, header_parts): """ Helper function to format and quote a single header. Useful for single headers that are composed of multiple items. E.g., 'Content-Disposition' fields. :param header_parts: A sequence of (k, v) tuples or a :class:`dict` of ...
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[ 207, 4 ]
[ 227, 32 ]
python
en
['en', 'error', 'th']
False
RequestField.render_headers
(self)
Renders the headers for this request field.
Renders the headers for this request field.
def render_headers(self): """ Renders the headers for this request field. """ lines = [] sort_keys = ["Content-Disposition", "Content-Type", "Content-Location"] for sort_key in sort_keys: if self.headers.get(sort_key, False): lines.append(u"%s...
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[ 229, 4 ]
[ 246, 34 ]
python
en
['en', 'error', 'th']
False
RequestField.make_multipart
( self, content_disposition=None, content_type=None, content_location=None )
Makes this request field into a multipart request field. This method overrides "Content-Disposition", "Content-Type" and "Content-Location" headers to the request parameter. :param content_type: The 'Content-Type' of the request body. :param content_location: ...
Makes this request field into a multipart request field.
def make_multipart( self, content_disposition=None, content_type=None, content_location=None ): """ Makes this request field into a multipart request field. This method overrides "Content-Disposition", "Content-Type" and "Content-Location" headers to the request parameter. ...
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[ 248, 4 ]
[ 273, 59 ]
python
en
['en', 'error', 'th']
False
TestMenuRendering.test_remember_collapsed
(self)
Sidebar should render with collapsed class applied.
Sidebar should render with collapsed class applied.
def test_remember_collapsed(self): '''Sidebar should render with collapsed class applied.''' # Sidebar should not be collapsed self.client.cookies['wagtail_sidebar_collapsed'] = '0' response = self.client.get(reverse('wagtailadmin_home')) self.assertNotContains(response, 'sidebar...
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[ 23, 4 ]
[ 33, 58 ]
python
en
['en', 'en', 'en']
True
TestMenuRendering.test_collapsed_only_with_feature_flag
(self)
Sidebar should only remember its collapsed state with the right feature flag set.
Sidebar should only remember its collapsed state with the right feature flag set.
def test_collapsed_only_with_feature_flag(self): '''Sidebar should only remember its collapsed state with the right feature flag set.''' # Sidebar should not be collapsed because the feature flag is not enabled self.client.cookies['wagtail_sidebar_collapsed'] = '1' response = self.client...
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[ 36, 4 ]
[ 41, 61 ]
python
en
['en', 'en', 'en']
True
conv_output_length
(input_length, filter_size, stride, pad=0)
Helper function to compute the output size of a convolution operation This function computes the length along a single axis, which corresponds to a 1D convolution. It can also be used for convolutions with higher dimensionalities by using it individually for each axis. Parameters ---------- inpu...
Helper function to compute the output size of a convolution operation This function computes the length along a single axis, which corresponds to a 1D convolution. It can also be used for convolutions with higher dimensionalities by using it individually for each axis. Parameters ---------- inpu...
def conv_output_length(input_length, filter_size, stride, pad=0): """Helper function to compute the output size of a convolution operation This function computes the length along a single axis, which corresponds to a 1D convolution. It can also be used for convolutions with higher dimensionalities by us...
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[ 59, 0 ]
[ 113, 24 ]
python
en
['en', 'en', 'en']
True
get_all_layers
(layer, treat_as_input=None)
:type layer: Layer | list[Layer] :rtype: list[Layer]
:type layer: Layer | list[Layer] :rtype: list[Layer]
def get_all_layers(layer, treat_as_input=None): """ :type layer: Layer | list[Layer] :rtype: list[Layer] """ # We perform a depth-first search. We add a layer to the result list only # after adding all its incoming layers (if any) or when detecting a cycle. # We use a LIFO stack to avoid eve...
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[ 1681, 0 ]
[ 1726, 17 ]
python
en
['en', 'error', 'th']
False
unique
(l)
Filters duplicates of iterable. Create a new list from l with duplicate entries removed, while preserving the original order. Parameters ---------- l : iterable Input iterable to filter of duplicates. Returns ------- list A list of elements of `l` without duplicates and i...
Filters duplicates of iterable. Create a new list from l with duplicate entries removed, while preserving the original order. Parameters ---------- l : iterable Input iterable to filter of duplicates. Returns ------- list A list of elements of `l` without duplicates and i...
def unique(l): """Filters duplicates of iterable. Create a new list from l with duplicate entries removed, while preserving the original order. Parameters ---------- l : iterable Input iterable to filter of duplicates. Returns ------- list A list of elements of `l` wi...
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[ 1895, 0 ]
[ 1915, 19 ]
python
en
['en', 'en', 'en']
True
get_all_params
(layer, **tags)
:type layer: Layer|list[Layer]
:type layer: Layer|list[Layer]
def get_all_params(layer, **tags): """ :type layer: Layer|list[Layer] """ layers = get_all_layers(layer) params = chain.from_iterable(l.get_params(**tags) for l in layers) return unique(params)
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[ 1918, 0 ]
[ 1924, 25 ]
python
en
['en', 'error', 'th']
False
BaseConvLayer.__init__
(self, incoming, num_filters, filter_size, stride=1, pad="VALID", untie_biases=False, W=XavierUniformInitializer(), b=tf.zeros_initializer(), nonlinearity=tf.nn.relu, n=None, **kwargs)
Input is assumed to be of shape batch*height*width*channels
Input is assumed to be of shape batch*height*width*channels
def __init__(self, incoming, num_filters, filter_size, stride=1, pad="VALID", untie_biases=False, W=XavierUniformInitializer(), b=tf.zeros_initializer(), nonlinearity=tf.nn.relu, n=None, **kwargs): """ Input is assumed to be of shape batch*height*width*...
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[ 459, 4 ]
[ 501, 56 ]
python
en
['en', 'error', 'th']
False
BaseConvLayer.get_W_shape
(self)
Get the shape of the weight matrix `W`. Returns ------- tuple of int The shape of the weight matrix.
Get the shape of the weight matrix `W`. Returns ------- tuple of int The shape of the weight matrix.
def get_W_shape(self): """Get the shape of the weight matrix `W`. Returns ------- tuple of int The shape of the weight matrix. """ num_input_channels = self.input_shape[-1] return self.filter_size + (num_input_channels, self.num_filters)
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[ 503, 4 ]
[ 511, 72 ]
python
en
['en', 'en', 'en']
True
BaseConvLayer.convolve
(self, input, **kwargs)
Symbolically convolves `input` with ``self.W``, producing an output of shape ``self.output_shape``. To be implemented by subclasses. Parameters ---------- input : Theano tensor The input minibatch to convolve **kwargs Any additional keyword argume...
Symbolically convolves `input` with ``self.W``, producing an output of shape ``self.output_shape``. To be implemented by subclasses. Parameters ---------- input : Theano tensor The input minibatch to convolve **kwargs Any additional keyword argume...
def convolve(self, input, **kwargs): """ Symbolically convolves `input` with ``self.W``, producing an output of shape ``self.output_shape``. To be implemented by subclasses. Parameters ---------- input : Theano tensor The input minibatch to convolve **...
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[ 544, 4 ]
[ 562, 72 ]
python
en
['en', 'error', 'th']
False
DropoutLayer.__init__
(self, incoming, p, rescale=False, **kwargs)
:param p: probability of setting the output of a node to 0. Should be a tf placeholder
:param p: probability of setting the output of a node to 0. Should be a tf placeholder
def __init__(self, incoming, p, rescale=False, **kwargs): """ :param p: probability of setting the output of a node to 0. Should be a tf placeholder """ super(DropoutLayer, self).__init__(incoming, **kwargs) self.p = p self.rescale = rescale
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[ 709, 4 ]
[ 715, 30 ]
python
en
['en', 'error', 'th']
False
DropoutLayer.get_output_for
(self, input, deterministic=False, **kwargs)
Parameters ---------- input : tensor output from the previous layer deterministic : bool If true dropout and scaling is disabled, see notes
Parameters ---------- input : tensor output from the previous layer deterministic : bool If true dropout and scaling is disabled, see notes
def get_output_for(self, input, deterministic=False, **kwargs): """ Parameters ---------- input : tensor output from the previous layer deterministic : bool If true dropout and scaling is disabled, see notes """ if deterministic or self.p =...
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[ 717, 4 ]
[ 735, 62 ]
python
en
['en', 'error', 'th']
False
LSTMLayer.step
(self, hcprev, x)
Incoming gate: i(t) = f_i(x(t) @ W_xi + h(t-1) @ W_hi + w_ci * c(t-1) + b_i) Forget gate: f(t) = f_f(x(t) @ W_xf + h(t-1) @ W_hf + w_cf * c(t-1) + b_f) Cell gate: c(t) = f(t) * c(t - 1) + i(t) * f_c(x(t) @ W_xc + h(t-1) @ W_hc + b_c) Out gate: ...
Incoming gate: i(t) = f_i(x(t)
def step(self, hcprev, x): """ Incoming gate: i(t) = f_i(x(t) @ W_xi + h(t-1) @ W_hi + w_ci * c(t-1) + b_i) Forget gate: f(t) = f_f(x(t) @ W_xf + h(t-1) @ W_hf + w_cf * c(t-1) + b_f) Cell gate: c(t) = f(t) * c(t - 1) + i(t) * f_c(x(t) @ W_xc + h(t-1) @ W_hc ...
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[ 1494, 4 ]
[ 1529, 47 ]
python
en
['en', 'error', 'th']
False
glob
(pathname, recursive=False)
Return a list of paths matching a pathname pattern. The pattern may contain simple shell-style wildcards a la fnmatch. However, unlike fnmatch, filenames starting with a dot are special cases that are not matched by '*' and '?' patterns. If recursive is true, the pattern '**' will match any files ...
Return a list of paths matching a pathname pattern.
def glob(pathname, recursive=False): """Return a list of paths matching a pathname pattern. The pattern may contain simple shell-style wildcards a la fnmatch. However, unlike fnmatch, filenames starting with a dot are special cases that are not matched by '*' and '?' patterns. If recursive is ...
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[ 15, 0 ]
[ 26, 53 ]
python
en
['en', 'en', 'en']
True
iglob
(pathname, recursive=False)
Return an iterator which yields the paths matching a pathname pattern. The pattern may contain simple shell-style wildcards a la fnmatch. However, unlike fnmatch, filenames starting with a dot are special cases that are not matched by '*' and '?' patterns. If recursive is true, the pattern '**' wi...
Return an iterator which yields the paths matching a pathname pattern.
def iglob(pathname, recursive=False): """Return an iterator which yields the paths matching a pathname pattern. The pattern may contain simple shell-style wildcards a la fnmatch. However, unlike fnmatch, filenames starting with a dot are special cases that are not matched by '*' and '?' patterns. ...
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[ 29, 0 ]
[ 44, 13 ]
python
en
['en', 'en', 'en']
True
escape
(pathname)
Escape all special characters.
Escape all special characters.
def escape(pathname): """Escape all special characters. """ # Escaping is done by wrapping any of "*?[" between square brackets. # Metacharacters do not work in the drive part and shouldn't be escaped. drive, pathname = os.path.splitdrive(pathname) if isinstance(pathname, bytes): pathnam...
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[ 163, 0 ]
[ 173, 27 ]
python
en
['en', 'en', 'en']
True
format_command_result
( command_args, # type: List[str] command_output, # type: Text )
Format command information for logging.
Format command information for logging.
def format_command_result( command_args, # type: List[str] command_output, # type: Text ): # type: (...) -> str """Format command information for logging.""" command_desc = format_command_args(command_args) text = 'Command arguments: {}\n'.format(command_desc) if not command_output: ...
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[ 18, 0 ]
[ 36, 15 ]
python
en
['en', 'da', 'en']
True
get_legacy_build_wheel_path
( names, # type: List[str] temp_dir, # type: str name, # type: str command_args, # type: List[str] command_output, # type: Text )
Return the path to the wheel in the temporary build directory.
Return the path to the wheel in the temporary build directory.
def get_legacy_build_wheel_path( names, # type: List[str] temp_dir, # type: str name, # type: str command_args, # type: List[str] command_output, # type: Text ): # type: (...) -> Optional[str] """Return the path to the wheel in the temporary build directory.""" # Sort for determinis...
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[ 39, 0 ]
[ 66, 43 ]
python
en
['en', 'en', 'en']
True
build_wheel_legacy
( name, # type: str setup_py_path, # type: str source_dir, # type: str global_options, # type: List[str] build_options, # type: List[str] tempd, # type: str )
Build one unpacked package using the "legacy" build process. Returns path to wheel if successfully built. Otherwise, returns None.
Build one unpacked package using the "legacy" build process.
def build_wheel_legacy( name, # type: str setup_py_path, # type: str source_dir, # type: str global_options, # type: List[str] build_options, # type: List[str] tempd, # type: str ): # type: (...) -> Optional[str] """Build one unpacked package using the "legacy" build process. ...
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[ 69, 0 ]
[ 112, 25 ]
python
en
['en', 'en', 'en']
True
Deserializer
(stream_or_string, **options)
Deserialize a stream or string of JSON data.
Deserialize a stream or string of JSON data.
def Deserializer(stream_or_string, **options): """ Deserialize a stream or string of JSON data. """ if not isinstance(stream_or_string, (bytes, six.string_types)): stream_or_string = stream_or_string.read() if isinstance(stream_or_string, bytes): stream_or_string = stream_or_string.d...
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[ 70, 0 ]
[ 86, 85 ]
python
en
['en', 'error', 'th']
False
import_string
(dotted_path)
Import a dotted module path and return the attribute/class designated by the last name in the path. Raise ImportError if the import failed.
Import a dotted module path and return the attribute/class designated by the last name in the path. Raise ImportError if the import failed.
def import_string(dotted_path): """ Import a dotted module path and return the attribute/class designated by the last name in the path. Raise ImportError if the import failed. """ try: module_path, class_name = dotted_path.rsplit('.', 1) except ValueError: msg = "%s doesn't look ...
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[ 8, 0 ]
[ 26, 69 ]
python
en
['en', 'error', 'th']
False
autodiscover_modules
(*args, **kwargs)
Auto-discover INSTALLED_APPS modules and fail silently when not present. This forces an import on them to register any admin bits they may want. You may provide a register_to keyword parameter as a way to access a registry. This register_to object must have a _registry instance variable to acc...
Auto-discover INSTALLED_APPS modules and fail silently when not present. This forces an import on them to register any admin bits they may want.
def autodiscover_modules(*args, **kwargs): """ Auto-discover INSTALLED_APPS modules and fail silently when not present. This forces an import on them to register any admin bits they may want. You may provide a register_to keyword parameter as a way to access a registry. This register_to object ...
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[ 29, 0 ]
[ 62, 25 ]
python
en
['en', 'error', 'th']
False
module_dir
(module)
Find the name of the directory that contains a module, if possible. Raise ValueError otherwise, e.g. for namespace packages that are split over several directories.
Find the name of the directory that contains a module, if possible.
def module_dir(module): """ Find the name of the directory that contains a module, if possible. Raise ValueError otherwise, e.g. for namespace packages that are split over several directories. """ # Convert to list because _NamespacePath does not support indexing on 3.3. paths = list(getatt...
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[ 149, 0 ]
[ 164, 73 ]
python
en
['en', 'error', 'th']
False
Clip.make_labels
(self, values)
Creates widgets from raw clipboard i.e. for each character in the list that is provided by Clipboard.paste()
Creates widgets from raw clipboard i.e. for each character in the list that is provided by Clipboard.paste()
def make_labels(self, values): """Creates widgets from raw clipboard i.e. for each character in the list that is provided by Clipboard.paste() """ print(repr(values)) for value in values: label = Label(text=value, size_hint_y=None, height=30) self.ids.cont...
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[ 43, 4 ]
[ 50, 48 ]
python
en
['en', 'en', 'en']
True
Clip.make_pretty_labels
(self, values)
Creates widgets from a list of values made by splitting clipboard by the default OS line separator. Useful when copying columns of data.
Creates widgets from a list of values made by splitting clipboard by the default OS line separator. Useful when copying columns of data.
def make_pretty_labels(self, values): """Creates widgets from a list of values made by splitting clipboard by the default OS line separator. Useful when copying columns of data. """ print(repr(values)) for value in values.split(os.linesep): label = Label(text=value, s...
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[ 52, 4 ]
[ 59, 48 ]
python
en
['en', 'en', 'en']
True
all_frames
(im, func=None)
Applies a given function to all frames in an image or a list of images. The frames are returned as a list of separate images. :param im: An image, or a list of images. :param func: The function to apply to all of the image frames. :returns: A list of images.
Applies a given function to all frames in an image or a list of images. The frames are returned as a list of separate images.
def all_frames(im, func=None): """ Applies a given function to all frames in an image or a list of images. The frames are returned as a list of separate images. :param im: An image, or a list of images. :param func: The function to apply to all of the image frames. :returns: A list of images. ...
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[ 55, 0 ]
[ 74, 52 ]
python
en
['en', 'error', 'th']
False
PostGISAdapter.__init__
(self, obj, geography=False)
Initialize on the spatial object.
Initialize on the spatial object.
def __init__(self, obj, geography=False): """ Initialize on the spatial object. """ self.is_geometry = isinstance(obj, (Geometry, PostGISAdapter)) # Getting the WKB (in string form, to allow easy pickling of # the adaptor) and the SRID from the geometry or raster. ...
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[ 13, 4 ]
[ 28, 34 ]
python
en
['en', 'error', 'th']
False
PostGISAdapter.prepare
(self, conn)
This method allows escaping the binary in the style required by the server's `standard_conforming_string` setting.
This method allows escaping the binary in the style required by the server's `standard_conforming_string` setting.
def prepare(self, conn): """ This method allows escaping the binary in the style required by the server's `standard_conforming_string` setting. """ if self.is_geometry: self._adapter.prepare(conn)
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[ 48, 4 ]
[ 54, 39 ]
python
en
['en', 'error', 'th']
False
PostGISAdapter.getquoted
(self)
Return a properly quoted string for use in PostgreSQL/PostGIS.
Return a properly quoted string for use in PostgreSQL/PostGIS.
def getquoted(self): """ Return a properly quoted string for use in PostgreSQL/PostGIS. """ if self.is_geometry: # Psycopg will figure out whether to use E'\\000' or '\000'. return str('%s(%s)' % ( 'ST_GeogFromWKB' if self.geography else 'ST_GeomFr...
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[ 56, 4 ]
[ 68, 45 ]
python
en
['en', 'error', 'th']
False
generate_user_access_token
()
Generate a Twitter API connection with access for a specific user. Requires the user to view the browser URI that is automatically opened, then manually enter the pin in the command-line in order to generate the access token. :return: tweepy.OAuthHandler instance, with User Access Token set.
Generate a Twitter API connection with access for a specific user.
def generate_user_access_token(): """ Generate a Twitter API connection with access for a specific user. Requires the user to view the browser URI that is automatically opened, then manually enter the pin in the command-line in order to generate the access token. :return: tweepy.OAuthHandler i...
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[ 10, 0 ]
[ 34, 15 ]
python
en
['en', 'error', 'th']
False
fix_upload_links
(data: TableData, message_table: TableName)
Because the URLs for uploaded files encode the realm ID of the organization being imported (which is only determined at import time), we need to rewrite the URLs of links to uploaded files during the import process.
Because the URLs for uploaded files encode the realm ID of the organization being imported (which is only determined at import time), we need to rewrite the URLs of links to uploaded files during the import process.
def fix_upload_links(data: TableData, message_table: TableName) -> None: """ Because the URLs for uploaded files encode the realm ID of the organization being imported (which is only determined at import time), we need to rewrite the URLs of links to uploaded files during the import process. """...
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[ 158, 0 ]
[ 173, 25 ]
python
en
['en', 'error', 'th']
False
create_subscription_events
(data: TableData, realm_id: int)
When the export data doesn't contain the table `zerver_realmauditlog`, this function creates RealmAuditLog objects for `subscription_created` type event for all the existing Stream subscriptions. This is needed for all the export tools which do not include the table `zerver_realmauditlog` (Slack, ...
When the export data doesn't contain the table `zerver_realmauditlog`, this function creates RealmAuditLog objects for `subscription_created` type event for all the existing Stream subscriptions.
def create_subscription_events(data: TableData, realm_id: int) -> None: """ When the export data doesn't contain the table `zerver_realmauditlog`, this function creates RealmAuditLog objects for `subscription_created` type event for all the existing Stream subscriptions. This is needed for all the ...
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[ 176, 0 ]
[ 216, 60 ]
python
en
['en', 'error', 'th']
False
fix_service_tokens
(data: TableData, table: TableName)
The tokens in the services are created by 'generate_api_key'. As the tokens are unique, they should be re-created for the imports.
The tokens in the services are created by 'generate_api_key'. As the tokens are unique, they should be re-created for the imports.
def fix_service_tokens(data: TableData, table: TableName) -> None: """ The tokens in the services are created by 'generate_api_key'. As the tokens are unique, they should be re-created for the imports. """ for item in data[table]: item["token"] = generate_api_key()
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[ 219, 0 ]
[ 225, 42 ]
python
en
['en', 'error', 'th']
False
process_huddle_hash
(data: TableData, table: TableName)
Build new huddle hashes with the updated ids of the users
Build new huddle hashes with the updated ids of the users
def process_huddle_hash(data: TableData, table: TableName) -> None: """ Build new huddle hashes with the updated ids of the users """ for huddle in data[table]: user_id_list = id_map_to_list["huddle_to_user_list"][huddle["id"]] huddle["huddle_hash"] = get_huddle_hash(user_id_list)
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[ 228, 0 ]
[ 234, 61 ]
python
en
['en', 'error', 'th']
False
get_huddles_from_subscription
(data: TableData, table: TableName)
Extract the IDs of the user_profiles involved in a huddle from the subscription object This helps to generate a unique huddle hash from the updated user_profile ids
Extract the IDs of the user_profiles involved in a huddle from the subscription object This helps to generate a unique huddle hash from the updated user_profile ids
def get_huddles_from_subscription(data: TableData, table: TableName) -> None: """ Extract the IDs of the user_profiles involved in a huddle from the subscription object This helps to generate a unique huddle hash from the updated user_profile ids """ id_map_to_list["huddle_to_user_list"] = { ...
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[ 237, 0 ]
[ 249, 100 ]
python
en
['en', 'error', 'th']
False
fix_customprofilefield
(data: TableData)
In CustomProfileField with 'field_type' like 'USER', the IDs need to be re-mapped.
In CustomProfileField with 'field_type' like 'USER', the IDs need to be re-mapped.
def fix_customprofilefield(data: TableData) -> None: """ In CustomProfileField with 'field_type' like 'USER', the IDs need to be re-mapped. """ field_type_USER_id_list = [] for item in data["zerver_customprofilefield"]: if item["field_type"] == CustomProfileField.USER: field_...
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[ 252, 0 ]
[ 272, 62 ]
python
en
['en', 'error', 'th']
False
fix_message_rendered_content
( realm: Realm, sender_map: Dict[int, Record], messages: List[Record] )
This function sets the rendered_content of all the messages after the messages have been imported from a non-Zulip platform.
This function sets the rendered_content of all the messages after the messages have been imported from a non-Zulip platform.
def fix_message_rendered_content( realm: Realm, sender_map: Dict[int, Record], messages: List[Record] ) -> None: """ This function sets the rendered_content of all the messages after the messages have been imported from a non-Zulip platform. """ for message in messages: if message["rende...
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[ 275, 0 ]
[ 361, 13 ]
python
en
['en', 'error', 'th']
False
current_table_ids
(data: TableData, table: TableName)
Returns the ids present in the current table
Returns the ids present in the current table
def current_table_ids(data: TableData, table: TableName) -> List[int]: """ Returns the ids present in the current table """ id_list = [] for item in data[table]: id_list.append(item["id"]) return id_list
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[ 364, 0 ]
[ 371, 18 ]
python
en
['en', 'error', 'th']
False
allocate_ids
(model_class: Any, count: int)
Increases the sequence number for a given table by the amount of objects being imported into that table. Hence, this gives a reserved range of IDs to import the converted Slack objects into the tables.
Increases the sequence number for a given table by the amount of objects being imported into that table. Hence, this gives a reserved range of IDs to import the converted Slack objects into the tables.
def allocate_ids(model_class: Any, count: int) -> List[int]: """ Increases the sequence number for a given table by the amount of objects being imported into that table. Hence, this gives a reserved range of IDs to import the converted Slack objects into the tables. """ conn = connection.cursor(...
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[ 384, 0 ]
[ 396, 38 ]
python
en
['en', 'error', 'th']
False
convert_to_id_fields
(data: TableData, table: TableName, field_name: Field)
When Django gives us dict objects via model_to_dict, the foreign key fields are `foo`, but we want `foo_id` for the bulk insert. This function handles the simple case where we simply rename the fields. For cases where we need to munge ids in the database, see re_map_foreign_keys.
When Django gives us dict objects via model_to_dict, the foreign key fields are `foo`, but we want `foo_id` for the bulk insert. This function handles the simple case where we simply rename the fields. For cases where we need to munge ids in the database, see re_map_foreign_keys.
def convert_to_id_fields(data: TableData, table: TableName, field_name: Field) -> None: """ When Django gives us dict objects via model_to_dict, the foreign key fields are `foo`, but we want `foo_id` for the bulk insert. This function handles the simple case where we simply rename the fields. For c...
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[ 399, 0 ]
[ 409, 28 ]
python
en
['en', 'error', 'th']
False
re_map_foreign_keys
( data: TableData, table: TableName, field_name: Field, related_table: TableName, verbose: bool = False, id_field: bool = False, recipient_field: bool = False, reaction_field: bool = False, )
This is a wrapper function for all the realm data tables and only avatar and attachment records need to be passed through the internal function because of the difference in data format (TableData corresponding to realm data tables and List[Record] corresponding to the avatar and attachment records) ...
This is a wrapper function for all the realm data tables and only avatar and attachment records need to be passed through the internal function because of the difference in data format (TableData corresponding to realm data tables and List[Record] corresponding to the avatar and attachment records) ...
def re_map_foreign_keys( data: TableData, table: TableName, field_name: Field, related_table: TableName, verbose: bool = False, id_field: bool = False, recipient_field: bool = False, reaction_field: bool = False, ) -> None: """ This is a wrapper function for all the realm data ta...
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[ 412, 0 ]
[ 441, 5 ]
python
en
['en', 'error', 'th']
False
re_map_foreign_keys_internal
( data_table: List[Record], table: TableName, field_name: Field, related_table: TableName, verbose: bool = False, id_field: bool = False, recipient_field: bool = False, reaction_field: bool = False, )
We occasionally need to assign new ids to rows during the import/export process, to accommodate things like existing rows already being in tables. See bulk_import_client for more context. The tricky part is making sure that foreign key references are in sync with the new ids, and this fixer funct...
We occasionally need to assign new ids to rows during the import/export process, to accommodate things like existing rows already being in tables. See bulk_import_client for more context.
def re_map_foreign_keys_internal( data_table: List[Record], table: TableName, field_name: Field, related_table: TableName, verbose: bool = False, id_field: bool = False, recipient_field: bool = False, reaction_field: bool = False, ) -> None: """ We occasionally need to assign new...
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[ 444, 0 ]
[ 500, 41 ]
python
en
['en', 'error', 'th']
False
re_map_foreign_keys_many_to_many
( data: TableData, table: TableName, field_name: Field, related_table: TableName, verbose: bool = False, )
We need to assign new ids to rows during the import/export process. The tricky part is making sure that foreign key references are in sync with the new ids, and this wrapper function does the re-mapping only for ManyToMany fields.
We need to assign new ids to rows during the import/export process.
def re_map_foreign_keys_many_to_many( data: TableData, table: TableName, field_name: Field, related_table: TableName, verbose: bool = False, ) -> None: """ We need to assign new ids to rows during the import/export process. The tricky part is making sure that foreign key references ...
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[ 503, 0 ]
[ 524, 28 ]
python
en
['en', 'error', 'th']
False
re_map_foreign_keys_many_to_many_internal
( table: TableName, field_name: Field, related_table: TableName, old_id_list: List[int], verbose: bool = False, )
This is an internal function for tables with ManyToMany fields, which takes the old ID list of the ManyToMany relation and returns the new updated ID list.
This is an internal function for tables with ManyToMany fields, which takes the old ID list of the ManyToMany relation and returns the new updated ID list.
def re_map_foreign_keys_many_to_many_internal( table: TableName, field_name: Field, related_table: TableName, old_id_list: List[int], verbose: bool = False, ) -> List[int]: """ This is an internal function for tables with ManyToMany fields, which takes the old ID list of the ManyToMany r...
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[ 527, 0 ]
[ 551, 22 ]
python
en
['en', 'error', 'th']
False
fix_realm_authentication_bitfield
(data: TableData, table: TableName, field_name: Field)
Used to fixup the authentication_methods bitfield to be a string
Used to fixup the authentication_methods bitfield to be a string
def fix_realm_authentication_bitfield(data: TableData, table: TableName, field_name: Field) -> None: """Used to fixup the authentication_methods bitfield to be a string""" for item in data[table]: values_as_bitstring = "".join("1" if field[1] else "0" for field in item[field_name]) values_as_int...
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[ 560, 0 ]
[ 565, 40 ]
python
en
['en', 'en', 'en']
True
remove_denormalized_recipient_column_from_data
(data: TableData)
The recipient column shouldn't be imported, we'll set the correct values when Recipient table gets imported.
The recipient column shouldn't be imported, we'll set the correct values when Recipient table gets imported.
def remove_denormalized_recipient_column_from_data(data: TableData) -> None: """ The recipient column shouldn't be imported, we'll set the correct values when Recipient table gets imported. """ for stream_dict in data["zerver_stream"]: if "recipient" in stream_dict: del stream_di...
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[ 568, 0 ]
[ 583, 40 ]
python
en
['en', 'error', 'th']
False
get_db_table
(model_class: Any)
E.g. (RealmDomain -> 'zerver_realmdomain')
E.g. (RealmDomain -> 'zerver_realmdomain')
def get_db_table(model_class: Any) -> str: """E.g. (RealmDomain -> 'zerver_realmdomain')""" return model_class._meta.db_table
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[ 586, 0 ]
[ 588, 37 ]
python
de
['de', 'mg', 'ur']
False
get_incoming_message_ids
(import_dir: Path, sort_by_date: bool)
This function reads in our entire collection of message ids, which can be millions of integers for some installations. And then we sort the list. This is necessary to ensure that the sort order of incoming ids matches the sort order of date_sent, which isn't always guaranteed by our utilities ...
This function reads in our entire collection of message ids, which can be millions of integers for some installations. And then we sort the list. This is necessary to ensure that the sort order of incoming ids matches the sort order of date_sent, which isn't always guaranteed by our utilities ...
def get_incoming_message_ids(import_dir: Path, sort_by_date: bool) -> List[int]: """ This function reads in our entire collection of message ids, which can be millions of integers for some installations. And then we sort the list. This is necessary to ensure that the sort order of incoming ids matc...
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[ 1277, 0 ]
[ 1332, 22 ]
python
en
['en', 'error', 'th']
False
log_handler
(handler: Any)
Override tornado's logging.
Override tornado's logging.
def log_handler(handler: Any) -> None: """Override tornado's logging.""" # log only errors (status >= 500) if handler.get_status() >= 500: access_log.error( '{} {}'.format(handler.get_status(), handler._request_summary()) )
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[ 164, 0 ]
[ 170, 9 ]
python
en
['en', 'nl', 'pt']
False
truncate_colormap
(cmap, minval=0.0, maxval=1.0, n=256)
Remove extreme colors from a colormap.
Remove extreme colors from a colormap.
def truncate_colormap(cmap, minval=0.0, maxval=1.0, n=256): """Remove extreme colors from a colormap.""" new_cmap = colors.LinearSegmentedColormap.from_list( 'trunc({n},{a:.2f},{b:.2f})'.format(n=cmap.name, a=minval, b=maxval), cmap(np.linspace(minval, maxval, n))) return new_cmap
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[ 40, 0 ]
[ 45, 19 ]
python
en
['en', 'en', 'en']
True
gencolor_generator
(n, cmap='Set1')
Color generator intended to work with qualitative color scales.
Color generator intended to work with qualitative color scales.
def gencolor_generator(n, cmap='Set1'): """ Color generator intended to work with qualitative color scales.""" # don't use more than 9 discrete colors n_colors = min(n, 9) cmap = colormap.get_cmap(cmap, n_colors) colors = cmap(range(n_colors)) for i in range(n): yield colors[i % n_colors...
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[ 48, 0 ]
[ 55, 34 ]
python
en
['en', 'en', 'en']
True
_plot_map
(plotfunc)
Decorator for common salem.Map plotting logic
Decorator for common salem.Map plotting logic
def _plot_map(plotfunc): """ Decorator for common salem.Map plotting logic """ commondoc = """ Parameters ---------- gdirs : [] or GlacierDirectory, required A single GlacierDirectory or a list of gdirs to plot. ax : matplotlib axes object, optional If None, uses own axi...
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[ 76, 0 ]
[ 194, 22 ]
python
en
['en', 'error', 'th']
False
plot_googlemap
(gdirs, ax=None, figsize=None)
Plots the glacier(s) over a googlemap.
Plots the glacier(s) over a googlemap.
def plot_googlemap(gdirs, ax=None, figsize=None): """Plots the glacier(s) over a googlemap.""" dofig = False if ax is None: fig = plt.figure(figsize=figsize) ax = fig.add_subplot(111) dofig = True gdirs = utils.tolist(gdirs) xx, yy = [], [] for gdir in gdirs: x...
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[ 197, 0 ]
[ 232, 26 ]
python
en
['en', 'en', 'en']
True
plot_raster
(gdirs, var_name=None, cmap='viridis', ax=None, smap=None)
Plot any raster from the gridded_data file.
Plot any raster from the gridded_data file.
def plot_raster(gdirs, var_name=None, cmap='viridis', ax=None, smap=None): """Plot any raster from the gridded_data file.""" # Files gdir = gdirs[0] with utils.ncDataset(gdir.get_filepath('gridded_data')) as nc: var = nc.variables[var_name] data = var[:] description = var.long_...
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[ 236, 0 ]
[ 270, 69 ]
python
en
['en', 'en', 'en']
True
plot_domain
(gdirs, ax=None, smap=None, use_netcdf=False)
Plot the glacier directory. Parameters ---------- gdirs ax smap use_netcdf : bool use output of glacier_masks instead of geotiff DEM
Plot the glacier directory.
def plot_domain(gdirs, ax=None, smap=None, use_netcdf=False): """Plot the glacier directory. Parameters ---------- gdirs ax smap use_netcdf : bool use output of glacier_masks instead of geotiff DEM """ # Files gdir = gdirs[0] if use_netcdf: with utils.ncData...
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[ 274, 0 ]
[ 320, 38 ]
python
en
['en', 'it', 'en']
True
plot_centerlines
(gdirs, ax=None, smap=None, use_flowlines=False, add_downstream=False, lines_cmap='Set1', add_line_index=False, use_model_flowlines=False)
Plots the centerlines of a glacier directory.
Plots the centerlines of a glacier directory.
def plot_centerlines(gdirs, ax=None, smap=None, use_flowlines=False, add_downstream=False, lines_cmap='Set1', add_line_index=False, use_model_flowlines=False): """Plots the centerlines of a glacier directory.""" if add_downstream and not use_flowlines: raise Va...
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[ 324, 0 ]
[ 387, 38 ]
python
en
['en', 'es', 'en']
True
plot_catchment_areas
(gdirs, ax=None, smap=None, lines_cmap='Set1', mask_cmap='Set2')
Plots the catchments out of a glacier directory.
Plots the catchments out of a glacier directory.
def plot_catchment_areas(gdirs, ax=None, smap=None, lines_cmap='Set1', mask_cmap='Set2'): """Plots the catchments out of a glacier directory. """ gdir = gdirs[0] if len(gdirs) > 1: raise NotImplementedError('Cannot plot a list of gdirs (yet)') with utils.ncDataset(...
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[ 391, 0 ]
[ 432, 13 ]
python
en
['en', 'en', 'en']
True
plot_catchment_width
(gdirs, ax=None, smap=None, corrected=False, add_intersects=False, add_touches=False, lines_cmap='Set1')
Plots the catchment widths out of a glacier directory.
Plots the catchment widths out of a glacier directory.
def plot_catchment_width(gdirs, ax=None, smap=None, corrected=False, add_intersects=False, add_touches=False, lines_cmap='Set1'): """Plots the catchment widths out of a glacier directory. """ gdir = gdirs[0] with utils.ncDataset(gdir.get_filepath('gridd...
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[ 436, 0 ]
[ 505, 13 ]
python
en
['en', 'en', 'en']
True
plot_inversion
(gdirs, ax=None, smap=None, linewidth=3, vmax=None)
Plots the result of the inversion out of a glacier directory.
Plots the result of the inversion out of a glacier directory.
def plot_inversion(gdirs, ax=None, smap=None, linewidth=3, vmax=None): """Plots the result of the inversion out of a glacier directory.""" gdir = gdirs[0] with utils.ncDataset(gdir.get_filepath('gridded_data')) as nc: topo = nc.variables['topo'][:] # Dirty optim try: smap.set_topog...
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[ 509, 0 ]
[ 561, 76 ]
python
en
['en', 'en', 'en']
True
plot_distributed_thickness
(gdirs, ax=None, smap=None, varname_suffix='')
Plots the result of the inversion out of a glacier directory. Method: 'alt' or 'interp'
Plots the result of the inversion out of a glacier directory.
def plot_distributed_thickness(gdirs, ax=None, smap=None, varname_suffix=''): """Plots the result of the inversion out of a glacier directory. Method: 'alt' or 'interp' """ gdir = gdirs[0] with utils.ncDataset(gdir.get_filepath('gridded_data')) as nc: topo = nc.variables['topo'][:] s...
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[ 565, 0 ]
[ 609, 51 ]
python
en
['en', 'en', 'en']
True
plot_modeloutput_map
(gdirs, ax=None, smap=None, model=None, vmax=None, linewidth=3, filesuffix='', modelyr=None)
Plots the result of the model output.
Plots the result of the model output.
def plot_modeloutput_map(gdirs, ax=None, smap=None, model=None, vmax=None, linewidth=3, filesuffix='', modelyr=None): """Plots the result of the model output.""" gdir = gdirs[0] with utils.ncDataset(gdir.get_filepath('gridded_data')) as nc: topo = n...
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[ 613, 0 ]
[ 676, 74 ]
python
en
['en', 'en', 'en']
True
plot_modeloutput_section
(model=None, ax=None, title='')
Plots the result of the model output along the flowline. Parameters ---------- model: obj either a FlowlineModel or a list of model flowlines. fig title
Plots the result of the model output along the flowline.
def plot_modeloutput_section(model=None, ax=None, title=''): """Plots the result of the model output along the flowline. Parameters ---------- model: obj either a FlowlineModel or a list of model flowlines. fig title """ try: fls = model.fls except AttributeError: ...
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[ 679, 0 ]
[ 781, 28 ]
python
en
['en', 'en', 'en']
True
plot_modeloutput_section_withtrib
(model=None, fig=None, title='')
Plots the result of the model output along the flowline. Parameters ---------- model: obj either a FlowlineModel or a list of model flowlines. fig title
Plots the result of the model output along the flowline.
def plot_modeloutput_section_withtrib(model=None, fig=None, title=''): """Plots the result of the model output along the flowline. Parameters ---------- model: obj either a FlowlineModel or a list of model flowlines. fig title """ try: fls = model.fls except Attribu...
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[ 784, 0 ]
[ 875, 22 ]
python
en
['en', 'en', 'en']
True
ExpandXcodeVariables
(string, expansions)
Expands Xcode-style $(VARIABLES) in string per the expansions dict. In some rare cases, it is appropriate to expand Xcode variables when a project file is generated. For any substring $(VAR) in string, if VAR is a key in the expansions dict, $(VAR) will be replaced with expansions[VAR]. Any $(VAR) substring i...
Expands Xcode-style $(VARIABLES) in string per the expansions dict.
def ExpandXcodeVariables(string, expansions): """Expands Xcode-style $(VARIABLES) in string per the expansions dict. In some rare cases, it is appropriate to expand Xcode variables when a project file is generated. For any substring $(VAR) in string, if VAR is a key in the expansions dict, $(VAR) will be re...
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[ 564, 0 ]
[ 587, 17 ]
python
en
['en', 'en', 'en']
True
EscapeXcodeDefine
(s)
We must escape the defines that we give to XCode so that it knows not to split on spaces and to respect backslash and quote literals. However, we must not quote the define, or Xcode will incorrectly interpret variables especially $(inherited).
We must escape the defines that we give to XCode so that it knows not to split on spaces and to respect backslash and quote literals. However, we must not quote the define, or Xcode will incorrectly interpret variables especially $(inherited).
def EscapeXcodeDefine(s): """We must escape the defines that we give to XCode so that it knows not to split on spaces and to respect backslash and quote literals. However, we must not quote the define, or Xcode will incorrectly interpret variables especially $(inherited).""" return re.sub(_xcode_...
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[ 593, 0 ]
[ 598, 47 ]
python
en
['en', 'en', 'en']
True
load_provinces
()
Loads list of provinces from API
Loads list of provinces from API
def load_provinces(): '''Loads list of provinces from API''' return pd.read_json('https://api.covid19tracker.ca/provinces')
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[ 19, 0 ]
[ 21, 66 ]
python
en
['en', 'en', 'en']
True
load_data
(province_code, population)
Loads provincial case data w/ provided province code
Loads provincial case data w/ provided province code
def load_data(province_code, population): '''Loads provincial case data w/ provided province code''' df = pd.json_normalize( pd.read_json(f'https://api.covid19tracker.ca/reports/province/{province_code.lower()}')['data'] ) df['active_cases'] = df['change_cases'].rolling(14).sum() df['active...
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[ 25, 0 ]
[ 37, 13 ]
python
en
['en', 'en', 'en']
True
generate_hero_card
(title, subtitle)
Generates HTML string for card
Generates HTML string for card
def generate_hero_card(title, subtitle): '''Generates HTML string for card''' return f''' <div style='text-align: center'> <h1 style='margin-top: 0; padding-top: 0.2rem;'>{title}</h1> <h2 style='margin-top: 0; padding-top: 0'>{subtitle}</h2> </div> '''
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[ 41, 0 ]
[ 48, 7 ]
python
en
['en', 'en', 'en']
True
extract_packages
(package_names)
Extract zipfile contents to disk and add to import path
Extract zipfile contents to disk and add to import path
def extract_packages(package_names): """Extract zipfile contents to disk and add to import path""" # Set a safe extraction dir extraction_tmpdir = tempfile.mkdtemp() atexit.register(lambda: shutil.rmtree( extraction_tmpdir, ignore_errors=True)) pkg_resources.set_extraction_path(extraction_t...
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[ 32, 0 ]
[ 54, 52 ]
python
en
['en', 'en', 'en']
True
sort_wheels
(whls)
Sorts a list of wheels deterministically.
Sorts a list of wheels deterministically.
def sort_wheels(whls): """Sorts a list of wheels deterministically.""" return sorted(whls, key=lambda w: w.distribution() + '_' + w.version())
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[ 107, 0 ]
[ 109, 73 ]
python
en
['en', 'en', 'en']
True
determine_possible_extras
(whls)
Determines the list of possible "extras" for each .whl The possibility of an extra is determined by looking at its additional requirements, and determinine whether they are satisfied by the complete list of available wheels. Args: whls: a list of Wheel objects Returns: a dict that is keyed by the W...
Determines the list of possible "extras" for each .whl
def determine_possible_extras(whls): """Determines the list of possible "extras" for each .whl The possibility of an extra is determined by looking at its additional requirements, and determinine whether they are satisfied by the complete list of available wheels. Args: whls: a list of Wheel objects ...
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[ 111, 0 ]
[ 163, 3 ]
python
en
['en', 'en', 'en']
True
parse_bed6
(fname, progress_report=False, forceStrand=None, generated_by="common.gff_gtf_tools.parse_gff_v3(v%s)" \ "" % str(ver), preserve_source=False, stripChr=False, splitChar="\t")
read a bed6 file and convert it into a set of 'regions' forceStrand overrides any strand information in the bedfile. Acceptable values are '-' or '+'.
read a bed6 file and convert it into a set of 'regions' forceStrand overrides any strand information in the bedfile. Acceptable values are '-' or '+'.
def parse_bed6(fname, progress_report=False, forceStrand=None, generated_by="common.gff_gtf_tools.parse_gff_v3(v%s)" \ "" % str(ver), preserve_source=False, stripChr=False, splitChar="\t"): """ read a bed6 file and convert it into a set of 'regions' ...
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[ 60, 0 ]
[ 161, 40 ]
python
en
['en', 'en', 'en']
True
parse_gff_gtf
(fname, skip_fasta=True, force_type=None, progress_report=False, fixID=True, fixName=True, generated_by="common.gff_gtf_tools.parse_gff_v3(v%s)" \ "" % str(ver), preserve_source=False, stripChr=False, splitChar="\t")
read a gff or gtf file and convert it into a set of 'regions' skip_fasta controls what to do with fasta sequences stored at the end of gff files, force_type controls whether to autodetect the type from the gff file or whether to assume a known filetype. fixID forces each regions to include an i...
read a gff or gtf file and convert it into a set of 'regions' skip_fasta controls what to do with fasta sequences stored at the end of gff files, force_type controls whether to autodetect the type from the gff file or whether to assume a known filetype. fixID forces each regions to include an i...
def parse_gff_gtf(fname, skip_fasta=True, force_type=None, progress_report=False, fixID=True, fixName=True, generated_by="common.gff_gtf_tools.parse_gff_v3(v%s)" \ "" % str(ver), preserve_source=False, stripChr=False, splitChar="\t"): ...
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[ 163, 0 ]
[ 368, 40 ]
python
en
['en', 'en', 'en']
True
mergeAnnotations
(input_filenames, logger, filetype="gff3", overwrite_strand_list=None, generated_by=None)
merges two or more annotations, optionally overwriting strnad info
merges two or more annotations, optionally overwriting strnad info
def mergeAnnotations(input_filenames, logger, filetype="gff3", overwrite_strand_list=None, generated_by=None): """ merges two or more annotations, optionally overwriting strnad info """ new_annotation=None annotations=[] i=0 while i<len(input_filenames): filename = input_filenames...
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[ 1167, 0 ]
[ 1211, 26 ]
python
en
['en', 'en', 'en']
True
overwrite_strand
(full_annotation, newstrand, logger)
takes a full annotation region and overwrites the strand information This overwrite *all* strand information. Use carefully!
takes a full annotation region and overwrites the strand information This overwrite *all* strand information. Use carefully!
def overwrite_strand(full_annotation, newstrand, logger): """ takes a full annotation region and overwrites the strand information This overwrite *all* strand information. Use carefully!""" if type(full_annotation) is not dict: raise TypeError("Please supply a full annotation dictiona...
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[ 1213, 0 ]
[ 1244, 27 ]
python
en
['en', 'en', 'en']
True
annotation.__init__
(self, fname, skip_fasta=True, filetype=None, verbose=False, forceGene_ID=True, forceTranscript_ID=True, generated_by=None, existing_annotation_headerlines=None, preserve_source=False, stripChr=False, featureNameKey=None, forceStrand=None)
class constructor: this takes the filename of the gff or gtf file and reads the data from it into the class attributes. Filename should be a string and point to a file that exists. skip_fasta is passed to the parsing options where appropriate and filetype controls whether to assume a p...
class constructor: this takes the filename of the gff or gtf file and reads the data from it into the class attributes. Filename should be a string and point to a file that exists. skip_fasta is passed to the parsing options where appropriate and filetype controls whether to assume a p...
def __init__(self, fname, skip_fasta=True, filetype=None, verbose=False, forceGene_ID=True, forceTranscript_ID=True, generated_by=None, existing_annotation_headerlines=None, preserve_source=False, stripChr=False, featureNameKey=None, forceStrand=None): ...
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[ 381, 4 ]
[ 577, 50 ]
python
en
['en', 'en', 'en']
True
annotation.__gen_ordering_array
(self)
generates the main numpy array for working with the annotation
generates the main numpy array for working with the annotation
def __gen_ordering_array(self): """generates the main numpy array for working with the annotation """ tuplelist=[] for region_type in self._full_annotation.keys(): try: for each_region in self._full_annotation[region_type]: ...
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[ 580, 4 ]
[ 607, 59 ]
python
en
['en', 'en', 'en']
True
annotation.__region_to_tuple
(self, thisregion, region_type, region_id, specifyNameID=None)
build a tuple appropriate for the ordering array from a region This should contain 7 elements, see the __ordering_array_dtype
build a tuple appropriate for the ordering array from a region This should contain 7 elements, see the __ordering_array_dtype
def __region_to_tuple(self, thisregion, region_type, region_id, specifyNameID=None): """ build a tuple appropriate for the ordering array from a region This should contain 7 elements, see the __ordering_array_dtype""" thisid=None ...
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[ 609, 4 ]
[ 634, 26 ]
python
en
['en', 'en', 'en']
True
annotation.set_nameKey
(self, newNameKey)
sets a new keyword value for the 'name' column for ordering_array
sets a new keyword value for the 'name' column for ordering_array
def set_nameKey(self, newNameKey): """ sets a new keyword value for the 'name' column for ordering_array""" self.featureNameKey = newNameKey self._ordering_array = self.__gen_ordering_array()
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[ 636, 4 ]
[ 641, 58 ]
python
en
['en', 'en', 'en']
True
annotation.set_feature
(self, feature_str)
set the feature type you're interested in
set the feature type you're interested in
def set_feature(self, feature_str): """ set the feature type you're interested in """ if type(feature_str) is not str: msg = "Feature type should be a string. Available " \ "features are: %s" % ", ".join(self._featurelist) raise TypeError(msg) ...
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[ 643, 4 ]
[ 659, 96 ]
python
en
['en', 'en', 'en']
True
annotation.clear_feature_selection
(self)
clears the variables defining the current feature selection
clears the variables defining the current feature selection
def clear_feature_selection(self): """ clears the variables defining the current feature selection """ self.current_feature=None self._feature_index=None
[ "def", "clear_feature_selection", "(", "self", ")", ":", "self", ".", "current_feature", "=", "None", "self", ".", "_feature_index", "=", "None" ]
[ 661, 4 ]
[ 666, 32 ]
python
en
['en', 'en', 'en']
True
annotation.set_region
(self, region_rep, start=None, stop=None, strand=None)
set the feature region you're interested in. Input can either be a 'region' instance or a string that will be parsed into a 'region' instance. See parsing_routines.general_classes_and_functions.py for details on the input for the 'region' constructor.
set the feature region you're interested in. Input can either be a 'region' instance or a string that will be parsed into a 'region' instance. See parsing_routines.general_classes_and_functions.py for details on the input for the 'region' constructor.
def set_region(self, region_rep, start=None, stop=None, strand=None): """ set the feature region you're interested in. Input can either be a 'region' instance or a string that will be parsed into a 'region' instance. See parsing_routines.general_classes_and_functions...
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[ 668, 4 ]
[ 720, 37 ]
python
en
['en', 'en', 'en']
True
annotation.clear_region_selection
(self)
clears the variables defining the current feature selection
clears the variables defining the current feature selection
def clear_region_selection(self): """ clears the variables defining the current feature selection """ self.current_region=None self._region_index=None
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[ 722, 4 ]
[ 727, 31 ]
python
en
['en', 'en', 'en']
True
annotation.set_name_selection
(self, name_str)
set the name(s) of the feature(s) your are interested in
set the name(s) of the feature(s) your are interested in
def set_name_selection(self, name_str): """ set the name(s) of the feature(s) your are interested in """ if type(name_str) is list or type(name_str) is numpy.ndarray: newlist = [] for name in name_str: newlist.append(name.lower()) # uniqueify...
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[ 729, 4 ]
[ 752, 32 ]
python
en
['en', 'en', 'en']
True
annotation.clear_name_selection
(self)
clears the variables defining the current name selection
clears the variables defining the current name selection
def clear_name_selection(self): """ clears the variables defining the current name selection """ self.current_name=None self._name_index=None
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[ 754, 4 ]
[ 759, 29 ]
python
en
['en', 'en', 'en']
True
annotation.set_attribute_filters
(self, this_dict)
filters regions for only those with a given attribute value
filters regions for only those with a given attribute value
def set_attribute_filters(self, this_dict): """ filters regions for only those with a given attribute value""" if type(this_dict) is not dict: msg = "Attribute filters should be a dictionary of the form: " \ "{atribute_name:value, ... }." raise...
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[ 761, 4 ]
[ 769, 41 ]
python
en
['en', 'en', 'en']
True
annotation.clear_attribute_filter
(self)
clears the variables defining the current feature selection
clears the variables defining the current feature selection
def clear_attribute_filter(self): """ clears the variables defining the current feature selection """ self.current_attributes=None
[ "def", "clear_attribute_filter", "(", "self", ")", ":", "self", ".", "current_attributes", "=", "None" ]
[ 771, 4 ]
[ 775, 36 ]
python
en
['en', 'en', 'en']
True
annotation.clear_all
(self)
clears all the selectors and filter options
clears all the selectors and filter options
def clear_all(self): """ clears all the selectors and filter options """ self.current_feature=None self._feature_index=None self.current_region=None self._region_index=None self.current_name=None self._name_index=None self.current_attribu...
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[ 777, 4 ]
[ 787, 36 ]
python
en
['en', 'en', 'en']
True
annotation.__build_final_index
(self)
return a combined index based on feature & region indexes
return a combined index based on feature & region indexes
def __build_final_index(self): """ return a combined index based on feature & region indexes """ indexes = [numpy.arange(len(self._ordering_array["start"]))] if self._region_index is not None: indexes.append(self._region_index) if self._feature_index is not ...
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[ 789, 4 ]
[ 809, 25 ]
python
en
['en', 'en', 'en']
True
annotation.get_selection
(self, match_case=False, return_indexes=False)
return the selected annotations based on feature & region indexes
return the selected annotations based on feature & region indexes
def get_selection(self, match_case=False, return_indexes=False): """ return the selected annotations based on feature & region indexes """ final_ind = self.__build_final_index() selection = self._ordering_array[final_ind] selected_regions=[] i=0 for sele...
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[ 811, 4 ]
[ 845, 32 ]
python
en
['en', 'en', 'en']
True