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from typing import List def split_chinese_sentence(text: str) -> List[str]: """Performs sentence tokenization for Chinese. Args: text (str): text to split into sentences. Returns: List[str]: a list of sentences. """ sentences = [] quote_mark_count = 0 sentence = "" fo...
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def discovery_filter(func): """Bypass discovery if not configured to do so, or if unlikely to get an RP.""" def wrapper(self, *args, **kwargs) -> None: if any( ( self._gwy.config.disable_sending, self._gwy.config.disable_discovery, getattr(sel...
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def notebook(): """Return a content of Jupyter notebook.""" return { u'cells': [{ u'metadata': { u'trusted': True, }, u'cell_type': u'code', u'source': u'█', u'execution_count': None, u'outputs': [] }], ...
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def intersect(a, b): """ Identifies the elements in A that are in B. """ return list(set(a) & set(b))
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import json def dump_objs(objs_iter, dump_fn=json.dumps): """ 'Dumpa' um iterável de objectos do mesmo tipo para um array de objectos de JSON. Recebe uma função para 'dumpar' os objectos individuais. Atenção que em JSON só existe uma forma de representar conjuntos de elementos: o array, que equ...
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import os def get_subdir(filepath): """ :param filepath: Path to the input file >>> get_subdir("/tmp/a/b/c/d.yml") 'c' >>> get_subdir("/tmp/x.json") 'tmp' >>> get_subdir("/") '' >>> get_subdir("a.yml") '' """ return os.path.split(os.path.dirname(filepath))[-1]
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import os def _prefix_path(prefix, path): """Prefix path(s). Args: prefix: The prefix to apply. data: A path or a dict of paths. Returns: The updated path or dict of paths. """ if isinstance(path, dict): for key, value in path.items(): path[key] = os.path.join(prefix, value) else: ...
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def getText(targetFile): """Return a string containing the contents of the target file""" with open(targetFile, "rt", encoding="utf-8") as f: return f.read()
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def get_centre(bounds): """ Get the centre of the object from the bounding box. """ if len(bounds) != 6: return [None] * 6 return [bounds[i] - (bounds[i] - bounds[i - 1]) / 2.0 for i in range(1, len(bounds), 2)]
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def delay_from_foffsets(df, dfd, dfdd, times): """ Return the delays in phase caused by offsets in frequency (df), and two frequency derivatives (dfd, dfdd) at the given times in seconds. """ f_delays = df * times fd_delays = dfd * times**2 / 2.0 fdd_delays = dfdd * times**3 / 6.0 re...
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def get_pulsar_producer_stage(pipeline_builder, topic): """Create and return a Pulsar Producer origin stage depending on execution mode for the pipeline.""" pulsar_producer = pipeline_builder.add_stage('Pulsar Producer', type='destination') pulsar_producer.s...
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def cli(ctx, gff, analysis_id, organism_id, landmark_type="", re_protein="", re_protein_capture="^(.*?)$", fasta="", no_seq_compute=False, quiet=False, add_only=False, protein_id_attr=""): """Load features from a gff file Output: None """ return ctx.gi.feature.load_gff(gff, analysis_id, organism_id, l...
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import os def get_dir_size(start_path='.'): """Calculaet size of given directory. :param start_path: Directory path, defaults to '.' :type start_path: str, optional :return: Size in bytes of given directory, including all subdirectories. :rtype: int """ total_size = 0 for dirpath, dir...
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def all_preds(connection, table, dim_cols, cmp_pred): """ Extracts all possible predicates from database. Args: connection: connection to database table: extract predicates for this table dim_cols: list of dimension columns cmp_pred: filter rows by this predicate R...
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def incrementAtIndex(valueList, index, max): """Returns True if the value incremented.""" originalValue = valueList[index] valueList[index] += 1 if valueList[index] < max else 0 return valueList[index] != originalValue
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def hack_ncbi_fasta_name(pipe_name): """Turn 'gi|445210138|gb|CP003959.1|' into 'CP003959.1' etc. For use with NCBI provided FASTA and GenBank files to ensure contig names match up. Or Prokka's *.fna and *.gbk files, turning 'gnl|Prokka|contig000001' into 'contig000001' """ if pipe_name.st...
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def train_one_mini_batch( args , model , images # input images , labels # expected label for the input images , cross_error # error function , optimizer # otptimizer ): """...
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def parse_slots(str, dia_act): """ format BIO """ new_str = 'BOS ' + str + ' EOS' new_str = new_str.lower() w_arr = new_str.split(' ') bio_arr = ['O'] * len(w_arr) left_index = 0 for slot in dia_act['slot_vals'].keys(): if len(dia_act['slot_vals'][slot]) == 0: continue ...
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def findTarget(self, root, k): # ! 104ms,利用广度优先搜索 """ :type root: TreeNode :type k: int :rtype: bool """ if not root: return False res = [] bfs = [root] while bfs: node = bfs.pop(0) if k - node.val in res: return True res.append(node.val...
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def photo_pull(req, id_num, img_name): """ Creates path to image based on name and redMapper id number. Args: req: the http request id_num: the redmapperID of the image galaxy img_name: the name of the desired image Returns: Path to desired image """ ...
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def widget_type(field): """ (stolen from django-widget-tweaks) Returns field widget class name (in lower case). """ if hasattr(field, 'field') and hasattr(field.field, 'widget') and field.field.widget: widget_name = field.field.widget.__class__.__name__.lower() if widget_name == "groupe...
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def read_data(fname, ignore_docstart=False): """Read data from any files with fixed format. Each line of file should be a space-separated token information, in which information starts from the token itself. Each sentence is separated by a empty line. e.g. 'Apple NP (NP I-ORG' could be one line Args: ...
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def seqs_dic_count_chars(seqs_dic): """ Given a dictionary with sequences, count how many times each character appears. >>> seqs_dic = {'s1': 'ABCC', 's2': 'ABCD'} >>> seqs_dic_count_chars(seqs_dic) {'A': 2, 'B': 2, 'C': 3, 'D': 1} """ assert seqs_dic, "given seqs_dic empty" cc_dic...
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def resolve_concept_reference(attribute_blocks, concepts): """ This function resolves the relative references that attribute blocks could have. This occur when a concept have two blocks of attributes attacked to it, i.e. one with domain and the other without domain. The last block have as associated con...
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import argparse def parse_args(): """Parse arguments""" parser = argparse.ArgumentParser(prog="diffdirs") parser.add_argument( "original_data_path", metavar="ORIGINAL_DATA_PATH", help="The path to the 'original' data. This will be used to compare against", ) parser.add_arg...
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def default_model(): """default model used whenever a model is needed to run a test. Should work regardless of where the test is run, i.e. both on CI platform and locally. currently ``teenytweetynet`` """ return "teenytweetynet"
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import pathlib def unique_directories(files): """Returns a list of directories (pathlib.Path objects) for the files passed without repetitions.""" return list({pathlib.Path(x).parent for x in files})
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def policy_adapter(policy): """ A policy adapter for deterministic policies. Adapts a deterministic policy given as array or map `policy[state] -> action` for the trajectory-generation functions. Args: policy: The policy as map/array `policy[state: Integer] -> action: Integer` ...
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def _compact4nexus(orig_list): """Transform [1 2 3 5 6 7 8 12 15 18 20] (baseindex 0, used in the Nexus class) into '2-4 6-9 13-19\\3 21' (baseindex 1, used in programs like Paup or MrBayes.). """ if not orig_list: return '' orig_list=list(set(orig_list)) orig_list.sort() shortlist=...
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def get_comp(graph, node): """Returns a set of nodes in this node's component""" unexplored = set(node) explored = set() while unexplored: node = unexplored.pop() explored.add(node) new_nbrs = graph.edges[node] - explored unexplored.update(new_nbrs) return explored
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from typing import Any from typing import Callable def noop_decorator(*args: Any, **kwargs: Any) -> Any: """Return function decorated with no-op; invokable with or without args. >>> @noop_decorator ... def func1(x): return x * 10 >>> @noop_decorator() ... def func2(x): return x * 10 >>> @noop_decorator...
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def toOneOverX(x, y=None): """ """ if x != 0: return 1 / x else: raise ValueError("cannot divide by zero")
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from typing import Mapping from typing import List from typing import Any def transpose_dict_of_lists(dict_of_lists: Mapping[str, list], keys: List[str]) \ -> List[Mapping[str, Any]]: """Takes a dict of lists, and turns it into a list of dicts.""" return [{key: dict_of_lists[key][i] for key in keys} ...
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import math def gauss_legendre_1(max_step): """Float number implementation of the Gauss-Legendre algorithm, for max_step steps.""" a = 1. b = 1./math.sqrt(2) t = 1./4.0 p = 1. for i in range(max_step): at = (a + b) / 2.0 bt = math.sqrt(a*b) tt = t - p*(a-at)**2 ...
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import sys def pathlify(hash_prefix): """Converts a binary object hash prefix into a posix path, one folder per byte. >>> pathlify('\xDE\xAD') 'de/ad' """ if sys.version_info.major == 3: return '/'.join('%02x' % b for b in hash_prefix) else: return '/'.join('%02x' % ord(b) for b in hash_prefix)
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import os import re def convert_source_file_to_arxiv_id(filename): """ Converts a source file name into an ArXiV ID. """ #  Remove folder and extension arxiv_id, _ = os.path.splitext(os.path.basename(filename)) # Add a slash to old arxiv ID format match = re.match(r"([a-z-]+)([0-9]+)", ar...
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def is_6_digits(number: int) -> bool: """It is a six-digit number.""" if len(str(number)) == 6: return True return False
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def GetSumByIteration(array , target): """ THis function uses iterations """ NumSums =[] for i in range(len(array)-2): for j in range(i+1 , len(array)-1): for k in range(j+1 , len(array)): currSum = array[i]+array[j]+array[k] if currSum == target: ...
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def get_most_frequent_color(image_patch): """ Find the most frequent color in image_patch :param image_patch: :return: """ color_dict = dict() for x in range(image_patch.shape[0]): for y in range(image_patch.shape[1]): if str(image_patch[x, y]) in color_dict.keys(): ...
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import sys def min_fill_in_heuristic(graph): """Implements the Minimum Degree heuristic. Returns the node from the graph, where the number of edges added when turning the neighbourhood of the chosen node into clique is as small as possible. This algorithm chooses the nodes using the Minimum Fill-In ...
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def parse_clan_file(clan_list): """ Parses a list of Rfam clan accessions clan_list: A plain .txt file containing a list of Rfam Clan Accessions return: A list of clan accessions """ fp = open(clan_list, 'r') clan_accessions = [x.strip() for x in fp] fp.close() return clan_acce...
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def c2f(celsius): """ Convert Celcius to Farenheit """ return 9.0/5.0 * celsius + 32
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from pathlib import Path def get_plot_folder(folder_path: str): """Creates a folder for plots, creating also parents directories if necessary""" folder = Path(folder_path) if not folder.exists(): folder.mkdir(parents=True) return folder
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def source_location_to_tuple(locpb): """Converts a SourceLocation proto into a tuple of primitive types.""" if locpb is None: return None if not locpb.file() and not locpb.line() and not locpb.function_name(): return None return locpb.file(), locpb.line(), locpb.function_name()
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def remove_by_index(config_pool, index): """ remove the selected configuration """ for config in config_pool: if config.index == index: config_pool.remove(config) break return config_pool
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import os def cpu_threads(): """ Suggest how many CPU threads should be used for multiprocessing. :return: 1, or 1 fewer than the number of threads in the affinity mask of the current process, whichever is greater. """ return max(1, len(os.sched_getaffinity(0)) - 1)
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def _data_types_from_dsp_mask(words): """ Return a list of the data types from the words in the data_type mask. """ data_types = [] for i, word in enumerate(words): data_types += [j + (i * 32) for j in range(32) if word >> j & 1] return data_types
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def get_expected_number_of_faces(off_file): """ Finds the expected number of faces in an OFF file. Used to check this matches the number of items in a pixel mapping list. :param off_file: The OFF file. :return: The number of faces in the OFF file. """ for line in off_file.split("\n")[1:]: ...
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import os def configure(filename=None): """ Creates dictionary to pass to a sqlalchemy.engine_from_config() call """ configuration = {} if filename: # file the configuration dictionary using parameters from file try: with open(filename) as fp: for l...
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import numpy def in_search_space(x, lower, upper, constraints): """Determine feasibility of a sample.""" if constraints == "Reject": numpy.logical_and(numpy.all(x >= lower), numpy.all(x <= upper)) else: return True
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import sys import os def terminal_size(): """ Return the number of terminal columns and rows, defaulting to 80x24 if the standard output is not a TTY. NOTE THAT THIS ONLY WORKS ON UNIX. """ if sys.stdout.isatty(): # PORT: This only works on Unix. rows, columns = [int(x) for x ...
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def cf_ni_ratio(cf_df, financials_df): """Checks if the latest reported Operating CF (Cashflow) is larger than the latest reported NI (Net Income). cf_df = Cashflow Statement of the specified company financials_df = Financial Statement of the specified company """ cf = cf_df.iloc[cf_df.index.ge...
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def floyd(top): """ >>> floyd([1,2,3,4]) False >>> floyd([1,2,1,2,1]) True >>> floyd([1,2,3,1,2,3,1]) True >>> floyd([1,2,3,1,2,3,1,2,3,1]) True >>> floyd(["A","B","A","B","A"]) True """ tortoise = top hare = top while True: # Is Hare at End? i...
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def retrieve_files(s3, short_name, date_str): """Retrieve a list of files from S3 bucket. Parameters ---------- s3: S3FileSystem reference to S3 bucket to retrieve data from short_name: string short name of collection date_str: str string date and time to search for ...
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import numpy def my_coefficient_of_correlation(y_true: numpy.ndarray, y_pred: numpy.ndarray): """ 相关系数 https://baike.baidu.com/item/%E7%9B%B8%E5%85%B3%E7%B3%BB%E6%95%B0/3109424?fr=aladdin https://numpy.org/doc/stable/reference/generated/numpy.nanvar.html https://zhuanlan.zhihu.com/p/37609917 h...
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def mismos_digitos(a: int, b: int) -> bool: """ Mismos Dígitos Parámetros: a (int): El primer número. Es un entero positivo. b (int): El segundo número. Es un entero positivo. Retorno: bool: True si los digitos que aparecen en ambos números son los mismos. False de lo contrario. """ ...
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from typing import List from typing import Dict def get_readme_download_url(files: List[Dict[str, str]]) -> str: """ Takes in a response from the github api that lists the files in a repo and returns the url that can be used to download the repo's README file. """ for file in files: if fil...
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import os def get_unidist_root(): """ Get the project root directory. Returns ------- str Absolute path to the project root directory. """ unidist_root = os.path.abspath(os.path.join(os.path.dirname(__file__), "../../../")) os.environ["PYTHONPATH"] = ( unidist_root + o...
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import threading def _start_thread(target, *args, **kwargs) -> threading.Thread: """Helper to simplify starting a thread.""" thread = threading.Thread(target=target, args=args, kwargs=kwargs) thread.start() return thread
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def reassemble(tripleList): """ Reassembles the triples that were found to be in the right order. """ subj = "" subjL = {} pred = "" predL = {} obj = "" objL = {} for token in tripleList: if token._.part == "subj": subjL.update({token._.posi: token.text}) elif...
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def count_trees(data, route): """ >>> count_trees([ ... [False, False, True, True, False, False, False, False, False, False, False], ... [True, False, False, False, True, False, False, False, True, False, False], ... [False, True, False, False, False, False, True, False, False, True, Fal...
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def combination_of_two_lists(lst1, lst2): """ ["f", "m"] and ["wb", "go", "re"] => ["f_wb", "f_go", "f_re", "m_wb", "m_go", "m_re"] """ return [e1 + "_" + e2 for e1 in lst1 for e2 in lst2]
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import argparse def parse_args(args): """Take care of all the argparse stuff. :returns: the args """ parser = argparse.ArgumentParser(description='Produce spectrum of results.') parser.add_argument('star', help='Star Name', type=str) parser.add_argument('obsnum', help="Observation label") ...
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def robot_paths(x: int, y: int) -> int: """compute the number of paths from top-left to bottom-right cell in a x-y-grid :param x: width of grid :param y: length of grid :return: number of possible paths, when only walking right or down a cell """ number_of_paths = [] for i in range(0, x + 1)...
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import json def ReadJson(Dir, FileName): """ **FileName: string of the file name to be used in the creation Reads a Json file and returns the output P.S file name with the directory but without extension ex. /test """ y = json.load(open(str(Dir) + str(FileName) + '.json','r')) return ...
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def _recursive_01_knapsack_aux(capacity: int, w: list, v: list, value: int) -> int: """Either takes the last element or it doesn't. This algorithm takes exponential time.""" if capacity == 0: return 0 i...
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def linsrgb_to_srgb (linsrgb): """Convert physically linear RGB values into sRGB ones. The transform is uniform in the components, so *linsrgb* can be of any shape. *linsrgb* values should range between 0 and 1, inclusively. """ # From Wikipedia, but easy analogue to the above. gamma = 1.055 *...
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import re def format_results(results): """ Outputs the breach data via markdown, ready to paste into a report. """ # Initialize a new dictionary of known breach names known_breaches = {} # Breaches are returned in JSON-like format regex = '"Name":"(.*?)"' # Loop through our results, ...
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def letter_for(label): """Return the letter for a given label.""" return "ABCDEFGHIJ"[label]
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def read_coverages(input_file): """Return coverage values.""" coverages = [] with open(input_file, 'r') as input_handle: for line in input_handle: coverages.append(float(line.rstrip())) return coverages
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def buildNetwork(batch_payment_file): """ Open batch_payment_file and extract two user IDs from each payment. Use a hashmap to store neighborhood information for each user ID. """ # key: a user ID value: a set of its neighbors IDs network = {} with open(batch_payment_file, "r") as...
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def remove_holidays(df): """This function is to remove all the weekends from the histogram""" df = df.copy() # check weekends" dayofweek = ( df.index.dayofweek.values ) % 7 # shifting to a sunday start, as in energyplus df["weekday"] = dayofweek <= 4 df = df[df["weekday"]] re...
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def bgr01(r, g, b): """Rescales BGR to a 0-1 scale.""" return (b / 255.0, g / 255.0, r / 255.0)
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def get_search_words(): """() -> list Returns a static list with pre-defined search words. Used for searching active & completed products.""" words = ['Alpha Black Lotus', 'Alpha Mox Sapphire', 'Alpha Mox Jet', 'Alpha Mox Pearl', 'Alpha Mox Ruby', 'Alpha Mox Emerald', 'Alpha Timetwister', 'Alpha Ancestral ...
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def parse(source): """ Return words array for the given page source """ children = source.find(id='lemmas').children words = [] for node in children: dt = node.find('dt') if dt != -1: word = dt.find('b').text.strip(',') words.append(word) return wor...
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def to_csv(data, headers): """ convert a set of data to a csv, based on header column names""" rows = [",".join(headers)] for datarow in data: rowdata = [str(datarow.get(h, "")) for h in headers] rows += [",".join(rowdata)] csv = "\n".join(rows) return csv.encode()
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from datetime import datetime def get_date(): """Get current date in YEAR-MONTH-DAY format.""" dt = datetime.now() return dt.strftime("%Y-%m-%d")
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def support(v, eps): """ Given a vector `v` and a threshold eps, return all indices where `|v|` is larger than eps. EXAMPLES:: sage: sage.modular.modform.numerical.support( numerical_eigenforms(61)._easy_vector(), 1.0 ) [] sage: sage.modular.modform.numerical.support( numerica...
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import argparse def buildArgParser(): """ Creates an argparser object out of any command line options """ parser = argparse.ArgumentParser(description='Creates a GBrowse database instance ' + 'from the provided GFF3 file') parser.add_argument('-i',...
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import re def validate_subnet_ids(value): """Raise exception is subnet IDs fail to match constraints.""" subnet_id_pattern = r"^(subnet-[0-9a-f]{8}|subnet-[0-9a-f]{17})$" for subnet in value: if not re.match(subnet_id_pattern, subnet): return fr"satisfy regular expression pattern: {sub...
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def to_world_canvas(world_point, canvas_extents, world_extents): """Transforms a point from world coord system to world canvas coord system.""" x = int(world_point[0] / world_extents[0] * canvas_extents[0]) y = int(canvas_extents[1] - 1 - world_point[1] / world_extents[1] * canvas_extents[1]) return (x,...
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import re import os def parse_ctesttestfile_line(link_target, binary_type, line, verbose=False): """! Parse lines of CTestTestFile.cmake file and searches for 'add_test' @return Dictionary of { test_case : test_case_path } pairs or None if failed to parse 'add_test' line @details Example path with CTestTe...
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import struct def py_int2byte(val): """ Converts Python int value to byte. """ return struct.pack('B', val)
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from os import path def get_full_path(file_path: str) -> str: """ get full path """ if file_path.endswith('/'): file_path = file_path[:-1] return path.abspath(path.expanduser(file_path))
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def flatten_dict(dd, separator='.', prefix=''): """Recursive subroutine to flatten nested dictionaries down into a single-layer dictionary. Borrowed from https://www.geeksforgeeks.org/python-convert-nested-dictionary-into-flattened-dictionary/ Parameters ---------- dd : dict dictionary to f...
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def known_mismatch(hashes1, hashes2): """Returns a string if this is a known mismatch.""" def frame_0_dup_(h1, h2): # asymmetric version return ((h1[0] == h2[0]) and (h1[2:] == h2[2:]) and (h1[1] != h2[1] and h2[1] == h1[0])) def frame_0_dup(h1, h2): return fram...
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def S_load_calc(va,vb,vc,Zload): """Power absorbed by load at PCC LV side.""" return (1/2)*(va*(-(va/Zload)).conjugate() + vb*(-(vb/Zload)).conjugate() + vc*(-(vc/Zload)).conjugate())
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import argparse def create_parser(): """Create a parser.""" parser = argparse.ArgumentParser(description='Average profile(s) from LAMMPS') parser.add_argument( '-f', '--file', help='File to average', required=True, default='x-temp.txt' ) parser.add_argument(...
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def admin_access_allowed(user): """Does the user have the right permissions to be using this app?""" if user: return bool(user.groups.filter(name="equipment_tracker").count())
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def _PruneMessage(obj): """Remove any common structure in the message object before printing.""" if isinstance(obj, list) and len(obj) == 1: return _PruneMessage(obj[0]) elif isinstance(obj, dict) and len(obj) == 1: for v in obj.values(): return _PruneMessage(v) else: return obj
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def to_unicode(s): """Return the parameter as type which supports unicode, possibly decoding it. In Python2, this is the unicode type. In Python3 it's the str type. """ if isinstance(s, bytes): # In Python2, this branch is taken for both 'str' and 'bytes'. # In Python3, this branch...
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def time_check(message): """ check if the duration for the quick search preference is a valid input """ time = 0 try: time = int(message) except Exception as e: return False if time < 1 or time > 8: return False return True
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def _same_side(pos, p, q, a, b): """Indicates whether the points a and b are at the same side of segment p-q""" dx = pos[p][0] - pos[q][0] dy = pos[p][1] - pos[q][1] dxa = pos[a][0] - pos[p][0] dya = pos[a][1] - pos[p][1] dxb = pos[b][0] - pos[p][0] dyb = pos[b][1] - pos[p][1] return (dy...
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def apply_opcode4(code_list, opcode_loc, parameter_mode_dict): """When you've determined that the opcode is 4 - which means to return a value in the location of its only parameter as an output - you can use this function to adjust code_list. Parameters ---------- code_list : list The op...
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def sz_to_ind(sz, charge, nsingle): """ Converts :math:`S_{z}` to a list index. Parameters ---------- sz : int Value :math:`S_{z}` of a spin projection in the z direction. charge : int Value of the charge. nsingle : int Number of single particle states. Returns ...
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def map_activity_model(raw_activity): """ Maps request data to the fields defined for the Activity model """ return { 'activity_id': raw_activity['key'], 'description': raw_activity['activity'], 'activity_type': raw_activity['type'], 'participants': raw_activity['participants']...
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def hierholzer(graph): """Return an Eulerian path via Hierholzer algo""" ans = [] def fn(x): """Return Eulerian path via dfs.""" while graph[x]: fn(graph[x].pop()) ans.append(x) ans.reverse() return ans
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import math def wrap_to_pi(angle): """ Wrap the given angle to pi: -pi <= angle <= pi. :param angle: float, Angle to wrap in rads :return: float, Wrapped angle """ while angle > math.pi: angle -= 2 * math.pi while angle < -math.pi: angle += 2 * math.pi return angle
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def after_commit(self, item, status_code): """ This will be used in an after_commit function. In this case, the process is diverted to a message, new status code and the method exits with this message. """ # processing takes place here payload = { "message": "This is no longer a...
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def is_terminate(runid, iterations, val): """dummy is_terminate call back.""" return False
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