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import itertools def flatten(l): """ Function to flatten a list. """ return list(itertools.chain.from_iterable(l))
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def compute_wap(inner, outer): """Computes the wall area percentage (WAP) from the inner and outer airway measurements.""" return (outer - inner) / outer * 100
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def pkcs5_unpad(data): """Do PKCS5 unpadding to data and return """ data_bytes = bytes(data) return data_bytes[0:-data_bytes[-1]]
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def dash_case(name): """ Convert a camel case string to dash case. Example: >>> dash_case('SomeName') 'some-name' """ letters = [] for c in name: if c.isupper() and letters and letters[-1] != "-": letters.append("-" + c.lower()) else: lett...
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from datetime import datetime def get_formatted_updated_date(str_date): """ converting 2015-08-21T13:11:39.335Z string date to datetime """ return datetime.strptime(str_date, "%Y-%m-%dT%H:%M:%S.%fZ")
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def is_on_filesystem(entry, filesystem): """ Check if a certain element is on a certain type of filesystem :param entry: a dfvfs PathSpec object :param filesystem: dfvfs type indicator string :return: True if the specified filesystem is somewhere in the path-chain of the element """ path = e...
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def remove_return(seq): """ Remove return characters args: seq: String output: seq: String """ return seq.replace("\n", "").replace("\r", "").replace("\t", "")
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import re def extract_value(content, key, is_int_value=True, delimiter='=', throw_not_found=False, default_value=-1): """ Extracts a key from content, value can be an integer or string Args: content (str): the full given text content key (str): the wanted key to be searched in the given co...
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def line_has_sep(line): """Line has a `-` before a `=` """ a = line.find('-') # not header b = line.find('=') # header if a == -1: # No `-` return False elif b == -1: # No `=`, but `-` return True else: return a < b
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def deselect(elements=None): """ Deselects the given elements. If no elements are passed then all elements are deselected. :param elements: List of elements to deselect. If none are given then all elements are deselected. :type elements: list(Element, Element, ...) :return: None ""...
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def _w_long(x): """Convert a 32-bit integer to little-endian.""" return (int(x) & 0xFFFFFFFF).to_bytes(4, 'little')
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def Split_Info(info): """Splits necessary information out from the info vcf column Parameters ---------- info : Series Info column from a vcf as a series Returns ------- dict A dict of necessary fields and their values from the vcf """ fields = ['QD=', 'MQ=', 'MQRa...
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def add_dividers(row, divider, padding): """Add dividers and padding to a row of cells and return a string.""" div = ''.join([padding * ' ', divider, padding * ' ']) return div.join(row)
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def is_transpose_identity(perm): """ Tells if the permutation *perm* does nothing (itentity). :param perm: permutation :return: boolean """ return list(perm) == list(range(len(perm)))
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from typing import List import difflib def compare_files(path1: str, path2: str) -> List[str]: """Returns the delta between two files using -, ?, + format excluding lines that are the same Args: path1 (str): Path to first file path2 (str): Path to second file Returns: List[st...
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def _switch(mthread, local, sync, mproc): """ A construct needed so we can parametrize the executor fixture. This isn't straightforward since each executor needs to be initialized in slightly different ways. """ execs = dict(mthread=mthread, local=local, sync=sync, mproc=mproc) return lambd...
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def convert_units(arg, unit): """Checks compatibility and converts units using simtk.units package Args: arg (Quantity): quantity to be converted unit (Unit): Unit to be converted to Returns: arg (Quantity): Quantity scaled to the new unit """ conversionFactor = (arg.unit)....
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def _canonicalize_extension(ext): """Returns a transformed ext that has a uniform pattern. Specifically, if ``ext`` has a leading . then it is simply returned. If ``ext`` doesn't have a leading . then it is prepended. Exceptions to this are if ``ext`` is ``None`` or "". If ``ext`` is "" then "" is r...
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def get_dictionary_from_list(list_to_search, key, search_value): """ Find a dictionary in a list of dictionaries based on a certain key's value Parameters ---------- list_to_search: list List of dictionaries to search in key: str The key in the dictionaries to look for the value...
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def _string(self) -> str: """Returns string representation of Path.as_posix()""" return self.as_posix()
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def gcd(*args): """Calculate the greatest common divisor (GCD) of the arguments.""" L = len(args) if L == 0: return 0 if L == 1: return args[0] if L == 2: a, b = args while b: a, b = b, a % b return a return gcd(gcd(args[0], args[1]), *args[2:])
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def testTelescopes(k, telescopes): """ k: a telescope, baseline or triplet (str) eg: 'A0', 'A0G1', 'A0G1K0' etc. telescopes: single or list of telescopes (str) eg: 'G1', ['G1', 'A0'], etc. returns True if any telescope in k assumes all telescope names have same length! """ ...
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import torch def _squash(input_tensor, dim=2): """ Applies norm nonlinearity (squash) to a capsule layer. Args: input_tensor: Input tensor. Shape is [batch, num_channels, num_atoms] for a fully connected capsule layer or [batch, num_channels, num_atoms, height, width] or [batch...
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def sort_key(key): """ Quick wrap of key for sorting usage: >>> list_ = [{"a": 1, "b": 3}, {"a": 2, "b": 0}] >>> sorted(list_, key=sort_key("b")) [{"a": 2, "b": 0}, {"a": 1, "b": 3}] """ return lambda i: i[key]
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def crop_image(data, header, scale): """ Crop the image in the given HDUList around the centre point. If the original size is (W, H), the cropped size will be (scale * W, scale * H). """ if scale < 0 or scale > 1: raise ValueError("scale must be in [0, 1]") # idx, data = get_data_index(h...
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import itertools def all_combinations(samples_list): """ returns all combinations in the list given """ iterable = itertools.chain.from_iterable(itertools.combinations(samples_list, r) for r in range(len(samples_list) + 1)) combinations = [] for i in iterable: combinations.append(list(...
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def time_to_str(time_in_seconds): """ Takes a time in Seconds and converts it to a string displaying it in Years, Days, Hours, Minutes, Seconds. """ seconds = time_in_seconds minutes = None hours = None days = None years = None if seconds > 60: minutes = seconds // 6...
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def run(df, dt): """General warpper function to claculate folds by scaffold Args: df (DataFrame): Dataframe with standardized smiles Returns: Tuple (DataFrame, DataFrame): a datframe with successfully calculated fold information, datafarem with failed molecules """ return dt.proces...
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def get_matrix_or_template_parameters(cli_args): """ cifti_conn_matrix and cifti_conn_template both have the same required parameters, with only a few exceptions. This function returns a list of all parameters required by both scripts. :param cli_args: Full argparse namespace containing all CLI args...
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def _format_training_params(params): """Convert dict pof parameters to the CLI format {"k": "v"} --> "--k v" Args: params (dict): Parameters Returns: str: Command line params """ outputs = [] for k, v in params.items(): if isinstance(v, bool): if v: ...
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def valid_parentheses_brackets(input_string: str) -> bool: """ Determine whether the brackets, braces, and parentheses in a string are valid. Works only on strings containing only brackets, braces, and parentheses. Explanation: https://www.educative.io/edpresso/the-valid-parentheses-problem :param...
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def do_chars_exist_in_db(conn, mal_id: int) -> bool: """ Args: conn ([type]): database connection mal_id (int): myanimelist id Returns: bool: returns true if there are character records for anime id """ with conn: with conn.cursor() as cursor: query = """...
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def id_to_ec2_id(instance_id, template='i-%08x'): """Convert an instance ID (int) to an ec2 ID (i-[base 16 number])""" return template % instance_id
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def buildnavcell(prefix, dateString, mouseoverImg, mouseoutImg, name): """Build the HTML for a single navcell. prefix -- the string to tack on to the front of the anchor name dateString -- the date, as a string, to be used in the anchor name mouseoverImg -- name of the image to be displayed on mouseove...
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def calc_prob_sr(pt, sl, freq, tgt_sr, rf=0.): """Calculate required probability wrt target SR Paramters --------- pt: float Profit Take sl: float Stop Loss freq: float Frequency of trading tgt_sr: float Target Sharpe Ratio rf: float, (default 0) ...
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def encode(integer: int) -> bytes: """Encodes an integer as an uvarint. :param integer: the integer to encode :return: bytes containing the integer encoded as an uvarint """ def to_byte(integer: int) -> int: return integer & 0b1111_1111 buffer: bytearray = bytearray() while intege...
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from typing import Dict from typing import Any import json import base64 def extract_pubsub_payload(event: dict) -> Dict[str, Any]: """Extracts payload from the PubSub event body. Args: event: PubSub event body, e.g. { "message": { "data": <base64 encod...
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import io def parse_aliases_file(file_path): """ Parses an emoji aliases text file. Returns a list of tuples in the form ('src_name', 'dst_name'). """ with io.open(file_path, encoding='utf-8') as fp: lines = fp.read().splitlines() aliases_list = [] for line in lines: line ...
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def make_goal(func): """Decorator that turns a function of the form f(Substitution, ...) into a goal-creating function. For example: @make_goal def same(s, u, v): ... is equivalent to def same(u, v): def goal(s): ... return go...
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from platform import python_compiler def python_version(name): """ Get compiler version used in Python. Parameters ---------- name : str Compiler name. Returns ------- float: version """ version_str = python_compiler() if name not in version_str.lower(): ...
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def get_table_rows(soup): """ Get all table rows from the first tbody element found in soup parameter """ tbody = soup.find('tbody') return [tr.find_all('td') for tr in tbody.find_all('tr')]
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def topleft2corner(topleft): """ convert (x, y, w, h) to (x1, y1, x2, y2) Args: center: np.array (4 * N) Return: np.array (4 * N) """ x, y, w, h = topleft[0], topleft[1], topleft[2], topleft[3] x1 = x y1 = y x2 = x + w y2 = y + h return x1, y1, x2, y2
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def crop(im, slices=(slice(100, -100), slice(250, -300))): """Crop an image to contain only plate interior. Parameters ---------- im : array The image to be cropped. slices : tuple of slice objects, optional The slices defining the crop. The default values are for stitched i...
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def build_speech_response(title, ssml_output, plain_output): """Build a speech JSON representation of the title, output text, and end of session.""" # In this app, the session always ends after a single response. return { 'outputSpeech': { 'type': 'SSML', 'ssml': ssml_output...
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import copy def nondimensionalise_parameters(params): """ Nondimensionalise parameters. Arguments --------- rc : float Characteristic radius (length) qc : float Characteristic flow Ru : float Upstream radius Rd : float Downstream radius L : float ...
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def qtr_offset(qtr_string, delta=-1): """ Takes in quarter string (2005Q1) and outputs quarter string offset by ``delta`` quarters. """ old_y, old_q = map(int, qtr_string.split('Q')) old_q -= 1 new_q = (old_q + delta) % 4 + 1 if new_q == 0: new_q = 4 new_y = old_y + (old_q + ...
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from zlib import decompress from base64 import b64decode def decompress_string(string: str) -> str: """ Decompress a UTF-8 string compressed by compress_string :param string: base64-encoded string to be decompressed :return: original string """ # b64 string -> b64 byte array -> compressed by...
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def create_dense_state_space_columns(optim_paras): """Create internal column names for the dense state space.""" columns = list(optim_paras["observables"]) if optim_paras["n_types"] >= 2: columns += ["type"] return columns
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def calculate_overall_score( google_gaps_percentage: float, transcript_gaps_percentage: float, google_confidence: float, alignment_score: float, weight_google_gaps: float, weight_transcript_gaps: float, weight_google_confidence: float, weight_alignment_score: float ) -> float: ""...
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def recursive_thue_morse(n): """The recursive definition of the Thue-Morse sequence. The first few terms of the Thue-Morse sequence are: 0 1 1 0 1 0 0 1 1 0 0 1 0 1 1 0 . . .""" if n == 0: return 0 if n % 2 == 0: return recursive_thue_morse(n / 2) if n % 2 == 1: return 1 - r...
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from typing import Dict def add_information(statistic_dict: Dict, statistic_information: Dict): """ Add information to existing dict. Arguments: statistic_dict {Dict} -- Existing dict. statistic_information {Dict} -- Data to add. """ statistic_dict["dates"].append(statistic_inform...
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def flip_edges(adj, edges): """ Flip the edges in the graph (A_ij=1 becomes A_ij=0, and A_ij=0 becomes A_ij=1). Parameters ---------- adj : sp.spmatrix, shape [n, n] Sparse adjacency matrix. edges : np.ndarray, shape [?, 2] Edges to flip. Returns ------- adj_flipped ...
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import socket def _check_ip_and_port(ip_address, port, timeout): """Helper function to check if a port is open. Args: ip_address(str): The IP address to be checked. port(int): The port to be checked. timeout(float): The timeout to use. Returns: bool: True if a connection ...
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def _add_thumb(s): """ Modifies a string (filename, URL) containing an image filename, to insert '.thumb' """ parts = s.split(".") parts.insert(-1, "thumb") if parts[-1].lower() not in ['jpeg', 'jpg']: parts[-1] = 'jpg' return ".".join(parts)
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from typing import Any import asyncio import inspect def is_coroutine(obj: Any) -> bool: """Check to see if an object is really an asyncio coroutine. :param Any obj: any object. :return: `True` or `False`. """ return asyncio.iscoroutinefunction(obj) or inspect.isgeneratorfunction(obj)
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def get_id_name(module, id_to_check): """Return the ID name if defined, otherwise return the numbered ID.""" for name in module.symbol_name_to_id: if module.symbol_name_to_id[name] == id_to_check: return name return str(id_to_check)
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def rect_radius(ellipsoid): """ Computes the Rectifying Radius of an Ellipsoid with specified Inverse Flattening (See Ref 2 Equation 3) :param ellipsoid: Ellipsoid Object :return: Ellipsoid Rectifying Radius """ nval = (1 / float(ellipsoid.inversef)) / (2 - (1 / float(ellipsoid.inversef))) ...
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def endgame_score_connectfour_faster(board, is_current_player_maximizer) : """Given an endgame board, returns an endgame score with abs(score) >= 1000, returning larger absolute scores for winning sooner.""" chains_1 = board.get_all_chains(current_player=is_current_player_maximizer) chains_2 = board.get...
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from typing import Any def _is_simplekv_key_value_store(obj: Any) -> bool: """ Check whether ``obj`` is the ``simplekv.KeyValueStore``-like class. simplekv uses duck-typing, e.g. for decorators. Therefore, avoid `isinstance(store, KeyValueStore)`, as it would be unreliable. Instead, only roughly ...
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import typing def list_difference(list_a, list_b) -> typing.List: """ Function that returns difference between given two lists. """ # Returning. return [element for element in list_a if element not in list_b]
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def check_ranges(cpe_item, version): """ According to the specification, CPE uses also ranges with the keywords 'version[Start|End][Including|Excluding]'. This way it specifies ranges of versions which are affected by the CVE, for example versions from 4.0.0 to 4.5.0. :param cpe_item: cpe data ...
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def CStringIo_to_String(string_io_object): """Converts a StringIO.StringIO object to a string. Inverse of String_to_CStringIo""" return string_io_object.getvalue()
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def is_valid_response(resp): """ Validates a Discovery response Fail if a failure response was received """ return resp.get("result") != "failure"
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def rateTSCan(params: dict, states: dict) -> float: """ Temperature Sum [oC d] TSCan is set from negative in the vegetative phase and to 0oC d at the start of the generative phase (i.e. the first fruit set). When TSCan exceeds 0 oC d, the carbohydrate distribution to the fruits increases li...
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import requests def get_from_api(url, *, verbose=False): """ Performs GET request to URL with the ProPublica API Key header """ vprint = lambda *a, **kwa: print(*a, **kwa) if verbose else None with open("APIKey.txt", "r") as keyFile: apiKey=keyFile.readline() if apiKey[-1] == '\n': ...
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def _get_nc_attr(var, attr, default=""): """ _get_nc_attr This function, looks inside a netCDF 4 Dataset object for the attributes of a variable within the object. If the attribute specified for the variable exists then the attribute is returned. If the attribute is not associated with the variabl...
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import requests import json def yelp_search(api_key, params): """ Makes an authenticated request to the Yelp API api_key: read text file containing API key parameters: term: keywords to search (tacos, etc.) location: location keywords (Seattle, etc.) Returns JSON """ search...
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def get_valid_image_ranges(experiments): """Extract valid image ranges from experiments, returning None if no scan""" valid_images_ranges = [] for exp in experiments: if exp.scan: valid_images_ranges.append(exp.scan.get_valid_image_ranges(exp.identifier)) else: valid_...
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def isc_250m_to_1km ( i_sc_250m ) : """ return the 1km grid index cross track of a 250m pixel """ return i_sc_250m / 4.
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import re def extract_fasta_id(seqIdString): """ Extract the id in the fasta description string, taking only the characters till the '|'. """ seqId = None regex1 = re.compile(r'^\s*?([^|]+?)(\s|\||$)') seqIdSearch = re.search(regex1, seqIdString) if seqIdSearch: seqId = seqIdSearch...
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def compile_vprint_function(verbose): """Compile a verbose print function Args: verbose (bool): is verbose or not Returns: [msg, *args]->None: a vprint function """ if verbose: return lambda msg, *args: print(msg.format(*args)) return lambda *_: None
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from typing import Callable def custom_splitter(separator: str) -> Callable: """Custom splitter for :py:meth:`flatten_dict.flatten_dict.unflatten()` accepting a separator.""" def _inner_custom_splitter(flat_key) -> tuple[str, ...]: keys = tuple(flat_key.split(separator)) return keys retu...
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def get_required_capacity_types_from_database(conn, scenario_id): """ Get the required type modules based on the database inputs for the specified scenario_id. Required modules are the unique set of generator capacity types in the scenario's portfolio. :param conn: database connection :param sc...
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def radius_sonic_point(planet_mass, sound_speed_0): """ Radius of the sonic point, i.e., where the wind speed matches the speed of sound. Parameters ---------- planet_mass (``float``): Planetary mass in unit of Jupiter mass. sound_speed (``float``): Constant speed of sound ...
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def _process_type(type_): """Process the SQLAlchemy Column Type ``type_``. Calls :meth:`sqlalchemy.sql.type_api.TypeEngine.compile` on ``type_`` to produce a string-compiled form of it. "string-compiled" meaning as it would be used for a SQL clause. """ return type_.compile()
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import pathlib import typing def _get_file_format_id(path: pathlib.Path, file_format: typing.Optional[str]) -> str: """Determine the file format for writing based on the arguments.""" formats = { "yaml": path.name.endswith((".yml", ".yaml")), "toml": path.name.endswith(".toml"), "json"...
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def remove_common_elements(package_list, remove_set): """ Remove the common elements between package_list and remove_set. Note that this is *not* an XOR operation: packages that do not exist in remove_set (but exists in remove_set) are not included. Parameters ---------- package_list : lis...
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import torch def quaternion_to_angle_axis(quaternion: torch.Tensor) -> torch.Tensor: """Convert quaternion vector to angle axis of rotation. Adapted from ceres C++ library: ceres-solver/include/ceres/rotation.h Args: quaternion (torch.Tensor): tensor with quaternions. Return: torch....
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def ips_to_metric(d, min_depth, max_depth): """ https://github.com/fyu/tiny/blob/4572a056fd92696a3a970c2cffd3ba1dae0b8ea0/src/sweep_planes.cc#L204 Args: d: inverse perspective sampling [0, 1] min_depth: in meter max_depth: in meter Returns: """ return (max_depth * min_...
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import re def check_text(line): """ Compares a line to see if there are any blacklisted words""" is_okay = True blacklist = ["CHAPTER", "Part", "Section"] rgx_check = re.search('([A-Z])\. +(\w+)', line) if rgx_check is not None: is_okay = False if line == "": is_okay = Fals...
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def duplicate_count(text: str) -> int: """Counts amount of duplicates in a text. Examples: >>> assert duplicate_count("abcde") == 0 >>> assert duplicate_count("abcdea") == 1 >>> assert duplicate_count("indivisibility") == 1 """ return len( set(item for item in text.lower...
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def _get_id_from_extension_link(ext_link): """Get the id from an extension link. Expects the id to come after the "/extension/service/" parts of the link Example ext_link: '/admin/extension/service/12345/' Example return: '12345' :param str ext_link: the extension link to extract the id fr...
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def get_scale(bounding_box, target_size): """ Get a scale that would bring smaller side of bounding box to have target_size :param bounding_box: bounding box :param target_size: target size for smaller bounding box side :return: float """ horizontal_side = bounding_box.bounds[2] - bounding_...
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def line_range(lines, ind1, comment_flag='#'): """ Find a range of data lines within a line list. Given an input line list and a starting index, subsequent lines are examined to see where the next comment line is. Comment lines are assumed to start with the # character by default, or one can set t...
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from typing import Optional import re def _extract_job_id(job_name: str) -> Optional[str]: """Extracts job id from job name. Args: job_name: The full job name. Returns: The job id or None if no match found. """ p = re.compile( 'projects/(?P<project_id>.*)/locations/(?P<region>.*)/pipelineJobs/...
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def _get_QDoubleSpinBox(self): """ Get current value for QDoubleSpinBox """ return self.value()
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def addition(a, b): """ Adds two given values Parameters: a (int): First value b (int): Second value Returns: int: sum result """ return a + b
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def str2num(val: str): """ Try to convert to number, else keep as string :param val: String value :return: int, float or string """ try: return int(val) except ValueError: try: return float(val) except ValueError: return val
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import hashlib def hash_file(filename): """ Utility function to hash a file Args: filename (str): name fo file to hash """ with open(filename, "rb") as f: chunk = f.read() return hashlib.md5(chunk).digest()
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def smallest_multiple_of_n_geq_m(n: int, m: int) -> int: """ Returns the smallest multiple of n greater than or equal to m. :param n: A strictly positive integer. :param m: A non-negative integer. :return: The smallest multiple of n that is greater or equal to m. """ return m + ((n - (m % n...
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def is_valid_interval(x): """ Returns true iff x is a well-shaped concrete time interval (i.e. has valid beginning and end). """ try: return hasattr(x, "hasBeginning") and len(x.hasBeginning) > 0 and \ len(x.hasBeginning[0].inTimePosition) > 0 and \ len(x.hasBeginni...
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def cmd(func): """Indicate that ``func`` returns a shell command with this decorator. If this function is an operation function defined by :class:`~.FlowProject`, it will be interpreted to return a shell command, instead of executing the function itself. For example: .. code-block:: python ...
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def Normalize(tensor, mean, std): """ Given mean: (R, G, B) and std: (R, G, B), will normalize each channel to `channel = (channel - mean) / std` Given mean: GreyLevel and std: GrayLevel, will normalize the channel to `channel = (channel - mean) / std` :param tensor: image tensor to be normaliz...
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def _strong_gens_from_distr(strong_gens_distr): """ Retrieve strong generating set from generators of basic stabilizers. This is just the union of the generators of the first and second basic stabilizers. Parameters ========== ``strong_gens_distr`` - strong generators distributed by membe...
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def generate_solution(x: int, n: int) -> int: """This is the "naive" way to compute the solution, for testing purposes. In this one, we actually run through each element. """ counter = 0 for i in range(1, n + 1): for j in range(1, n + 1): if i * j == x: counter +...
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from functools import reduce def _merge_max_mappings(*mappings): """Merge dictionaries based on largest values in key->value. Parameters ---------- *mappings : Dict[Any, Any] Returns ------- Dict[Any, Any] Examples -------- >>> _merge_max_mappings({"a":1, "b":4}, {"a":2}) ...
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import random def generate_grid(height = 10, width = 10, seed = None, sparcity = 75, separator = "#", gap = "."): """Create empty grid as base for crossword :param height: number of rows in puzzle <1, 1000> :param width: number of columns in puzzle <1, 1000> :param seed: number used as seed in RNG ...
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from typing import Dict def get_existing_mapped_pipestep(func_name:str, code_to_func:Dict[str,int]): """ Given an existing mapping of function:id, return the id associated with the function Will raise an error if the function does not already have an entry in the mapping :param func_...
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import hmac import hashlib import base64 def _GetSignature(key, url): """Gets the base64url encoded HMAC-SHA1 signature of the specified URL. Args: key: The key value to use for signing. url: The url to use for signing. Returns: The signature of the specified URL calculated using HMAC-SHA1 signatu...
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import collections def filter_dataframes(dfs, xs, ys, table_ys, args_list, valid_keys): """Process necessary information from dataframes in the Bokeh format. In the following explanation, N is assumed to be the number of experiments. For xs_dict and ys_dict: These are dictionary of list of list....
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