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def decomp(n): """ Retorna a decomposição em fatores primos de um inteiro em forma de dicionário onde as chaves são as bases e o valores os expoentes. Ex: >>> decomp(12) {2: 2, 3: 1} >>> decomp(72) {2: 3, 3: 2} :param n: number :return: dictionary """ expoente = 0 base...
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def sanitize_type_instance(index_name): """ collectd limit the character set in type_instance to ascii and forbids the '/' character. This method does a lossy conversion to ascii and replaces the reserved character with '_' """ ascii_index_name = index_name.encode('ascii', 'ignore') # '/' is...
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def validWorkspace(uri): """Function to check whether workspace is a geodatbase""" if ".gdb" in str(uri) or ".sde" in str(uri): return True else: return False
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def get_run_zip_file_slug_sets(new_run, old_run_zip_files): """ :param old_run_zip_files: A list of run zip files. :return: A set of provider slugs for each zip file. """ data_provider_task_records = new_run.data_provider_task_records.exclude(provider__isnull=True) all_run_zip_file_slugs = [ ...
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import requests def sendRequest(url, type="POST", params=None, headers=None): """ Send a request to a URL ### Input: - `url` (str) | the url to send the request to - `type` (str) | the type of request (GET or POST) - `params` ...
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def extract_milestones(github_issues: list) -> list: """Extracts milestone information from parsed issues.""" # Extract individual milestone fields, dedupe deduped_milestone_names = { x.get('milestone').get('name') for x in github_issues} deduped_milestone_descriptions = { x.get('milestone').get('d...
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def format_number(value: float) -> str: """ Format a number into a string, where “.0” is removed if number does not have a decimal part. :param value: The number to format. """ return str(int(value) if value % 1 == 0 else value)
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def get_span_row_count(span): """ Gets the number of rows included in a span Parameters ---------- span : list of lists of int The [row, column] pairs that make up the span Returns ------- rows : int The number of rows included in the span Example ------- C...
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def parse_score_qa(output, metric, digits=4): """Function for parsing the output from `pyserini.eval.evaluate_dpr_retrieval`. Currently, the implementation is the same as `parse_score_msmacro`, but we're keeping separate in case they diverge in the future.""" for line in output.split('\n'): if me...
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def get_logbook_by_name(logbook_name, conn): """ Get a logbook by name from a persistence backend connection :param str logbook_name: The name of the logbook to get :param obj conn: A persistence backend connection :return obj logbook: The logbook with the specified name """ return next( ...
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def is_inside_relative_range(value, ref_value, pct): """ Parameters ---------- value : numeric ref_value : numeric pct : numeric pct should be smaller than 1. Returns ------- boolean """ if ref_value * (1 - pct) <= value <= ref_value * (1 + pct): return True...
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from typing import List def get_label_list(labels: List[List[int]]) -> List[int]: """Gets a sorted list of all the unique labels from `labels`. Args: labels: A list of lists, each corresponding to the label-sequence of a text. Returns: All the unique labels the ever appear in `labels`, g...
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def format_message(date_str, node, msg): """Format log message""" message = f"{date_str}: {node.site_name}: {node.location or node.model} ({node.serial}) {msg}" return message
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def _deep_value(*args, **kwargs): """ Drills down into tree using the keys """ node, keys = args[0], args[1:] for key in keys: node = node.get(key, {}) default = kwargs.get('default', {}) if node in ({}, [], None): node = default return node
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import os def abspath(current_path, relative_path): """Build an absolute path from relative path""" parent = os.path.abspath(os.path.dirname(current_path)) return os.path.join(parent, relative_path)
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import tempfile def create_tmpdir(): """Create temporary directory where all intermediate files will be placed.""" return tempfile.mkdtemp(prefix='xl-')
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import re def get_aws_local_file(aws_creds_file): """ Converting aws config and credentials files into dictionaries :param aws_creds_file: string :return: dictionary """ aws_config = {} current_profile = '' input_file = open(aws_creds_file, 'r') for line in input_file.readlines(): ...
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def _bowtie_args_from_config(data): """Configurable high level options for bowtie. """ config = data['config'] qual_format = config["algorithm"].get("quality_format", "") if qual_format.lower() == "illumina": qual_flags = ["--phred64-quals"] else: qual_flags = [] multi_mapper...
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def split_unk(str_, vocab): """ 将所有不在词表中的符号切分开,尽量保留在词表中的符号 """ rstring = "" for c in str_: if c in vocab.keys(): rstring += c else: rstring += " " + c + " " str_ = rstring return str_
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def _world2fig(ff, x, y): """ Helper function to convert world to figure coordinates. Parameters ---------- ff : `~aplpy.FITSFigure` `~aplpy.FITSFigure` instance. x : ndarray Array of x coordinates. y : ndarray Array of y coordinates. Returns ------- coo...
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def is_palindrome(number): """ Returns True if `number` is a palindrome, False otherwise. """ num_str = str(number) num_comparisons = len(num_str) // 2 for idx in range(num_comparisons): if num_str[idx] != num_str[-1-idx]: return False return True
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from typing import Iterable def flatten_list(li: Iterable): """Flattens a list of lists.""" if isinstance(li, Iterable): return [a for i in li for a in flatten_list(i)] else: return [li]
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def improve_ensemble(energy, positions, ensemble, ensemble_energies, unchanged_iterations): """ Given an energy and positions for a single pose, as well as the same data for a reference ensemble, this function "improves" the quality of the ensemble by identifying poses with the lowest potential energy. ...
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def get_static_welcome_message(): """ Get the static welcome page. """ return \ """ <h3>Search Help</h3> <ul><li>The display below the line is an example of the output the browser shows you when you enter a search word. The search word was <b>green</b>.</li> <li>The search result shows for different par...
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def platform_name(project, platform): """"Get the untrusted platform name.""" return project.upper() + '_' + platform.upper()
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import numpy def lat2g0(lat): """Calculate surface gravitational acceleration for latitude This function is stolen from atmlab: https://www.sat.ltu.se/trac/rt/browser/atmlab/trunk/geophysics/pt2z.m From the original description: Expression below taken from Wikipedia page "Gravity of Earth", tha...
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def tpearson(x, y, axis=0): """Tensor-based pearson correlation.""" n = x.shape[axis] xc = x - x.mean(axis=axis, keepdims=True) yc = y - y.mean(axis=axis, keepdims=True) xystd = x.std(axis=axis) * y.std(axis=axis) cov = (xc * yc).sum(axis=axis) / n corr = cov / xystd return corr
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import re def remove_unwanted_chars(x: str, *chars: str, to_replace: str = "") -> str: """Remove unwanted characters from a string.""" return re.sub(f"[{''.join(chars)}]", to_replace, x)
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def write_the_species_tree(annotated_species_tree, output_file): """ this function writes the species tree to file args: annotated_species_tree : a string of annotated species tree in .newick format output_file : a file name to write to output: a file containing the annotated sp...
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import functools def compose(*functions): """ A functional helper for dealing with function compositions. It ignores any None functions, and if all are None, it returns None. Parameters ---------- *functions function arguments to compose Returns ------- function or None ...
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def pretty_print_list(lst, name = 'features', repr_format=True): """ Pretty print a list to be readable. """ if not lst or len(lst) < 8: if repr_format: return lst.__repr__() else: return ', '.join(map(str, lst)) else: topk = ', '.join(map(str, lst[:3])) ...
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def factorial(n): """ :type n: int :rtype: int """ f = n for i in range(n - 1, 0, -1): f = f * i return f
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def _generate_fake_input_arg_componentsdk(arg_spec): """Generate a fake argument value for inputs of module spec Args: arg_spec (dict) : argument specification from yaml module spec Returns: object: sample fake value Raises: NotImplementedError: if arg type is not implemented ...
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def docker_compose_project_name(): """Set a consistent project name to enable optional reuse of containers.""" return "pytest-python-gitlab"
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def _partition(entity, sep): """Python2.4 doesn't have a partition method so we provide our own that mimics str.partition from later releases. Split the string at the first occurrence of sep, and return a 3-tuple containing the part before the separator, the separator itself, and the part after the...
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def get_phe_title(db, phename): """ Search bar SciDBnew: res = str(list(phef[phef['description'] == "asthma_diagnosed_by_doctor"]['title'])[0]) """ phef = db.get_phenotype_fields(association_set=str(db.list_association_sets()['name'][0])) if phef.empty: return None else: ...
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def compatibility_g_m(gen_1, gen_2, name_1, name_2): """Check compatibility.""" print("Checking compatibility of {} with {}.".format(name_1, name_2)) r_code = 0 for seq in gen_1: if seq not in gen_2: print("FAIL\t{} sequence not found in {}.".format(seq, name_2)) r_code =...
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import sys import subprocess def _GetGitRevision(in_directory): """Returns the git hash tag for the given directory. Args: in_directory: The directory where git is to be run. Returns: The git SHA1 hash string. """ git_exe = 'git.bat' if sys.platform.startswith('win') else 'git' p = subprocess.Po...
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import socket def getaddrinfo(host, port=None, family=0, socktype=0, proto=0, flags=0): """return (family, socktype, proto, canonname, sockaddr) >>> socket.getaddrinfo("www.python.org", 80, 0, 0, socket.SOL_TCP) [(2, 1, 6, '', ('82.94.164.162', 80)), (10, 1, 6, '', ('2001:888:2000:d::a2', 80...
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def coref_cleaning(t, new_coref_np, current_coref): """Assign the correct coreference tag according to Args: t (token), new_coref_np (Boolean), current_coref (int) Return: new_coref_np (Boolean), current_coref (int) """ if t.coref.startswith('(') and t.coref.endswith(')')...
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def get_default_tokenizer(): """Only support split tokenizer """ def _split_tokenizer(x, delimiter=None): if delimiter == "": return list(x) return x.split(delimiter) return _split_tokenizer
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import json def load_dict_from_json(filename: str) -> dict: """ Load the given file as a python `dict` Parameters ---------- filename: `str` an absolute path to the json file to be loaded. Returns ------- `dict` The loaded json file as a python dictionary. """ with open(filen...
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def collect_not_null_kwargs(**kwargs) -> dict: """ Collect not null key value pair from keyword arguments. .. versionadded:: 1.0.1 """ return { k: v for k, v in kwargs.items() if v is not None }
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def get_n_neighborhood_start_stop_indices_3D(volume_shape, point, n): """ Compute the start and stop indices along the 3 dimensions for the n-neighborhood of the point within the 3D volume. Note that this returns an index range where the end is *non-inclusive*! So for a point at x,y,z with 0-neighborhood (...
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from typing import Dict from typing import Any def add_to_dict_with_swapped_keys(old_dict: Dict[Any, Dict], new_dict: Dict[Any, Dict]) -> Dict[Any, Dict]: """ Swap the keys of two nested dictionaries in a new dictionary. {'Key1': {'Key2': 42}} -> {'Key2': {'Key1': 42}} ...
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import os def splitpath(full_path): """ Splits a path into all possible pieces (vs. just head/tail). """ head, tail = os.path.split(full_path) result = [tail] while len(head) > 0: [head, tail] = os.path.split(head) result.append(tail) result = [x for x in result if len(x)] return result[::-...
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import typing import functools def build_simple_validator(func: typing.Callable, *args, **kwargs) -> typing.Callable[[typing.Any], typing.Any]: """Build a ready-to-use simple validator out of a function. Args: - func: callable, the function to be called to validate an input - args: list, args...
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import torch def quat_conjugate(a: torch.Tensor) -> torch.Tensor: """Computes the conjugate of a quaternion. Args: a: quaternion to compute conjugate of, shape (N, 4) Returns: Conjugated `a`, shape (N, 4) """ shape = a.shape a = a.reshape(-1, 4) return torch.cat((-a[:, :3...
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import struct def discard_blanks(data): """Remove blank spaces from the data file""" pos = 0 for i_char in data: char = struct.unpack('s', data[pos:pos + 1])[0].decode() if char not in ["*", " "]: break else: pos += 1 return data[pos:]
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def blank_lines(logical_line, blank_lines, indent_level, line_number, previous_logical): """ Separate top-level function and class definitions with two blank lines. Method definitions inside a class are separated by a single blank line. Extra blank lines may be used (sparingly) to sepa...
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def gem_cov(frags, weight_flag): """ GEM coverage. Args: frags (list of list): [chrom,start,end] for each fragment in a GEM weight_flag (binary): True if weighted by fragment number; False otherwise Returns: gem_all (list of bed entries): bed entries in format [chrom,start,end] ...
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def unnormalise_density(c, rho): """Reverses any desnity normalisation As a general rule this should be done using the units read in from the file, with unit conversion done afterwards""" return c * rho
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import random def mutate_color(color): """ Mutates one coordinate of a color in a HSV cube. """ color[random.randrange(0, 3)] = random.random() % 1 return color
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def container_with_most_water(heights): """ Parameters ---------- heights : list A list of integers representing heights of containers Returns ------- int area of container with most water >>> container_with_most_water([1, 8, 6, 2, 5, 4, 8, 3, 7]) 49 >>> conta...
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import datetime as dt import calendar def _parse_date(row): """parse the date of a single row into datetime object.""" day_ix = 4; mon_ix = 5; year_ix = 6; date = dt.date(int(row[year_ix]), list(calendar.month_abbr).index(row[mon_ix]), int(row[day_ix])) del row[...
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def shiny_gold_in(bag: str, rules: dict) -> bool: """Recursively check for shiny gold bags.""" if "shiny gold" in rules[bag].keys(): return True elif not rules[bag]: # bag holds no others return False else: for inner in rules[bag]: if shiny_gold_in(inner, rules): ...
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def get_position_type(salary_plan): """ Given a salary plan code, map to one of the VIVO position types """ position_dict = { 'CPFI': 'postdoc', 'CTSY': 'courtesy-faculty', 'FA09': 'faculty', 'FA9M': 'clinical-faculty', 'FA10': 'faculty', 'FA12': 'faculty'...
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import ast import logging def _generate_trees(filename, with_filenames=False, with_file_content=False): """ Generated trees. :param filename: filename :param with_filenames: boolean :param with_file_content: boolean :return: list of ast object """ trees = [] with open(filename, 'r...
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def str2ms(s): """ Convert the time strings from an SRT file to milliseconds. Arguments: s: A time value in the format HH:MM:SS,mmm where H, M, S and m are digits. Returns: The time string converted to an integer value in milliseconds. """ s = s.strip() time, ms ...
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def parse(file): """parse out information from data_text and get information about image size, and class names""" (str_height, str_width, str_names) = file.readlines()[0].split("*") (height, width) = (int(str_height), int(str_width)) names = str_names.strip("][").replace("'", "").split(", ") return...
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import torch def get_device(inputs): """ Get used device of a tensor or list of tensors. """ if isinstance(inputs, torch.Tensor): device = inputs.device elif isinstance(inputs, (tuple, list)): device = inputs[0].device else: raise TypeError(f'Inputs can be a tensor or list of t...
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def pythagorean_distance_equation(path1, path2): """Pythagorean Distance Equation. Function for counting distance, derived from the Pythagorean theorem. """ # point path dot X1 dotX1 = path1[0] # point path dot X2 dotX2 = path2[0] # point path dot Y1 dotY1 = path1[1] # p...
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def quick_sort(sequence: list) -> list: """Simple implementation of the quick sort algorithm in Python :param sequence: some mutable ordered collection with heterogeneous comparable items inside :return: the same collection ordered by ascending """ if len(sequence) < 2: return sequence ...
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def _is_gradient_task(task_id, num_tasks): """Returns True if this task should update the weights.""" if num_tasks < 3: return True return 0 <= task_id < 0.6 * num_tasks
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def score_tup(t): """ Score an ngram tuple returned from a database ngram table. A higher scoring term is more deserving of inclusion in the resulting acrostic :param t: (Term string, initials string, Corpus count, Used count) :return: Fitness score for this term """ term = t[0] inits = ...
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import torch def get_optimizer(parameters, lr, weight_decay): """ Initiate Adam optimizer with fixed parameters Args: parameters: filter, parameters to optimize lr: float, initial learning rate weight_decay: float, between 0.0 and 1.0 Return: a torch.optim.Adam optimizer """ return torch.optim.Adam(p...
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def DoesMoleculeContainsPAINSPattern(Mol, PAINSPatternMols): """Check presence of PAINS pattern in the molecule""" MolMatched = False for PatternMol in PAINSPatternMols: if Mol.HasSubstructMatch(PatternMol, useChirality = True): MolMatched = True break retu...
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def encrypt_decrypt(): """Decide whether to encrypt or decrypt.""" while True: choice = input("Enter E for encryption or D for decryption:") if choice == "E": return "E" elif choice == "D": return "D" else: print("Wrong input! Please try again....
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def get_P_Elc_toilet_seat_heater(theta_ave_d, P_Elc_toilet_seat_heater_rtd): """暖房時の消費電力を計算する Parameters ---------- theta_ave_d : float 日付dにおける平均外気温度(地域、季節によらず 11.23), ℃ P_Elc_toilet_seat_heater_rtd : float 便座暖房時の定格消費電力, W Returns ---------- P_Elc_toilet_se...
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def splunk_setup(splunk): """ Override this fixture in conftest.py, if any setup is required before the test session. splunk fixture can provide the details of the splunk instance in dict format. **Possible setups required**: 1. Enable Saved-searches before running the tests 2. Restart...
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import requests def get_gist(url): """ Get gist contents from gist url. Note the gist url display the raw gist instead of usual gist page. Args: url (str) : url containing the raw gist instead of usual gist page. Returns: (str): output gist str. ""...
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import struct def encode_struct(fmt, value): """Generic method for encoding arbitrary python "struct" values""" return struct.pack(fmt, value)
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import re def is_email(addr): """ 判断是否是合法邮箱 :param addr: 邮箱地址 :return: True or False """ re_is_email = re.compile("^[a-z0-9]+([._-]*[a-z0-9])*@([a-z0-9]+[-a-z0-9]*[a-z0-9]+.){1,63}[a-z]+$") if re_is_email.search(addr): return True else: return False
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def merge_unique(a: list, b: list) -> set: """ merges all of the unique values of each list into a new set >>> merge_unique([1, 2, 3], [3, 4, 5]) {1, 2, 3, 4, 5} """ ret = set() a.extend(b) for element in a: ret.add(element) return ret
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def get_wanted_parameter(season_data, names, index_para): """ Take in a list of players' names, a wanted parameter and return :param season_data: a dictionary of players' statistics :param names: a list of players' names :param index_para: index of the wanted parameter depending on the file :return:...
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import argparse def parse_args(): """Parse args :return: args """ parser = argparse.ArgumentParser( description='Params for pulling aws instances for appetite') parser.add_argument("-n", "--name-query", help="filter on name based on aws tag", dest="name_query") ...
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import requests def get_FREQ( APIKey='AP8DA23', FromDateTime='2021-01-01 00:01:00', ToDateTime='2021-02-01 23:59:00', ServiceType='csv', endpoint='https://api.bmreports.com/BMRS/FREQ/v1' ): """Rolling System Frequency """ params = { 'APIKey': APIKey, 'FromDateTime...
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def cxDummy(ind1, ind2): """Dummy crossover that does nothing. This is used when we have a single gene in the chromosomes, such that crossover would not change the population. """ return ind1, ind2
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def comtypes_get_refcount(ptr): """Helper function for testing: return the COM reference count of a comtypes COM object""" ptr.AddRef() return ptr.Release()
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def convert_cookie_str(_str): """ convert cookie str to dict """ _list = [i.strip() for i in _str.split(';')] cookie_dict = dict() for i in _list: k, v = i.split('=', 1) cookie_dict[k] = v return cookie_dict
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def DL_ignore(answers): """Return False if any dictionary-learning method was selected. Arguments --------- answers: dict Previous questions answers. Returns ------- bool True if DL verbosity question should be ignored. """ expected = ['ITKrMM', 'wKSVD', 'BPFA'] ...
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def wait(status, timeout=None, *, poll_rate="DEPRECATED"): """(Blocking) wait for the status object to complete Parameters ---------- status: StatusBase A Status object timeout: Union[Number, None], optional Amount of time in seconds to wait. None disables, such that wait() will ...
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import re def find_md_links(md): """Returns dict of links in markdown: 'regular': [foo](some.url) 'footnotes': [foo][3] [3]: some.url """ # https://stackoverflow.com/a/30738268/2755116 INLINE_LINK_RE = re.compile(r'\[([^\]]+)\]\(([^)]+)\)') FOOTNOTE_LINK_TEXT_RE = re.compile(r'\[...
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def sex(return_expectations=None): """ Returns M, F or empty string if unknown or other """ return "sex", locals()
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def epoch_time(start_time, end_time): """ Computes the time for each epoch in minutes and seconds. :param start_time: start of the epoch :param end_time: end of the epoch :return: time in minutes and seconds """ elapsed_time = end_time - start_time elapsed_mins = int(elapsed_time / 60) ...
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def fibonaccinumber(n): """ >>fibonaccinumber(6) 1 1 2 3 5 8 >>fibonaccinumber(10) 1 1 2 3 5 8 13 21 34 55 """ if n<0: print("Incorrect input") elif n==0: return 0 elif n==1: return 1 else: n1 , n2 =1,1 count = 1 w...
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def play(pet) -> bool: """Return False if any of the stats is 0.""" if (not pet.hunger) or (not pet.thirst) or (not pet.energy) or (not pet.fitness) or (not pet.mental_health): print("Oh no! Take better care of", pet.name, "next time!") print("Thank you for playing!") print(" - - - ") ...
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def base_prob(phred_score): """ Returns the probabilty that a base is incorrect, given its Phred score. """ prob = 10.0**(-float(phred_score)/10) return prob
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import re def need_format(line: str) -> bool: """ Return true if line as a title declaration followed by content """ return ( ( re.search("\t+e_\w*[-'\w]*\W*=", line) is not None and re.search("\t+e_\w*[-'\w]*\W*=\W*{[\w\t]*\n", line) is None and re.search("...
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import argparse def parse(): """ Handles the arguments and options. """ parser = argparse.ArgumentParser( formatter_class=argparse.RawTextHelpFormatter) parser.add_argument( "-w", "--what", dest="what", help="REQUIRED - The absolute path to the folder containing the tests"...
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def builderFor(action, hypervisor=None, template=None, service=None): """ This decorator is used to supply metadata for functions which is then used to find suitable methods during building just by these properties. :param action: Name of the generic step/action (see planner) that this function impleme...
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def undeployed_value_only_calculator(repository, undeployed_value_tuple, deployed_value_tuple): """ Just return the undeployed value as the value. This calculator can be used when there will be no deployed value. """ return undeployed_value_tuple[2]
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import re def _remove_inner_punctuation(string): """ If two strings are separated by & or -, remove the symbol and join the strings. Example ------- >>> _remove_inner_punctuation("This is AT&T here") 'This is ATT here' >>> _remove_inner_punctuation("A T & T") 'A T T' """ ...
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def _scrape_main_synonym_section(left_content): """Scrapes the main/default synonym section for a word. If there is no pos listed, use the one listed for the word """ synonym_header = left_content.find('div', {'class' : 'synonyms_list'}) synonym_labels = synony...
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import re def generateHashtags(randomTests): """Generates a hashtag from a level 1+ category name using Regular Expressions and other rules. Arguments: randomTests {Dictionary} -- A test category and hashtag (level 1+) categories Returns: Dictionary -- The input dictionary with added has...
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def get_longest_element(focus): """ cycles thru the status_results dictionary in the indicated key or field list and finds the longest piece of text in it :param focus: the key or field in value list that is being searched for longest value :return: the longest value """ return (len(max(focu...
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def get_num_classes(labels): """Get total number of classes. Arguments: labels {list} -- label values. """ num_classes = max(labels) + 1 missing_classes = [] for l in range(num_classes): if l not in labels: missing_classes.append(l) if len(missing_classes): ...
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def store_edges(edge_data): """Store edges in a dict where the keys are the edge times""" time_edge_map = {} for i in range(len(edge_data)): current_time = edge_data[i,0] if not current_time in time_edge_map: time_edge_map[current_time] = [] time_edge_map[current_time].ap...
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def filter_linker_flavour(args): """Remove `-flavor gnu`.""" new_args = [] ignore = False for arg in args: if ignore: ignore = False # ignore this argument else: if arg == '-flavor': ignore = True else: new_args.append(a...
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import random def random_string(length, charset): """ Return a random string of the given length from the given character set. :param int length: The length of string to return :param str charset: A string of characters to choose from :returns: A random string :rtype: str """ n = ...
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