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def run(factory, method: str, **kwargs): """hook to call event list factory call any function Args: factory: :obj:`design_db_manager.events.EventManager` or :obj:`str` method (str): 取得の仕方. 'get' or 'get_all' kwargs (dict): kwargs for method selected by args date or (yea...
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def arr_2_tio_image(arr): """ ScalarImage(shape: (c, w, h, d)) dtype: torch.DoubleTensor """ arr = arr.swapaxes(0,3) return tio.ScalarImage(tensor=arr)
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def get_data_type(name): """Extract the data type name from an ABC(...) type name.""" return name.split('(', 1)[0]
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from typing import Tuple import math def rytz_axis_construction(d1: Vec3, d2: Vec3) -> Tuple[Vec3, Vec3, float]: """The Rytz’s axis construction is a basic method of descriptive Geometry to find the axes, the semi-major axis and semi-minor axis, starting from two conjugated half-diameters. Source: `W...
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def moving_average(time_series, window_size=20, fwd_fill_to_end=0): """ Computes a Simple Moving Average (SMA) function on a time series :param time_series: a pandas time series input containing numerical values :param window_size: a window size used to compute the SMA :param fwd_fill_to_end: index ...
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def format_timestamp(df): """ Reformat timestamps to ISO 8601 Args: df: input dataframe Return: input dataframe with timestamps formatted as ISO 8601 """ return df.withColumn( "timestamp", F.date_format( F.to_timestamp("timestamp"), "yyyy-MM-dd'T'HH:m...
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def FE(obs, mod, axis=None): """ Fractional Error (%)""" return (old_div(np.ma.abs(mod - obs), (mod + obs))).mean(axis=axis) * 2. * 100.
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def run_query(db_config_file, query, columns, **kwargs): """ General function to run a query against MLWH. Parameters ---------- db_config_file : str Path to MySQL config file. query : str SQL query. columns : list of str Column names for output. **kwargs ...
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import time def compute_distribution_shift(index, df_wgt, Y, X, method, hist_len, freq=None, tic=0): """ Y:target (unobserved), X:data (observed) """ N = Y.shape[1] p = _normalize_distribution(Y) q = _normalize_distribution(X) if method.lower() in ['kl', 'kl-divergence']: eps_ratio = (1-...
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from pathlib import Path from typing import Sequence def load_input(path: Path) -> Sequence[int]: """Loads the input data for the puzzle.""" with open(path, "r") as f: depths = tuple(int(d) for d in f.readlines()) return depths
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def create_user(email, password): """Create and return a new user.""" user = User(email=email, password=password) db.session.add(user) db.session.commit() return user
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def forgiving_state_copy(target_net, source_net): """ Handle partial loading when some tensors don't match up in size. Because we want to use models that were trained off a different number of classes. """ net_state_dict = target_net.state_dict() loaded_dict = source_net.state_dict() new...
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def _get_query_results(job, splunk_client, limit): """ Get results from a complete Splunk query """ # Get the results and display them response = splunk_client.get_results(job, limit) # Replace "null" with "" if response: response = remove_nulls(response) return response
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import asyncio def patched_auth_failed_open_connection(auth_failed_prepared_stream_reader, event_loop): """Return a tuple of patched stream_reader and stream_writer.""" stream_writer = MagicMock() if asyncio.iscoroutinefunction(stream_writer): # Python 3.8.2 and later return_value = (auth_...
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def has_permissions(**perms): """ A decorator that checks if the author has the required permissions. Examples -------- :: @has_permissions(administrator=True) async def setup(ctx): print("Success") """ async def predicate(ctx): """ Parameters ...
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def warning(text, render=1): """ display a warning Args: text (str): warning message render (bool, optional): Defaults to True. render or return settings Returns: str: setting value if render=False, None otherwise """ color = 'yellow' s = "[Warning] %s" % text writ...
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def _ratio_enum(anchor, ratios): """ Enumerate a set of anchors for each aspect ratio wrt an anchor.""" w, h, x_ctr, y_ctr = _whctrs(anchor) size = w * h size_ratios = size / ratios ws = np.round(np.sqrt(size_ratios)) hw = np.round(ws * ratios) anchors = _mkanchors(ws, hs, x_ctr, y_ctr) ...
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def dummy_filefield_as_sequence(toformat_name): """Simple helper method to fill a models.FileField""" return factory.Sequence(lambda n: get_dummy_uploaded_image(toformat_name % n))
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import logging def intersect(bed, truth, chromosome, prefix): """ Perform bed intersection at chromosome level :param bed: str Bed file path :param truth: str Truth vcf path :param chromosome: str Chromosome :param prefix: str Prefix of the output file ...
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def read_model(hdf5_file_name): """Reads model from HDF5 file. :param hdf5_file_name: Path to input file. """ return keras.models.load_model(hdf5_file_name)
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from io import StringIO def image(server, hash_string): """Handle image, use redis to cache image.""" image_url = 'https://{0}.zhimg.com/{1}'.format(server, hash_string) cached = Config.redis_server.get(image_url) if cached: buffer_image = StringIO(cached) buffer_image.seek(0) else...
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def address(interface): """ Get the IPv4 address assigned to an interface. Example:: import fabtools # Print all configured IP addresses for interface in fabtools.network.interfaces(): print(fabtools.network.address(interface)) """ with settings(hide('running'...
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def nearest_griddata(x, y, z, xi, yi): """ Nearest Neighbor Interpolation Method. Nearest-neighbor interpolation (also known as proximal interpolation or, in some contexts, point sampling) is a simple method of multivariate interpolation in one or more dimensions.<br/> Interpolation is the problem of ...
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def clean_invite_embed(line): """Makes invites not embed""" return line.replace("discord.gg/", "discord.gg/\u200b")
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def invalid_name(statement): """Identifies invalid identifiers when a name begins with a number""" first = statement.prev_token second = statement.bad_token # New in Python 3.10 if ( statement.highlighted_tokens is not None and len(statement.highlighted_tokens) > 1 ): fir...
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def bbox_iou(bboxes1, bboxes2): """ @param bboxes1: (a, b, ..., 4) @param bboxes2: (A, B, ..., 4) x:X is 1:n or n:n or n:1 @return (max(a,A), max(b,B), ...) ex) (4,):(3,4) -> (3,) (2,1,4):(2,3,4) -> (2,3) """ bboxes1_area = bboxes1[..., 2] * bboxes1[..., 3] bboxes2_area =...
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import tqdm def get_album_audio_analysis(sp, album_name, album_name_dict, album_info_path): """Get audio analysis data for all albums for the given artists and pickle the data-frames :param sp: Spotify object :type sp: object :param album_name: List of album names :type album_name: list :para...
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def fit_and_sample(lagged_zvalues:[[float]],num:int, copula=None, fig_file=None, labels=None ): """ Example of fitting a copula function, and sampling lagged_zvalues: [ [z1,z2,z3] ] Data with roughly N(0,1) margins copula : returns: [ [z1, z2, z3] ] representative sample ...
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from typing import Dict from typing import List from typing import cast def set_errors_to_event(event_uuid: str, errors: Dict[str, List[str]]) -> bool: """Adds the list of errors provided into the event. Arguments: event_uuid {str} -- The UUID for the event to add errors to. errors {List[str]...
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def createQueryFilters(filters): """ Takes in filters from the frontend and creates a query that elasticsearch can use Args: filters with the fields below verified - if the user is verified topics - list of topics we want to see pov - point of view lang - the langauge the tw...
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import torch def compute_dual_subgradient(weights, dual_vars, lbs, ubs, l_preacts, u_preacts): """ Given the network layers, post- and pre-activation bounds as lists of tensors, and dual variables (and functions thereof) as DualVars, compute the subgradient of the dual objective. :return: DualVars ins...
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import torch def plot_surface_density_profile(model: astro_dynamo.model.DynamicalModel, ax: SubplotBase = None, target_values: torch.Tensor = None) -> SubplotBase: """Plots the azimuthally averaged surface density of a model. The model must con...
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import hashlib import zlib def calc_hash_crc(filename): """Calculate hash and crc32 of selected file""" data = open(filename, 'rb').read() fhash = hashlib.sha256(data).hexdigest() fcrc = zlib.crc32(data) return {'sha256': fhash, 'crc32' : fcrc}
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def deny_request(request, cast: Cast, username: str): """ Denies a cast membership request """ user = get_object_or_404(User, username=username) try: cast.remove_member_request(user.profile) except ValueError as exc: messages.error(request, str(exc)) else: notify.send...
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async def create_user_service_call(request: web.Request) -> web.Response: """ Register User """ user_host = request.app["config"].user_service.host user_port = request.app["config"].user_service.port user_path = request.app["config"].user_service.path user_url = URL(f"http://{user_host}:{user_port}...
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def compareDocDecorator(f): """Decorator that updates doc strings for comparison methods. Similar to :func:`serpentTools.plot.magicPlotDocDecorator` but for comparison functions """ f.__doc__ = compareDocReplacer(f.__doc__) return f
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def unet2D(input_tensor, use_upsampling=False, n_out=1, dropout=0.2, print_summary = False, return_model=False): """ 2D U-Net """ print("2D U-Net Segmentation") inputs = K.layers.Input(shape=input_tensor, name="Images") # Convolution parameters params = dict(kernel_size=(3, 3),...
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def set_accuracy_83(num): """Reduce floating point accuracy to 8.3 (xxxxx.xxx). :param float num: input number :returns: float with specified accuracy """ return float("{:8.3f}".format(num))
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def get_hexes_at_radius(centre_col, centre_row, radius): """ Function that get a list of all hexes at a certain radius from a centre hex """ if radius == 0: hex_list = [[centre_col, centre_row]] return hex_list if radius == 1: hex_list = [[centre_col, centre_row - 2], ...
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import ast def get_dependency_network(filepath): """ Given a directory, collects all Python and IPython files and uses the Python AST to create a dictionary of dependencies from them. Returns the dependencies converted into a NetworkX graph. """ files = get_files(filepath) dependencies = {...
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import requests def get_user(user_name): """ Fetches a github developer (user). Receives an username/login. E.g. 'h3nnn4n' """ auth = get_auth() result = requests.get( f'https://api.github.com/users/{user_name}', auth=auth ) rate_limit_update(result.headers) check...
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def ellipsecoords(pars,npoints=100): """ Create coordinates of an ellipse.""" # [x,y,asemi,bsemi,theta] # copied from ellipsecoords.pro xc = pars[0] yc = pars[1] asemi = pars[2] bsemi = pars[3] pos_ang = pars[4] phi = 2*np.pi*(np.arange(npoints,dtype=float)/(npoints-1)) # Divide ci...
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from typing import Tuple from typing import Union def crop_images_scan_manual(images: Tuple[Image], ids: Union[list, DF], x_sizes: Union[list, DF], y_sizes: Union[list, DF]) -> Tuple[Image]: """ Read data from dataframe ids, series x_sizes and y_sizes and crop images """ x_sizes = ...
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def number_vars(expr): """ returns the number of variables in expr """ m = PBA.get_var_map(expr) return len(m)
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def get_staticmethod_func(cm): """ Returns the function wrapped by the #staticmethod *cm*. """ if hasattr(cm, '__func__'): return cm.__func__ else: return cm.__get__(int)
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def like_hood_data_individual(l_values, decision_mat, state_mat): """ generates the individual likelihood contribution based on the model. Parameters ---------- l_values : np.array the raw log likelihood per state. decision_mat : numpy.array see :ref:`decision_mat` state_mat...
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def new_extractor_obj(): """ Gera um objeto News_extractor novo para cada teste. """ return News_extractor()
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from pathlib import Path from typing import Optional def render_jinja2_template( template_path: Path, package: Optional[Package] = None, service_name: Optional[ServiceName] = None, ) -> str: """ Render Jinja2 template to a string. Arguments: template_path -- Relative path to template ...
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def fault_wtd_avg_params(slipmodel): """ ### # fault_wtd_avg_params: Generate default format for fault parameters from a given slip model for RW ### """ num_faults = int(np.max(slipmodel[:, 0]) + 1) faults = np.zeros((num_faults, 6)) sub_fault_pot = np.zeros((len(slipmodel), 2)) ...
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import uuid async def get_task(request): """ Returns a task :Example: curl -X GET http://localhost:8082/foglamp/task/{task_id}?name=xxx&state=xxx """ try: task_id = request.match_info.get('task_id', None) if not task_id: raise web.HTTPBadRequest(reason='Task ID is r...
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def endtext(update, context): """Returns `ConversationHandler.END`, which tells the ConversationHandler that the conversation is over""" try: BOT.delete_message( chat_id=update.message.chat.id, message_id=context.user_data['message_id'] ) except: pass ...
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def taq_initial_data(): """Takes the initial values for the analysis :return: None -- The function prints the message and does not return a value. """ print() print('#################################################') print('Average Response Functions Physical Time Analysis') print('#...
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from typing import Callable def make_series_filter( user: str = None, sys_name: str = None, newer_than: dt.datetime = None, older_than: dt.datetime = None, complete: bool = False, incomplete: bool = False) -> Callable[[SeriesInfo], bool]: """Generate a filter for using with dir_db function...
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def users(*logins): """ Decorate a method to execute it once for each given user. """ @decorator def wrapper(func, *args, **kwargs): self = args[0] old_uid = self.uid try: # retrieve users Users = self.env['res.users'].with_context(active_test=False) ...
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def laplace_mech(eps, delta, k=1, prob=1.0): """ Calibrate the scale parameter b of the Laplace mechanism :param eps: prescribed eps :param delta: prescribed delta :param k: (optional) number of times to run this mechanism. :return: the parameter structure for this randomized algorithm """ ...
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import platform def is_mac(): """ Checks if we are running on Mac OSX. :returns: **bool** to indicate if we're on a Mac """ return platform.system() == 'Darwin'
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import math def log(x, base=None): """ log(x, base=e) Logarithmic function. """ _math = infer_math(x) if base is None: return _math.log(x) elif _math == math: return _math.log(x, base) else: # numpy has no option to set a base return _math.log(x) / _math.log...
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def air_to_vacuum(wair, units): """Convert wavelengths in air to wavelengths in vacuum. **Algorithm:** Convert input air wavelengths to Angstroms. Convert air wavelengths greater than 1999.3520267833621 Angstroms to vacuum wavelengths using the following formulae, which is used by VALD3: .. math::...
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def tf_spost(A): """Superoperator on the right of matrix A.""" Id = Id_like(A) return tf_kron(Id, tf.linalg.matrix_transpose(A))
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def element_to_toc_item(element): """Convert an element to a TOC item, recursively converting children. Args: element (dict) - tree element represented as a dict. """ sub_items = [] if "members" in element: # Group members by type, then alphabetically. element["members"].sort...
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import six def _get_opd_info(self, opd=None, HDUL_to_OTELM=True): """ Parse out OPD information for a given OPD, which can be a file name, tuple (file,slice), HDUList, or OTE Linear Model. Returns dictionary of some relevant information for logging purposes. The dictionary has an OPD version as ...
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def latlon(sec3, npoints): """Computes latitudes and longitudes of grid points. Parameters ---------- sec3 : bytes Section 3 of GRIB2 message. npoints : int Number of points in grid. Returns ------- lon, lat : tuple Longitudes and latitudes of grid point...
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def load_file(path): """Loads file and return its content as list. Args: path: Path to file. Returns: list: Content splited by linebreak. """ with open(path, 'r') as arq: text = arq.read().split('\n') return text
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def mean_autocorrelation(x): """ Calculates the average autocorrelation (Compare to http://en.wikipedia.org/wiki/Autocorrelation#Estimation), taken over different all possible lags (1 to length of x) .. math:: \\frac{1}{n} \\sum_{l=1,\ldots, n} \\frac{1}{(n-l)\sigma^{2}} \\sum_{t=1}^{n-l}(X_{t...
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def LF_screw(c): """ Checking if a screw is mentioned """ return ABNORMAL_VAL if "screw" in c.report_text.text.lower() else ABSTAIN_VAL
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from typing import Type import enum def _enum_help(msg: str, e: Type[enum.Enum]) -> str: """ Render a `--help`-style string for the given enumeration. """ return f"{msg} (choices: {', '.join(str(v) for v in e)})"
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def distance_numpy_einsum(ps, p1): """ Distance calculation using numpy einstein sum """ flat_units = (item for sublist in ps for item in sublist) units_np = np.fromiter(flat_units, dtype=float, count=2 * len(ps)).reshape((-1, 2)) point_np = np.fromiter(p1, dtype=float, count=2).reshape((-1, 2)) del...
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def without_keywords(url,API_KEY): """ :type url: string :param url: url of the website :type API_KEY: string :param API_KEY: google news api API Key This method returns two types of dictionary if the algorithm manages to find relevent articlesit returns a dictionary with keys sta...
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def orient_az_diff(err): """Differences between two azimuthal angles wraps around the circle and should be centered about the subtractend (reference direction). Parameters ---------- diff Returns ------- reoriented_diff """ return ((err + np.pi) % (2 * np.pi)) - np.pi
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def volume_fraction(pvms): """ Computes the :abbr:`ICV (intracranial volume)` fractions corresponding to the (partial volume maps). :param list pvms: list of :code:`numpy.ndarray` of partial volume maps. """ tissue_vfs = {} total = 0 for k, lid in list(FSL_FAST_LABELS.items()): ...
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def to_timestamp(arg, format_str, timezone=None): """ Parses a string and returns a timestamp. Parameters ---------- format_str : A format string potentially of the type '%Y-%m-%d' timezone : An optional string indicating the timezone, i.e. 'America/New_York' Examples -------- ...
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import calendar def get_timestamp(node): """ Return a dokuwiki-Compatible Unix int timestamp for a mediawiki API page/image/revision """ dt = simplemediawiki.MediaWiki.parse_date(node['timestamp']) return int(calendar.timegm(dt.utctimetuple()))
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from operator import mod def FOM(t0,dM,P,step=None,**kwargs): """ Plot the figure of merit """ if step is None: step = np.nanmax(dM.data) Pcad = int(round(P/lc)) dMW = tfind.XWrap(dM,Pcad,fill_value=np.nan) dMW = ma.masked_invalid(dMW) dMW.fill_value=np.nan res = tfind.e...
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from typing import OrderedDict def array_remove_duplicates(s): """removes any duplicated elements in a string array.""" return list(OrderedDict.fromkeys(s))
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from typing import Optional def get_scholia_iri(prefix: str, identifier: str) -> Optional[str]: """Get a Scholia IRI, if possible. :param prefix: The prefix in the CURIE :param identifier: The identifier in the CURIE :return: A link to the Scholia page >>> get_scholia_iri("pubmed", "1234") '...
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def timestamp_of_last_action(user, grid): """ Template filter implementing `time_of_last_action` from models/place.py. """ if not user.is_authenticated: return 0 return time_of_last_action(user, grid).timestamp()
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def kullback_leibler_divergence(weights=1.0, name='KullbackLeiberDivergence', scope=None, collect=False): """Adds a Kullback leiber diverenge loss to the training procedure. Args: name: name of the op. scope: The scope for the operations performed in computing t...
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def get_gateway_counts(bpmn_graph): """ Returns the count of the different types of gateways in the BPMNDiagramGraph instance. :param bpmn_graph: an instance of BpmnDiagramGraph representing BPMN model. :return: count of the different types of gateways in the BPMNDiagramGraph instance """ ...
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def build_5_cycle_graph(): """Builds a 5-cycle graph, C5. Ref: http://mathworld.wolfram.com/CycleGraph.html""" graph = build_cycle_graph(5) return graph
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from typing import Optional from typing import List def get_git_log_command( verbose: bool, from_commit: Optional[str] = None, to_commit: Optional[str] = None, is_helm_chart: bool = True, ) -> List[str]: """ Get git command to run for the current repo from the current folder (which is the pack...
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import logging def xcorr(a, b, ds): """ :param a: x1 :param b: x2 :param ds: sampling rate :return: corrs, lags """ S = len(a) a_norm = (a - np.mean(a)) / np.std(a) b_norm = (b - np.mean(b)) / np.std(b) corrs = np.correlate(a_norm, b_norm / S, 'full') lags_half = np.arang...
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def gt_comparison(): """>: Greater than operator.""" class _Comparable: def __gt__(self, other): return 'big' in other return _Comparable() > 'big' and "masperpiece"
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def internal_server_error(error): """ Handles unexpected server error with 500_SERVER_ERROR """ message = str(error) app.logger.error(message) return ( jsonify( status=status.HTTP_500_INTERNAL_SERVER_ERROR, error="Internal Server Error", message=message, ...
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def minimum_separation(lon1, lat1, lon2, lat2, unit='deg'): """Compute minimum distance of each (lon1, lat1) to any (lon2, lat2). Parameters ---------- lon1, lat1 : array_like Primary coordinates of interest lon2, lat2 : array_like Counterpart coordinate array unit : {'deg', 'ra...
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def tau_references_json(): """Show the modifiers of the Tau protein.""" rows = get_tau_references(graph) return jsonify([ dict(zip(('type', 'reference'), row)) for row in rows ])
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import types def _attempt_nocopy_reshape(context, builder, aryty, ary, newnd, newshape, newstrides): """ Call into Numba_attempt_nocopy_reshape() for the given array type and instance, and the specified new shape. The array pointed to by *newstrides* will be filled up if s...
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def get_aim_matrix(origin, target, up_vector=om.MGlobal.upAxis()): """Return the aim matrix aiming from the origin to the target. The aim vector will be the Y Axis Args: origin(om.MPoint): origin point target(om.MPoint): target point """ aim_vector = om.MVector(target - origin).nor...
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def new_event_loop(): """Return a new event loop.""" return Loop()
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import math def execCopySourceTarget(TargetSkinCluster, SourceSkinCluster, TargetSelection, SourceSelection, smoothValue=1, progressBar=None): """ copy skincluster information from one vertex group to another based on closest proximity :param TargetSkinCluster: the skincluster to gather information from ...
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import socket def get_ipv4_for_hostname(hostname, static_mappings={}): """Translate a host name to IPv4 address format. The IPv4 address is returned as a string, such as '100.50.200.5'. If the host name is an IPv4 address itself it is returned unchanged. You can provide a dictionnary with static map...
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def handler(event, context): """ Gets credentials by email address or domain. :param event: object containing 'email' or 'domain' string but not both :return: a list of credentials in the form "<email address>:<password>" """ domain: str = event.get('domain') email: str = event.get('email'...
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def create_subgraph_for_op(input_shape: tuple, op_string: str) -> tf.Graph: """ Create and return the TensorFlow session graph for a single Op. A well known input named "aimet_input" and a well known output named "aimet_identity" are used along with the Op for the purposes of traversing the graph for th...
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def configure_audit_decorator(graph): """ Configure the audit decorator. Example Usage: @graph.audit def login(username, password): ... """ include_request_body = int(graph.config.audit.include_request_body) include_response_body = int(graph.config.audit.include_res...
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def read_geopackage(file_path, layer): """Read file as GeoDataFrame.""" src = fiona.open(file_path, "r", layer=layer) rows = [] columns = list(src.schema["properties"].keys()) + ["geometry"] dtypes = normalize_fiona_schema(src.schema)["properties"] crs = src.crs for feature in src: #...
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from io import StringIO def getpalette(data): """ Helper to transform a StringIO object into a palette """ palette = [] string = StringIO(data) while True: try: palette.append(unpack("<4B", string.read(4))) except StructError: break return palette
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def parse_privs(privs, db): """ Parse privilege string to determine permissions for database db. Format: privileges[/privileges/...] Where: privileges := DATABASE_PRIVILEGES[,DATABASE_PRIVILEGES,...] | TABLE_NAME:TABLE_PRIVILEGES[,TABLE_PRIVILEGES,...] """ if privs...
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def season_ts(ds, var, season): """ calculate timeseries of seasonal averages Args: ds (xarray.Dataset): dataset var (str): variable to calculate season (str): 'DJF', 'MAM', 'JJA', 'SON' """ ## set months outside of season to nan ds_season = ds.where(ds['time.season'] == season)...
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def _create_sub_sequences(sequence, th=1): """ create list of perfect subsequence """ out = [] if not sequence: return out sub_sequence = [sequence[0]] sequence = sequence[1:] while sequence: p1 = sub_sequence[-1] _next = None for i, p2 in enumerate(sequence): ...
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import numpy import scipy def interpolate_contour( points: numpy.array, interval: float, method: str = 'linear' ) -> numpy.array: """ Calculate a set of points along an arbitrary polygon to enforce a regular interval between particles. :param points: array of x and y values of starting polygon :p...
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from typing import Union from typing import Callable import codecs import tqdm def augment_train_data_with_replacement(train_data: pd.DataFrame, replace_entity: str, synonym_func: Union[str, Callable], ...
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