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import copy def rotate_angles_one_by_one (idx, angles, thetas, structures): """ This script takes a set of structures, and outputs a (longer) set of structures where the given bond has been rotated. Args: idx (int): the current position in ``angles`` angles (list of 4-element lists): the ...
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def prime(number): """ Get the n-th prime """ if number == 0: raise ValueError('there is no zeroth prime') is_prime, count = [True for i in range(1000000 + 1)], 0 for i in range(2, 1000000 + 1): if is_prime[i]: count += 1 if count == number: ...
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def flicker_amplitude_to_frequency(flicker_amplitude : float) -> float: """ Converts the flicker amplitude to the first filter frequency according to Kallinger et al. (2016) :param flicker_amplitude: Flicker amplitude calculated according to Bastien et. al (2013) :return: First filter frequency """ ...
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def remove_surplus_bcc_clusters(clusters, bcc_frac): """From a list of contour clusters, remove those with too many BCCs.""" if bcc_frac == 1.0: return clusters good_clusters = [] for clust in clusters: # Retain if not outermost contour if clust.parent is not None: ...
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import six def is_primitive(val): """ Checks if the passed value is a primitive type. >>> is_primitive(1) True >>> is_primitive("abc") True >>> is_primitive(True) True >>> is_primitive({}) False >>> is_primitive([]) False >>> is_primitive(set([])) :param ...
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import math def get_distance(c1, c2): """ Returns approximate distance between two pairs of coordinates in km. Args: c1: coordinate pair 1 c2: coordinate pair 2 Returns: distance in km between c1 and c2 """ # approximate radius of earth in km R = 6373.0 lat1 = ma...
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import subprocess def expand_file_paths(value): """Expand filepaths.""" command = ("find " + value + " -type f 2>/dev/null") process = subprocess.run(command, stdout=subprocess.PIPE, shell=True).stdout expanded_files = process.strip().decode('utf-8').split('\n') return expanded_files
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def convert_kwh_gwh(kwh): """"Conversion of MW to GWh Input ----- kwh : float Kilowatthours Return ------ gwh : float Gigawatthours """ gwh = kwh * 0.000001 return gwh
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def dbt_project_dir(tmp_path_factory): """A temporary directory to store dbt test files.""" d = tmp_path_factory.mktemp("project") return d
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def GetCbsdRegistrationRequest(cbsd): """Returns a CBSD registration request from the |Cbsd| object. """ return { 'cbsdCategory': cbsd.category, 'installationParam': { 'latitude': cbsd.latitude, 'longitude': cbsd.longitude, 'height': cbsd.height_agl, 'heightType...
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def states_bedline_to_vector(bedlines, states_dic): """ Convert a line from a bedfile containing states in categorical data to vector format. Parameters ---------- bedline: [string,...] A line form a bedfile broken up into its contituent parts (e.g. ["chr1", "1000", "2000", "state"...
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import re def is_valid_volume_id(volume_id): """ Validates drive and volume IDs, also known as the drive/volume "name". A valid volume name should look like: volume-00000001 - It should always start with "volume-" and end with 8 hexadecimal characters in lower case. :type volume_id: str :para...
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def Not(query): """The negation of a query""" return '(NOT %s)' % (query,)
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def lerp(xvar, xlim, ylim): """linearly interpolate a value of y given ranges for x, y. arguments: xvar: scalar xlim: array with xmin, xmax ylim: array with ymin, ymax """ delta_x = (xvar - xlim[0]) slope = ((ylim[1] - ylim[0]) / (xlim[1] - xlim[0])) yvar = ylim[0] +...
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def incidentlist(xml): """ Takes the full incident XML and returns a list of dictionaries with 'agency code' and 'incident number' tag and text elements. """ i_list = [] for i in xml.iter('Incident'): i_dict = dict() i_dict['agency_code'] = i[2].text i_dict['incident_numb...
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def count_change(amount): """Return the number of ways to make change for amount. >>> count_change(7) 6 >>> count_change(10) 14 >>> count_change(20) 60 >>> count_change(100) 9828 """ def helper(amt, min_coin_value): if amt < 0: return 0 elif amt ...
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def _parse_dict(dct): """Auxiliary function to change the keys of a dictionary.""" return {k.split(":", 1)[-1]: v for k, v in dct.items()}
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def fitAngleToBaxter(angle): """ Returns an angle fitted to use with Baxter. Parameters ---------- angle (float): Angle to convert. Returns ------- new_angle (float): Angle transformed into Baxter's yaw. """ new_angle = -90.0 + angle if angle <= 90.0 else -180.0 + (angle - 90....
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def inside(x, a, b): """ test x \in (a, b) or not """ l = 0 # if not torch.isreal(x): # return l if a <= b: if x >= a and x <= b: l = 1 else: if x >= b and x <= a: l = 1 return l
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import random import copy def test_get_diff(lambda_module, get_product): """ Test get_diff() """ def _get_product(): product = get_product() product["quantity"] = random.randint(1, 10) return product old_products = [_get_product() for _ in range(5)] new_products = cop...
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def combine_adjacent(arr): """Sum like signed adjacent elements arr : starting array Returns ------- output: new summed array indexes: indexes indicating the first element summed for each group in arr """ output, indexes = [], [] curr_i = 0 while len(arr) > 0: ...
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def gen_all_strings(word): """ Generate all strings that can be composed from the letters in word in any order. Returns a list of all strings that can be formed from the letters in word. This function should be recursive. """ if len(word) == 0: return [""] else: res...
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def get_str_from_params(params: dict): """ Returns string from the parameters """ result = list() keys = list(params.keys()) length = len(keys) result.append("%s=%s" % (keys[0], params[keys[0]])) for i in range(1, length): result.append(":%s=%s" % (keys[i], params[keys[i]])) return...
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def sign(s): """ 计算签名 :param s: :return: """ mask = (1 << 32) - 1 hash1 = hash2 = 5381 l = len(s) i = 0 while i < l: c = ord(s[i]) hash1 = ((((hash1 << 5) & mask) + hash1) & mask) ^ c i += 1 if i >= l: break c = ord(s[i]) ...
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from typing import List from typing import Tuple import array def _linestring_to_coords(geometry: List[BaselinePath]) -> List[Tuple[array]]: # type: ignore """ Get 2d coordinates of the endpoints of line segment string. The line segment string is a shapely.geometry.linestring. :param geometry: the li...
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import json import base64 def generate_key(json_: str) -> str: """generate base64 encoded key build by json using "key1+value1+key2+..." method Args: json_ (str) Returns: bytes: key """ encoded_string = ''.join([f'{key}{value}' for key, value in json.loads(json_).items()]) re...
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def get_decoder_for_id(header_dict): """ Returns a dictionary that goes: `dict[dataIdNum] = "decoderName"` e.g: d[5] = 'ORSIS3302DecoderForEnergy' """ d = dict() for class_key in header_dict["dataDescription"].keys(): super_keys_list = [] for super_key in header_dict["dataDes...
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def get_tokens(tagger, content): """ 文書内に出現した名詞のリストを取得する関数。 """ tokens = [] # この記事で出現した名詞を格納するリスト。 node = tagger.parseToNode(content) while node: # node.featureはカンマで区切られた文字列なので、split()で分割して # 最初の2項目をcategoryとsub_categoryに代入する。 category, sub_category = node.feature.spli...
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def sort_points_by_Y(list_of_points): """Given a list of 2D points (represented as Point objects), uses "sorted" with the "key" argument to create and return a list of the SAME (not copied) points sorted in decreasing order based on their Y coordinates, without modifying the original list.""" return...
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def tokens_to_index(token_list, vocab_dict): """ convert word tokens to number index INPUT: token_list: a list of string tokens vocab_dict: a dictionary with tokens(key)-integer(value) pairs OUTPUT: index_list: a list of integer indices """ index_list = [] for x in t...
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import os def isFile( path ): """ Returns a boolean whether or not 'path' points to a regular file. """ return os.path.isfile( path )
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import argparse def parse_arguments(): """Parses command line arguments. Returns: An object containing parsed arguments. """ parser = argparse.ArgumentParser() parser.add_argument('--log_level', default='INFO', help='The logging threshold.') # Database connectivity arguments ...
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import re def is_valid_mac_address(mac): """ This will only validate the HHHH.HHHH.HHHH MAC format. """ if re.match('[0-9A-Fa-f]{4}[.][0-9A-Fa-f]{4}[.][0-9A-Fa-f]{4}$', mac): return True else: return False
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from typing import Union def _(value: Union[bytes, bytearray]) -> bytes: """Convert ``bytes`` or ``bytearray`` to bytes""" return value
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def available_sparse_deep_model(): """ List available sparse deep learning subjectivity analysis models. """ return ['fast-text-char']
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def _keyword_parsed_main_name(job): """ Return string of the parsed `main_name` of the job """ split_at_last_dot = str(job.main_name).rsplit(".", 1) last_dot_replaced = " ".join(split_at_last_dot) stripped_underscore = last_dot_replaced.replace("_", " ") return stripped_underscore
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def comp_height_wire(self): """Return wire height Parameters ---------- self : CondType11 A CondType11 object Returns ------- H: float Height of the wire [m] """ return self.Hwire
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def sample_sum_func(num_a: int, num_b: int) -> int: """ :rtype: object :param num_a: first number :param num_b: second number :return: sum of two numbers """ sum_two_numbers: int = num_a + num_b return sum_two_numbers
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import sympy import six import random def _split_factors(integer): """Randomly factors integer into product of two integers.""" assert integer.is_Integer if integer == 0: return [1, 0] # Gives dict of form {factor: multiplicity} factors = sympy.factorint(integer) left = sympy.Integer(1) right = symp...
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import json def get_test_ids(check_nightly_status=False): """Get the test ids from conf.json Keyword Arguments: check_nightly_status {bool} -- if we are running nightly test (default: {False}) Returns: tuple: (test_ids, skipped_tests) """ test_ids = [] with open("./Tests/conf...
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def compare_location_and_region(first_file, second_file): """ Compares versions for osfstoragefiles - Compares location['bucket'] and location['object']. Also compares version region_ids. """ first_loc = first_file['versions__location'] second_loc = second_file['versions__location'] if ...
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def spritecollide(sprite, group, dokill, collided=None): """ **pyj2d.sprite.spritecollide** Return list of sprites in group that intersect with sprite. The dokill argument is a bool, True removes sprites that collide from all groups. An optional collided is a callback function taking two sprite...
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def make_error_logger(logger): """Make handlers that logs and ignores encoding errors.""" def log_errors(exc): logger.error('incorrect character encoding', exc_info=exc) return ('', exc.end) return log_errors
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import csv def extract_ti_places_dict(path='./data/ti_places.csv'): """ Extracts a dictionary that keeps track of the ti places for each administrative area. The index column is 'istat_code', the population column is 'ti'. :rtype: Dictionary """ with open(path, mode='r', encoding='utf-8-sig')...
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import requests def check_http_status(host, port, **kwargs): """ Check that the HTTP status is normal. :param host: The host address. :param port: The port number. :return bool: The return value is a Boolean. """ url = 'http://{}:{}'.format(host, port) try: res = requests.requ...
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def is_compressed_key(pubkey_buffer): """ Checks whether or not a public key is compressed. :param pubkey_buffer: public keys as bytes obj. :return: true if public key is compressed; false otherwise """ if not isinstance(pubkey_buffer, bytes): raise ValueError length = len(pubkey_bu...
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def _detect_skipped_track(remaining_duration: float, end_of_track_buffer: float, track: dict, prev_track: dict) -> bool: """Performs the detection logic for whether a track was skipped Args: remaining_duration: The remaining duration of the track in m...
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def get_crashes_archive_name(cycle: int) -> str: """Return as crashes archive name given a cycle.""" return 'crashes-%04d.tar.gz' % cycle
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def _output_filename(title): """Construct output filename.""" return title + ".html"
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import time import os def read_file_content(file_path, timeout_seconds): """ Read file content :param path: Filepath :param timeout_seconds: Time to wait until file exists :return: File content """ end_time = time.time() + timeout_seconds while end_time > time.time() and not os.path.ex...
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def jn_second_zero(n): """Get an approximated location for the first zero of spherical bessel's function at a given order n""" # formula 9.5.14 in Handbook of Mathematical Functions v = n + 0.5 return v + 3.2446076*v**(1/3) + 3.1582436*v**(-1/3) - \ 0.083307*v**(-1) - 0.84367*v**(-5/3) + 0.8...
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import os def index_command(kiwix_bin, input_filename, output_dirname): """Index zim file""" cmd = [os.path.join(kiwix_bin, 'kiwix-index'), '-v', input_filename, output_dirname] return cmd
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def binomial(row: int, column: int): """ Calcula o coeficiente binomial correspondente ao triangulo Pascal :param row: numeradores do binomio :param column: denominadores do binomio :return: coeficiente calculado """ # linha (numerador) ou coluna (denominador) não podem ser negativos if ...
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from typing import Dict from typing import Union from typing import List import itertools import copy def gen_hparam_set( src_dict: Dict[str, Union[List[object], object]] ) -> List[Dict[str, object]]: """ Generate a collection of hyperparameters for hyparam searching. NOTE: in this version, a paramete...
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from typing import OrderedDict def expand_params(param_values): """expand combinations of parameter values""" # param_values - list of tuples of parameter names and lists of values n_params = len(param_values) if n_params == 0: return [] param_counts = [len(x[1]) for x in param_values]...
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import requests import json def search(q, h, t, p=bool): """ OUR MAIN SEARCH ENGINE - ONLY BRINGS BACK THE FIRST THREE RESULT :param q: query to search for :param h: the required headers for trakt api :param t: type we are looking for ("show", "movie", etc) :param p: Not used :return: a d...
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def is_palindrome(word): """Returns true if the word is a palindrome.""" return word == word[::-1]
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def verify_approval_skip(data, env, env_configs): """Determines if a approval stage can be added/removed from a given environment pipeline stage based on environment setting. Defaults to false, and verifies administrators allow skips in given environments. Args: data (dict): environment config d...
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def get_formatted_name(name): """ Return a 3-letters acronym in upper case and longer names in PascalCase. Exemple: 'sql' -> 'SQL'; 'hunting' -> 'Hunting' """ if len(name) == 3: neat_title = f"{name.upper()}" else: neat_title = f"{name.capitalize()}" return neat_title
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def curvature_from_stroke_vertex(svert): """The 3D curvature of an stroke vertex' underlying geometry The result is None or in the range [-inf, inf]""" c1 = svert.first_svertex.curvatures c2 = svert.second_svertex.curvatures if c1 is None and c2 is None: Kr = None elif c1 is None: ...
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def human_readable(value): """ Returns the number in a human readable format; for example 1048576 = "1Mi". """ value = float(value) index = -1 suffixes = 'KMGTPEZY' while value >= 1024 and index + 1 < len(suffixes): index += 1 value = round(value / 1024) if index == -1: ...
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import numpy def edger_matrix(work_counts, conditions, regions): """Count matrices for input into edgeR differential expression analysis. """ data = [] final_regions = [] for r in regions: cur_row = [int(work_counts[c][r]) for c in conditions] if sum(cur_row) > 0: final...
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def _calc_data_point_ticks(x_locations, num_distributions, distribution_width, distribution_centered): """Returns a 1D numpy array of x-axis tick positions. These positions will be centered on each data point. Set distribution_centered to True for scatter and box plots because t...
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def rain(walls): """ walls is a list of non-negative integers. Return: Integer indicating total amount of rainwater retained. Assume that the ends of the list (before index 0 and after index walls[-1]) are not walls, meaning they will not retain water. If the list is empty return 0. """ ...
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def separable_conv(graph, input, all_w, kernel_dim, layer_id): """Defines a separable convolution. Args: graph: The TASO graph. input: The input tensor. all_w: A list of lists of weights (one list for each layer). kernel_dim: The size of the kernel. layer_id: The ID o...
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def lambda_(xTk): # pragma: no cover """ latent heat of vaporization: J / g :param xTk - temperature (K): :return: """ return 3149 - 2.370 * xTk
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def get_slurm_header(slurm_dict, walltime_hrs, num_nodes=None): """ Write a SLURM script header from a set of slurm parameters. Parameters: slurm_dict (dict): dictionary of SLURM environment variables. walltime_hrs (int): allowed walltime in hours Keyword arguments: num_nodes (int)...
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import functools def empty_energy_result(energy_result): """ Return False if the energy_result list contains only negative numbers, True otherwise """ return functools.reduce(lambda acc, x: acc or (x >= 0), energy_result, False)
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def normalized_to_microseconds(normalized_setpoint: float, low: int, center: int, high: int) -> int: """ Converts a normalized setpoint (between -1.0 and 1.0) to a pulse width (in microseconds). Positive and negative values are computed separately, as they can span different intervals in terms of pulse wid...
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import requests def post_request(url, body, headers): """ Method which makes a POST request to specified url :param url: url :param body: data in json format :param headers: headers :return: post response """ return requests.post(url, data=body, headers=headers)
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def combine_dicts(name_to_dict): """Given a dictionary of (name, child_dict), return the combined version of each item in the child dictionary.""" combined = {} for dict_name, current_dict in name_to_dict.iteritems(): for name, val in current_dict.iteritems(): combined[dict_name + '_' + name] = val re...
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def get_score(scores, args): """ Gets the alignment scores from the aligner and calculates the maximum alignment score between the two exon ends that could have lead to template switching. """ pos = args.shs_for_ts + 1 rscores = [] score = 0 while pos <= 2 * args.shs_for_ts: ...
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def getsystinfo(): """Help function to create description of systematic inputs.""" return "Systematic variation: 'nom', 'up', 'down'"
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def main_path(): """ Śceżka do folderu z plikami Path to folder with files """ return "python_crash_course/files/"
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from typing import Optional from typing import Union from typing import Iterable from typing import List def listify_decorator_args( argument: Optional[Union[str, Iterable[str]]], ) -> List[str]: """Converts a user-supplied "list" to an actual Python list. This helper supports a "string" list as follows: ...
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def precision(confusion, classes, classifiers): """ Compute the precision from a confusion matrix. Parameters ---------- confusion : array, shape = [n_classes, n_classes] Where entry c_{ij} is the number of observations in class i but are classified as class j. ...
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import numpy def symbolise_mfcc(mfcc): """Symbolise speech according to mfcc. Args: mfcc (2D numpy.array (float)): A list of mfcc, axis 1 is time and axis 0 is mfcc Returns: symbols (numpy.array (float)): A list of symbols. """ symbols = numpy.zeros(mfcc.shape[1]) mu = numpy....
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def insert_file_paths(command, file_paths, start_delim='<FILE:', end_delim='>'): """ Insert file paths into the command line at locations indicated by the starting and ending delimiters. """ tokens = command.split() final_tokens = [] for token in tokens: if token.startswith(start_del...
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def getParameterFromCall(call, index=0): """ Returns a parameter node by index on the call node """ try: return call[1][index] except: return None
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import math def triangle_geometry(triangle): """ Compute the area and circumradius of a triangle. Parameters ---------- triangle : (3x3) array-like The coordinates of the points which form the triangle. Returns ------- area : float The area of the triangle circum_...
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def aread8(np, input, output): """ command: aread8 -p demp.tif -ad8 demad8.tif [-o outletfile.shp] [-wg demwg.tif] [-nc], pfile: input flow directions grid, ad8file: output contributing area grid, Outletfile: input outlets shapefile, wgfile: input weight grid file """ aread8 = "mpirun -np {} aread8 -p {} -ad8 ...
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import torch import random def gen_input_mask( shape, hole_size, hole_area=None, max_holes=1): """ * inputs: - shape (sequence, required): Shape of a mask tensor to be generated. A sequence of length 4 (N, C, H, W) is assumed. - hole_size (sequence or in...
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def pack_2byte_to_hn(low_byte, high_byte): """ Pack 2 bytes to network order unsigned short """ return ((low_byte << 8) | high_byte) & 0xffff
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from typing import Callable import sys def before_open(function: 'Callable') -> 'Callable': """ Decorator that allows for a given downlink method to be executed only before the downlink has been opened. The downlink should have an `is_open` flag set to False. :param function: - Decorated downl...
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def loader_encode_pcr8(cmdline): """ Encode kernel command line the same way systemd-stub does it before measuring. """ return (cmdline + "\0").encode("utf-16le")
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import uuid import random def generate_single_header(): """Generate a single header""" return { "executionId": str(uuid.uuid1()), "executionDate": "", "executionSucceeded": random.choice([True, False]), "executorName": "", "executionType": "DECISION", }
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def close_enough(vector_one, vector_two): """Check that the values for vectors are close enough (< 0.1)""" for i in range(len(vector_one)): for j in range(len(vector_one[i])): if vector_one[i][j] - vector_two[i][j] > 0.1: return(False) return(True)
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def duration(duration, compact=False, unit=False): """Returns a time duration string representing the input value :param duration: value to format, must be convertible into an into :param compact: whether to show also seconds, defaults to False :param unit: whether to display he unit, defaults to False...
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def getDBReleaseVersion(dbh, jobPars): # extra-wrapper function, to be deprecated? """ Get the DBRelease version from the job parameters """ return dbh.getDBReleaseVersion(jobPars=jobPars)
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def read_bdseq(message): """Read the bdSeq number from a TAHU message.""" for metric in message.metrics: if metric.HasField('name') and metric.name == 'bdSeq': return metric.long_value return None
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def _guessFileFormat(file, filename): """ Guess whether a file is PDB or PDBx/mmCIF based on its filename and contents. authored by pandegroup """ filename = filename.lower() if '.pdbx' in filename or '.cif' in filename: return 'pdbx' if '.pdb' in filename: return 'pdb' f...
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def e_d(val): """energy divisor""" if val == 0: return 10000 elif val == 1: return 1000 elif val == 2: return 100 elif val == 3: return 10 else: return None
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def getPhoneNumbers(accountName): """Returns a list of outgoing phone numbers for a Twilio account. Note that these numbers are supplied by Twilio, and are not defined on a user in Ignition. Args: accountName (str): The Twilio account to retrieve phone numbers for. Returns: ...
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import os def get_dict_names(dict1_path, dict2_path): """ Get the name of the dictionaries for the end user. Use the base name of the files. If the two base names are identical, returns "dict1" and "dict2." @param dict1_path: The path to the first dictionary. @param dict2_path: The path to the sec...
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def env_config() -> dict: """ Configures a database connection using an environment variable (Oracle and PostgreSQL only). :return: A dictionary containing information about the newly-created database connection. """ env_var = input( "\nIdentify the name of the environment variable the conn...
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def find_sub_list(sub_list, main_list): """Find starting and ending position of a sublist in a longer list. Args: sub_list (list): sublist main_list (list): main longer list Returns: (int, int): start and end index in the list l. Returns None if sublist is not found in the main lis...
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def some_function(foo: int, bar: str = "optional") -> str: """ This is some function. :param foo: The first parameter. :param bar: The second parameter. :returns: The result of the function. """ return f"some_value {foo} {bar}"
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import logging def set_user_info(ctx, gnupghome): """Set user information and return gnupghome and email.""" config = "gnupghome=" + gnupghome + "\n" # Store config file and other information. ctx.config.touch(exist_ok=False) with ctx.config.open("w") as f: f.write(config) logging.in...
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def roman_event(date): """Return the event of Roman date 'date'.""" return date[2]
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def get_ip_v4_class_mask(ip_int): """Return a mask indicating bits preserved when preserving class.""" if (ip_int & 0xE0000000) == 0xE0000000: return 0xF0000000 elif (ip_int & 0xC0000000) == 0xC0000000: return 0xE0000000 elif (ip_int & 0x80000000) == 0x80000000: return 0xC0000000...
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