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import time def spi_command(spi, message, get_result): """Write the specified message to the serial peripheral interface and return the result if get_result is true.""" spi.writebytes(message) time.sleep(0.001) return spi.readbytes(4) if get_result else None
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from typing import Union def bool_value(s: Union[str, int]) -> bool: """ Convert a string or int to a boolean value. Raises ValueError if the string isn't boolean. :param s: the string :return: the boolean """ if isinstance(s, bool): return s if isinstance(s, int): r...
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def get_dns_classification(self) -> list: """Get application definition for DNS from Cloud Portal. This generates a lot of data and require longer response time. .. list-table:: :header-rows: 1 * - Swagger Section - Method - Endpoint * - spPortal - GET...
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def arithmetic_series(a, d, n): """Find the sum of arithmetic series. a = first term d = Common Difference n = number of terms """ sum_ = (n/2) * (2 * a + (n-1) * d) return sum_
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import random def get_batch(source, i, args, train=True): """ get_batch subdivides the source data into chunks of length args.bptt. If source is equal to the example output of the batchify function, with a bptt-limit of 2, we'd get the following two Variables for i = 0: ┌ a g m s ┐ ┌ b h n t ┐ ...
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import string def get_format_keys(format_str: str) -> list: """ Get keys from format string. Unnamed placeholders are returned as empty strings.""" return [t[1] for t in string.Formatter().parse(format_str) if t[1] is not None]
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def alias_map(aliased, aliases, required=()): """For each key in ``aliases``, find the item in ``aliased`` matching exactly one of the corresponding items in ``aliases``. Parameters ---------- aliased : list of str Input keys, will be values in output map. aliases : dict of sets ...
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def ito_to_neuprint(ito_name): """Map Ito region name to equivalent hemibrain neuprint region(s).""" mapping = {'AL_R': ['AL(R)'], 'AOTU_R': ['AOTU(R)'], 'ATL_R': ['ATL(R)'], 'ATL_L': ['ATL(L)'], 'AVLP_R': ['AVLP(R)'], 'BU_R': ['BU(R)'],...
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import torch def laplace_attention(queries, keys, values, scale, normalise=True): """ Here we compute the Laplace exponential attention. Each value is weighted by an amount that depends on the distance of the query from the corresponding key (specifically, w_i ~ exp(-||q-k_i||/scale)) :param queries: ...
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import operator def trim_vocab(word_frequency, vocab_size): """Given the max vocab size n, trim the word_frequency dictionary to only contain the top n occurring words Args: word_frequency (Dictionary): dictionary of word, frequency pairs. vocab_size (Integer): the maximum number of vocabulary allowed. ...
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def print_class(klass): """Return the class name as used in text reports. """ return klass.lstrip('0')
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import math def gam_prophoto(rgb): """ Convert an array of linear-light prophoto-rgb in the range 0.0-1.0 to gamma corrected form. Transfer curve is gamma 1.8 with a small linear portion. """ et = 1 / 512 result = [] for i in rgb: # Mirror linear nature of algorithm on the nega...
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def fibonacci_at_position(position): """Return Fibonacci number at specified position""" current_position = 0 previous_number, current_number = 0, 1 while current_position < position: current_position += 1 previous_number, current_number = current_number, previous_number + current_number...
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def _cmp_zorder(lhs, rhs) -> bool: """Used to check if two values are in correct z-curve order. Based on https://github.com/google/neuroglancer/issues/272#issuecomment-752212014 Args: lhs: Left hand side to compare rhs: Right hand side to compare Returns: bool: True if in corre...
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def between(x1: float, x2: float, x3: float) -> bool: """Checks if x2 is between x1 and x3.""" return x1 < x2 < x3 or x1 > x2 > x3
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import random def crossover(x, y): """ simple one-point crossover """ random_point = random.randint(1, len(x) - 1) return x[0:random_point] + y[random_point:len(x)], \ y[0:random_point] + x[random_point:len(x)]
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def firehose_alerts_bucket(config): """Get the bucket name to be used for historical alert retention Args: config (dict): The loaded config from the 'conf/' directory Returns: string: The bucket name to be used for historical alert retention """ # The default name is <prefix>-strea...
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def _compute_slice_dim_and_shape(full_shape, slicing): """Computes which dimension is being sliced and the typical slice shape.""" slice_shape = [0] * len(full_shape) slice_dim = None for dim, num_slices in enumerate(slicing): dim_size = full_shape[dim] if num_slices <= 0 or dim_size < num_slices: ...
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import re def _get_cmds_inputs(ctx, ci): """Parse and return commands and TOSCA inputs.""" cmds = [] inputs = {} pipe = False i = 0 while i < len(ci): if ci[i].startswith('--'): # Parse TOSCA inputs in the two possible format: # --key value or --key=value ...
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def sample(*args, **kwargs): """Convenience method that calls into pandas DataFrame's sample method""" return lambda df: df.sample(*args, **kwargs)
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import random import torch def _interval_based_sampling(vid_length, vid_fps, target_fps, clip_idx, num_clips, num_frames, interval, minus_interval=False): """ Generates the frame index list using interval based sampling. Args: vid_length (int): The length of the whole vid...
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def water_dielectric_const(T): """Return water dielectric constant for temperature 253.15K < T < 383.15K. Uses interpolation equation (eq. 9) for static dielectri constant found in the doucment by The International Association for the Properties of Water and Steam from 2011 <http://www.iapws.org/rel...
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def invert_dictionary(dictionary): """Invert a dictionary. NOTE: if the values of the dictionary are not unique, the function returns the one of the mappings Args: dictionary (dict): A dictionary Returns: dict: inverted dictionary Examples: >>> d = {"a": 1, "b...
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def mahalanobis_squared(xi, xj, VI=None): """Computes the pair-wise squared mahalanobis distance matrix as: (xi - xj)^T V^-1 (xi - xj) Args: xi (Tensor): xi input matrix. xj (Tensor): xj input matrix. VI (Tensor): The inverse of the covariance matrix, default: identity ...
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def _no_convert(_, start, end=None): """Dummy function for when no conversion is needed.""" if end: return start, end else: return start, start
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def rx_band(freq): """ Associate a waveguide band with a frequency """ # Which front end channel is this for? if freq < 2000.: band = 'L' elif freq < 5000.: band = 'S' elif freq < 10000.: band = 'X' elif freq < 40000.: band = 'Ka' else: band = None return band
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from typing import Iterable def to_list(item_or_list): """ Convert a single item, a tuple, a generator or anything else to a list. :param item_or_list: single item or iterable to convert :return: a list """ if isinstance(item_or_list, list): return item_or_list elif isinstance(ite...
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def num_to_string(num): """Formats a number as a string""" if int(num) == num: return str(int(num)) else: return str(num)
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def get_abort_running(db_cur, schedule_id): """Get abort_running status""" sqlquery = f""" SELECT abort_running FROM schedules WHERE schedule_id = '{str(schedule_id)}'""" db_cur.execute(sqlquery) row = db_cur.fetchone() abort_running = row[0] if abort_running == 0: return F...
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def replace_python_tag(wheelname, new_tag): # type: (str, str) -> str """Replace the Python tag in a wheel file name with a new value.""" parts = wheelname.split('-') parts[-3] = new_tag return '-'.join(parts)
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def _starts_with_vowel(char) -> bool: """Test to see if string starts with a vowel Args: char: character or string Returns: bool True if the character is a vowel, False otherwise Examples: >>> _starts_with_vowel('a') True >>> _starts_with_vowel('b') Fal...
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def freq(mylist, item): """Return the relative frequency of an item of a list. :param mylist: (list) list of elements :param item: (any) an element of the list (or not!) :returns: frequency (float) of item in mylist """ return float(mylist.count(item)) / float(len(mylist))
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from typing import Tuple def _identify_additional_columns( schema_field_names: Tuple[str, ...], column_names: Tuple[str, ...], ) -> Tuple[bool, ...]: """Returns boolean mask of column names not in schema field names.""" return tuple(column not in schema_field_names for column in column_names)
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def from_doi(doi_identifier): """ Make an ISBN out of the given DOI. .. note:: Taken from https://github.com/xlcnd/isbnlib/issues/30#issuecomment-167444777. .. note:: See https://github.com/xlcnd/isbnlib#note. The returned ISBN may not be issued yet (it is a valid on...
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import requests import json def get_jsonparsed_data(url): """ Sends a GET request to API and returns the resulting data in a dictionary """ # sending get request and saving the response as response object response = requests.get(url=url) data = json.loads(response.text) return data
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def revcompSeq(seq): """ Get reverse complementary sequence """ return seq.translate(str.maketrans("ACGTN", "TGCAN"))[::-1]
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def test_areas(root, printerror=False): """Verifies if the Lattes CV contains actuation areas. Args: root: the Lattes CV that has been parsed with the ElementTree language. flag: if 0, then the Lattes CV contains actuation areas. If 1, the Lattes CV doesn't contain actuation area...
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def pe8(fname="../../res/pe8.txt", n=5): """ Discover the largest product of five consecutive digits in the 1000-digit number. >>> pe8() 40824 """ with open(fname, 'r') as f: s = f.read() s = s.replace('\n', '') ls = len(s) if ls < n: raise ValueError m = 0 ...
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from typing import Iterable import ast def _contains_node(elts: Iterable[ast.AST], node: ast.AST) -> bool: """Given a list of assignment targets (elts), return whether it contains the given Name node.""" for elt in elts: if isinstance(elt, (ast.List, ast.Tuple)): if _contains_node(elt.elts...
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def rebuild_text_passim(page, string=None): """The text rebuilding function. :param page: a newspaper page conforming to the impresso JSON schema for pages. :type page: dict :param string: the rebuilt text of the previous page. If `string` is not `None`, then the rebuilt text is appende...
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def _grid_list_uuid_list(model): """Returns list of uuid's for the grid objects in the cached grid list.""" uuid_list = [] for grid in model.grid_list: uuid_list.append(grid.uuid) return uuid_list
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def create_analogy_templates(all_analogies): """For each analogy, create a template using each word pair. Each template contains two special tokens: "[A]" and "[B]". These correspond to the first and second word of the analogies provided in the original analogies file, and will be substituted in during the ra...
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def error_response(error_message): """Return a well-formed error message.""" return { "success": False, "test_name": "s3_png_metadata", "error_message": error_message, }
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import re def escape_for_file(s): """Take out invalid characters for a filename.""" return re.sub('/', '-', s)
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def checkPhone(phone: str) -> bool: """ Checks if a phone number is valid Expected Countrycode<space>Number +91 12345678901 Parameters ---------- phone: str The string to be Tested Returns ------- bool True/False according to the validity of the phone number """...
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import re def get_field_name_from_mongoengine_error(exc): """ Try to extract field name from mongoengine error. If field name is unable to be extracted, original exception is returned instead. """ msg = str(exc) match = re.match('Cannot resolve field "(.+?)"', msg) if match: ret...
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def query_df(data, col_name, col_value): """ Create a new subset of a given DataFrame() by querying it. Parameters: - data: The base DataFrame(). - col_name: The name of the column. - col_vale: The values to match in that column. Returns: A DataFrame() object. """ ...
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def _get_unique_symmetry_elements(sym1, sym2, check_subgroups=False): """Compute the unique symmetry elements between two `Symmetry` instances, defined as `sym1.outer(sym2).unique()`. To improve computation speed some checks are performed prior to explicit computation of the unique elements. If `sym1 =...
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def to_sir(scale, decay, n): """ Return the parameters of the equivalent SIR model. Parameters ---------- scale : float See the corresponding parameters in :meth:`exp_intensity` for more information. decay : float See the corresponding parameters in :meth:`exp_intensity`...
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import re def extract_r(rmd_content): """Extract the actual R code from the given Rmd script""" return "\n".join(re.findall(r"^```\{r[ \}].*?$(.+?)^```", rmd_content, flags=re.MULTILINE|re.DOTALL))
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import re def process_url_id(url: str): """ Process the URL and return the giveaway ID :return: string ('https://playr.gg/giveaway/WPfCGl-') --> 'WPfCGl-' """ return re.split("/", url)[-1]
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def _make_click_callback(function): """ Given a `function`, returns a callback function that can be used for a click option's `callback=` to apply `function` to the value before passing the argument to the command """ def callback(ctx, param, value): return function(value) return c...
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def load_file(filename: str) -> list: """Load the list of lanternfish from filename :param filename: Location of the input file :return: List of lanternfish """ with open(filename) as f: fish = [int(n) for n in f.readline().split(',')] return fish
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from typing import Union import logging def _convert_logging_level(level: Union[int, str]) -> int: """Convert the user-provided level to a logging level integer.""" if isinstance(level, int): assert 0 < level <= 50, 'Logging level must be between 0 and 50.' return level assert hasattr(logg...
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def parse_header_variable(line): """ Parses a line that follows: Variable Code Value Description Returns: key, value, description, in_automesh """ x = line.split() key = x[0] if x[1] == 'A': in_automesh = True s = x[2]...
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def is_sequence(arg): """ Returns true if arg behaves like a sequence, unless it also implements strip, such as strings. """ return (not hasattr(arg, "strip") and hasattr(arg, "__getitem__") or hasattr(arg, "__iter__"))
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async def root(): """Home page.""" return {"message": "Hello Harper"}
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from typing import Tuple def _get_effective_bandwidth( lo: int, hi: int, transpose: bool, symmetrise: bool ) -> Tuple[int, int]: """ Given that a matrix has bandwidth (lo, hi) but may be treated transposed or symmetrised, return the dimension of the matrix effectively used. """ if transpose: ...
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def is_snapshot_version(version): """ Check whether the given version is a snapshot version :param version: The version to check :return: whether the given version is a snapshot version """ return version.endswith("-SNAPSHOT")
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def is_di_repeat(kmer): """ Return true if kmer represents a di-nucleotide repeat (e.g. ATATAT). """ if not len(set(kmer)) == 2: return False return bool(len(set(kmer[::2])) == 1 and len(set(kmer[1::2])) == 1)
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def cap_feature(s): """ Capitalization feature: 0 = low caps 1 = all caps 2 = first letter caps 3 = one capital (not first letter) """ if s.lower() == s: return 0 elif s.upper() == s: return 1 elif s[0].upper() == s[0]: return 2 else: return 3
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import itertools def repeat(make_source): """Yield elements from a source, re-initializing it when empty.""" return itertools.chain.from_iterable(make_source() for _ in itertools.count())
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def get_segment_length(linestring, p, q=None): """ Given a Shapely linestring and two Shapely points, project the points onto the linestring, and return the distance along the linestring between the two points. If ``q is None``, then return the distance from the start of the linestring to the pr...
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def strip_comment(line): """ Remove comment from input line. """ comment = line.find('#') if comment != -1: line = line[:comment] return line.strip()
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def request_args(args): """Decorator for request arguments. Defines fields that should be passed to the controller action. :param args: The arguments of the request. :type args: dict :return: The decorator. :rtype: """ def _decorator(f): f.args = args return f ret...
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def _pyval_find_struct_keys_and_depth(pyval, keys): """Finds the keys & depth of nested dictionaries in `pyval`. Args: pyval: A nested structure of lists, tuples, and dictionaries. keys: (output parameter) A set, which will be updated with any keys that are found in the nested dictionaries. Return...
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import math def generate_pareto_distribution_from_CDF(rand, lambda_pareto): """ Generate numbers following Pareto distribution using its CDF and a random number uniformly generated """ # We use beta = 2 (Pareto Parameter from distribution) return (1/math.sqrt(1-rand) - 1)/lambda_pareto
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def test_cutoff(labels, scores, cutoff, metric = "accuracy"): """ -- DESCRIPTION -- Function to calculate accuracy or false positive rate for a specific cutoff value. PARAMS: - labels (list of strings): list of labels ("active" or "inactive"...
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def _proto_path(src, proto): """proto_path returns the string used to import the proto. This is the proto source path within its repository, adjusted by import_prefix and strip_import_prefix. Args: src: the proto source File. proto: the ProtoInfo provider. Returns: An impor...
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def generate_path_dict(images_path, labels_path, partial_f_name): """ Generate split data path dict, also contains the corresponding label directories. :param images_path: str - image top path :param labels_path: str - label top path :param partial_f_name: str - ending annotation name :return: D...
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def read_datasets_h5(h5): """ Simple read datasets from h5 handle into numpy arrays """ d = {} for k in h5: d[k] = h5[k][:] return d
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import math def getDistance(x_data_row1, x_data_row2): """calculates distance between two rows of data (based on Euclidean distance)""" distance = 0 length = len(x_data_row1) for i in range(length): distance += (x_data_row1[i] - x_data_row2[i])**2 # differences...
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def bowtie2_index_from_prefix(prefix): """ Given a prefix, return a list of the corresponding bowtie2 index files. """ return ( [ '{prefix}.{n}.bt2'.format(prefix=prefix, n=n) for n in range(1, 5) ] + [ '{prefix}.rev.{n}.bt2'.format(prefix=prefix, n=n)...
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import base64 def base64url_decode(src): """ Decode URL-safe base64-encoded string without padding. :param src: :return: """ return base64.urlsafe_b64decode(src + '=' * (len(src) % 4 ))
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def reorder(order, tag, reverse=False): """ Relocate the tag column to be the last bin of the order. :param order: iterable order. :param tag: string :param reverse: True to put it at the beginning, false to be the last :return: ordered order """ order = list(order) others_index = o...
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def lines(s): """ Split a string in lines using the following conventions: - a line ending \r\n or \n is a separator and yields a new list element - empty lines or lines with only white spaces are not returned. - returned lines are stripped. Because of these constraints "".split() cannot be use...
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def normal_name(name: str) -> str: """Make first letter uppercase and replace spaces with underscores""" if name == "": return "" name = str(name) return (name[0].upper() + name[1:]).replace(" ", "_")
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def find_alias_target(ast): """ If "ast" is an alias type, return its target. If "ast" is a type instance, go to the constructing type first. """ try_again = True while try_again: try_again = False if ast.name == 'type_instance': ast = ast.the('target').the('type') try_again = True while ast.name == ...
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def image( src="http://placehold.it/200x200", href=False, display=False, # [ rounded | circle | polaroid ] pull="left", # [ "left" | "right" | "center" ] htmlClass=False, htmlId=False, thumbnail=False, width=False, height=False, onPhone=T...
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import torch def swish(x): """ Swish activation function, from Ramachandran, Zopf, Le 2017. "Searching for Activation Functions" """ return x * torch.sigmoid(x)
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import random def pick_max(distribution): """Pick the value with the max weight from a list of (element, weight) pairs.""" distribution = list(distribution) # Reify potential generator max_w = max(w for x, w in distribution) opts = [x for x, w in distribution if w == max_w] return random.choice(opts)
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from pathlib import Path from typing import Dict def insert_high_priority(value: Path, fpaths: Dict[int, Path]) -> Dict[int, Path]: """Adds a high-priority file path to ``fpaths``.""" max_priority = max(fpaths.keys()) max_priority += 1 fpaths[max_priority] = value return fpaths
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import glob def get_algorithms() -> list[str]: """Returns a list of all available algorithms Returns: list[str]: Gathered algorithms from the folder """ files = glob.glob("algorithms/*.py") return [ file.split("\\")[-1].split(".")[0].replace("_", " ").title() for file in files ...
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def parse_benchmark_full_name(name: str): """ Returns the benchmark full name including the template types. >>> parse_benchmark_full_name('BM_Insert_Random<int64_t, int64_t, std::unordered_map>/1000') 'BM_Insert_Random<int64_t, int64_t, std::unordered_map>' """ return name[0: name.find('/')]
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def gdx_isnan(val,gdxf): """ Utility function for equating the GDX special values that map to None or NaN (which are indistinguishable in pandas). Parameters ---------- val : numeric value to test gdxf : GdxFile GDX file containing the value. Provides np_to_gdx_svs map. ...
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def get_prediction(data,model): """ Predict the class of a given data point. """ return model.predict(data)
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def format_span_id(span_id: int) -> str: """Format the span id according to b3 specification.""" return format(span_id, "016x")
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def volume_tetrahedron(xyz, A, B, C, D): """ Returns the volume for tetrahedras volume specified by the indexes A to D. :param numpy.ndarray xyz: X,Y,Z vertex vector :param numpy.ndarray A,B,C,D: vert index of the tetrahedra :rtype: numpy.ndarray :return: V, volume of the tetrahedra Algori...
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def capitalization_helper(original: str, replacement: str) -> str: """ helper function to return appropriate capitalization :param original: original word from the sentence :param replacement: replacement for the given word :return: replacement word matching the capitalization of the original word ...
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def get_role( trans, id ): """Get a Role from the database by id.""" # Load user from database id = trans.security.decode_id( id ) role = trans.sa_session.query( trans.model.Role ).get( id ) if not role: return trans.show_error_message( "Role not found for id (%s)" % str( id ) ) return r...
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def to_list(df): """ Create list of track & artists """ combined = df['combined'] track_artist = combined.tolist() return track_artist
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def _map_range(value, in_min, in_max, out_min, out_max): """Map an integer value from a range into a value in another range.""" result = (value - in_min) * (out_max - out_min) / (in_max - in_min) + out_min return int(result)
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def z_score(point, mean, stdev): """ Calculates z score of a specific point given mean and standard deviation of data. parameters: point: Real value corresponding to a single point of data mean: Real value corresponding to the mean of the dataset stdev: Real value corresponding to the standard deviation of the...
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def split_ref( ref ): """Splits a database reference into a db name and an accession number """ ( db_name, acc_id ) = ref.split( ':' ) return ( db_name, acc_id )
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def dmp_copy(f, u): """ Create a new copy of a polynomial ``f`` in ``K[X]``. Examples ======== >>> from sympy.polys.domains import ZZ >>> from sympy.polys.densebasic import dmp_copy >>> f = ZZ.map([[1], [1, 2]]) >>> dmp_copy(f, 1) [[1], [1, 2]] """ if not u: retu...
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def split_pdb_atom_lines(lines): """ Extract PDB atom properties for a list of strings and return a list of dictionaries. Parameters ---------- lines : list of str list of PDB atom strings Returns ------- list of dict list of PDB atom properties """ retu...
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def _get_files_excluded(copyright): """Returns an iterable of all Files-Excluded patterns""" return map(str.strip, copyright.header['Files-Excluded'].strip().splitlines())
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def _to_bool(value): """Transform string value to bool. Return `True` is input `value` is "yes" or "true", or "1" or "on", return `False` for all other cases. For example: .. code-block:: python >>> _to_bool('yes') True >>> _to_bool('no') False >>> _to_boo...
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def valid_delimiter(request): """ Fixture that yields valid delimiter strings. """ return request.param
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def parse_cmd(cmd): """This function converts a list to str. If a command is passed as list it is converted to str. For pyrpipe v0.0.5 onwards the get_shell_output function uses shell=True """ if isinstance(cmd,list): return " ".join(cmd) return cmd
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