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import skimage.transform def subdivide_array(shape: tuple[int, ...], count: int) -> np.ndarray: """ Create indices for subdivison of an array in a number of blocks. If 'count' is divisible by the product of 'shape', the amount of cells in each block will be equal. If 'count' is not divisible, the amo...
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def __hidden(element: Element) -> bool: """Element is hidden""" return element.hidden
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from typing import List def average(runs: List[TrecRun], depth: int = None, k: int = None): """Perform fusion by averaging on a list of ``TrecRun`` objects. Parameters ---------- runs : List[TrecRun] List of ``TrecRun`` objects. depth : int Maximum number of results from each inpu...
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def rpca(table: biom.Table, rank: int=3, min_sample_count: int=500, min_feature_count: int=10, iterations: int=5) -> ( skbio.OrdinationResults, skbio.DistanceMatrix): """ Runs RPCA with an rclr preprocessing step""" # filter sample to min depth def samp...
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def obsweight(obs_id, ra, dec, iq, cc, bg, wv, elev_const, i_wins, band, user_prior, AM, HA, AZ, latitude, prog_comp, obs_comp, skyiq, skycc, skybg, skywv, winddir, windvel, wra, verbose = False, debug = False): """ Calculate observation weights. Parameters ---------- obs_id : string...
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def create_latency_update_runner( *, start_after: float = 10, interval: float = 60 * 5, target: str = f"http://127.0.0.1:{Config['port']}", method: str = "GET", header: dict[str, str] = None, ) -> Thread: """ Creates a thread which automatically updates the latency displayed on statuspag...
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import os def check_for_finished_jobs(input_dirs): """ Checks each experiment directory for a stdout.txt file and a opt_acts_0.npy action file. Returns a list of experiment directories that are missing either of these. """ finished_jobs, failed_jobs = [], [] for exp_dir in input_dirs: ...
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def comp_periodicity(self): """Compute the periodicity factor of the lamination Parameters ---------- self : LamSlotWind A LamSlotWind object Returns ------- per_a : int Number of spatial periodicities of the lamination is_antiper_a : bool True if an spatial ant...
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def _attack(params): """ Test the target URL with requests. Intended for use with multiprocessing. """ print 'Bee %i is joining the swarm.' % params['i'] try: client = paramiko.SSHClient() client.set_missing_host_key_policy(paramiko.AutoAddPolicy()) if params['gnuplot_...
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def extract_entity_ids(hass, service): """ Helper method to extract a list of entity ids from a service call. Will convert group entity ids to the entity ids it represents. """ entity_ids = [] if service.data and ATTR_ENTITY_ID in service.data: group = get_component('group') # ...
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def submit_batch(batches): """Submit transaction batches using default client URL""" batch_list = create_batch_list(batches) client = RestClient(sawtooth_rest_host()) return client.send_batches(batch_list)
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def tp53(): """Create a TP53 fixture.""" params = { 'concept_id': 'ensembl:ENSG00000141510', 'symbol': 'TP53', 'label': 'tumor protein p53', 'previous_symbols': [], 'aliases': [], 'xrefs': ['hgnc:11998'], 'symbol_status': None, 'location_annotation...
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from sopel.tests import pytest_plugin def get_example_test(*args, **kwargs): """Get a function that calls ``tested_func`` with fake wrapper and trigger. .. deprecated:: 7.1 This is now part of the Sopel pytest plugin at :mod:`sopel.tests.pytest_plugin`. """ return pytest_plugin.get_...
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def _epoch_ctrl(eva=None, stage="game"): """ :param eva: :param stage: must be one of "game", "confirm", "retrain" :return: """ if stage == "game": cur_epoch = NAS_CONFIG['eva']['search_epoch'] elif stage == "confirm": cur_epoch = NAS_CONFIG['eva']['confirm_epoch'] elif ...
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import sys def _renamed_class_loader(module_name, class_name): """Return a class object for class class_name, loaded from module_name. The trick here is we look in _CLASS_RENAME_MAP before doing the loading. So even if the class has moved to a different module since when this pickled object was crea...
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from typing import Sequence from typing import Any def list_namespaced_applications( kube_client: KubeClient, namespace: str, application_types: Sequence[Any] ) -> Sequence[Application]: """ List all applications in the namespace of the types from application_types. Only applications with complete set...
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def _train_step(model: _FlaxPenguinModel, optimizer: flax.optim.OptimizerDef, inputs: _InputBatch, labels: _LabelBatch): """Train for a single step, given a batch of inputs and labels.""" def loss_fn(params): logits = model.apply({'params': params}, inputs) loss = _categorical_cross_entropy...
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from distributed import Executor def dsubmit(*a, args=(), kwargs=None, rtn="", **kw): """Returns a distributed submission context manager, DSubmitter(), with a new executor instance. Parameters ---------- args : Sequence of str, optional A tuple of argument names for DSubmitter. kwarg...
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import os def get_folder(cfg, experiment, check = False): """Returns the experiment folder. Creates it if necessary.""" folder = get_raw_folder(cfg) utils.checkFolder(folder) # add experiment subfolder folder = os.path.join(folder, get_name('exp', experiment)) if check: utils.checkFol...
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def isNumber(n): """retorna true si 'n' es un numero""" return all(n[i] in "0123456789" for i in range(len(n)))
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def import_data(): """Import data Parameters ---------- none Returns ------- df_listings: DataFrame df_prices: DataFrame df: DataFrame """ # Import listings data url_listings = "http://data.insideairbnb.com/italy/emilia-romagna/bologna/2021-12-17/data/listings....
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def cmap_to_mayavi(colormap: Colormap) -> np.ndarray: """ Convert a matplotlib colormap to mayavi format. Args: colormap: A matplotlib colormap object. Returns: The equivalent mayavi colormap, as a (255, 4) numpy array. """ return (colormap(np.linspace(0, 1, 255)) * 255).astype...
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def show_task(project_id): """shows the tasks of a project that are stored in the database, given the project_id""" return render_template("project_tasks.html", project=Project.query.filter_by(project_id=project_id).first(), tasks=Task.query.filter_by(project_id=project_id).all())
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def get_fig_pv_combined(pv: PV, example_index: int): """ Create a combined plot 1. Plot the pv intensity in time 2. Plot the pv intensity with coords and animate in time """ traces_pv_intensity_in_time = get_trace_all_pv_systems( pv=pv, example_index=example_index, center_system=False ...
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def data_frame_empty_typed(column_types: dict): """Creates and empty DataFrame with dtypes for each column given by the dictionary. Arguments: column_types (dict): A key, dtype pairs Returns: DataFrame: An empty dataframe with the typed columns """ df = pd.DataFrame() for n...
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def are_periodic_neighbors(world_size, a, b): """ Given the world size and two ranks, return wether two ranks are periodic neighbours (i.e. they are in opposite borders of the grid). """ nrows, ncols = get_grid_size(world_size) pos = get_node_pos(world_size, False) if (ncols > 2) and (pos[a...
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def file_content_to_list(file): """ Append each line of the file to a theèlist :param file: The file to transform into a theèlist :return: The the list """ lst = [] with open(file) as file_alias: for line in file_alias: lst.append(line) return lst
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def ceph_health_check_base(namespace=None): """ Exec `ceph health` cmd on tools pod to determine health of cluster. Args: namespace (str): Namespace of OCS (default: config.ENV_DATA['cluster_namespace']) Raises: CephHealthException: If the ceph health returned is not HEALTH...
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from typing import Sequence def _hash_layer(layer: Sequence[Hash32]) -> Sequence[Hash32]: """Calculate the layer on top of another one.""" return tuple(_calc_parent_hash(left, right) for left, right in partition(2, layer))
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import os def RNN_classification(dataset, filename, save_model=False): """ Classification of data with a recurrent neural network, followed by plotting of ROC and PR curves. Parameters --- dataset: the input dataset, containing training and test split data, and the corresponding labels...
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def get_sample_names(exprs_fname, start, end): """Loads PANDA input expression matrix to extract sample names from TSV. Args: exprs_fname (str): PANDA input expression matrix TSV start (int): start index (1-based inclusive) end (end): end index (1-based inclusive) Returns: ...
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def get_users(uid=1, dl=0): """Method to get county coordinators emails.""" try: emails = [] sql = QUERY[uid] df = run_query(sql) data = df.values.tolist() for dt in data: val = dt[0] if dl > 0: val = {dt[0]: dt[1]} emai...
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def make_function(match): """Returns a Function JSON Object""" return { 'type': 'f', #f for function 'name': match.group('name'), 'return_type': match.group('return_type'), 'parameters': get_parameters(match.group('parameters')) }
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import random def Decimal_to_Binary(x : str) -> str: """ It Converts the Given Decimal Number into Binary Number System of Base `2` and takes input in `str` form Args: x `(str)` : It is the Positional Argument by order which stores the Decimal Input from User. Returns (str): The ...
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import numpy import sys def find_blobs(image, mask, border=0, maxblobs=300, maxblobsize=100, minblobsize=0, maxmoment=None, method="central", summary=False): """ find blobs with particular features in a map """ shape = image.shape ### create copy of mask since it will be modified now tmpmask = numpy.array(mask...
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def register_and_center_via_speckles(cube_sci, cube_ref=None, AlignmentIterations = 5, gammaval = 1, min_spat_freq = 0.5, max_spat_freq = 3, fwhm = 8., debug = False , NegFit = True, recenter_median = True, subframesize = 151, imlib='opencv',interpolation='bilinear'): """ Registers frames based on the median speckl...
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import torch def sample_tv_signal( n, j_min=10, j_max=20, min_dist=5, bound=5, min_height=0.2, n_seed=None, t_seed=None, ): """ Creates a random piecewise constant signal. Creates a piecewise constant signal of shape (n,) with a random number of "jumps" (discontinuities). ...
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def float32_variable_storage_getter(getter, name, shape=None, dtype=None, initializer=None, regularizer=None, trainable=True, *args, **kwargs): """Custom variable getter that forces trainable variables to be stored in float32 precision a...
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def _squad_em(pred_data, ref_data): """EM score for reading comprehension task""" em_score = eval_exact_match_score(pred_data, ref_data) return em_score
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def add_slash(text: str): """returns the same text with slash at the end""" return text + '/'
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from typing import Tuple def parse_response(text: str) -> Tuple[bool, str]: """ Parses a CommCare HQ Submission API response. Returns (True, success_message) on success, or (False, failure_message) on failure. >>> text = ''' ... <OpenRosaResponse xmlns="http://openrosa.org/http/response"> ...
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def launch(context, service_id, subscription, every=EVERY): """ Initialize the module. """ return MeasRepUe(context=context, service_id=service_id, every=every, subscription=subscription)
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import re def __detect_str_type(data) -> str: """ :column_type str :rtype str """ r = re.search("[^=]+=[^&]*&*", data) # application/x-www-form-urlencoded pattern if r: return "application/x-www-form-urlencoded" else: return "plain/text"
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def iterable(x): """Check if the input is iterable, stolen from numpy.iterable()""" try: iter(x) return True except: return False
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def conv2d_input_grad_wrap(input_size, weight, grad_output, stride, padding, dilation, groups): """Wrap of conv2d_input_grad for pytorch.""" input_size = tuple(i.item() for i in input_size) stride = tuple(_x.item() for _x in stride) padding = tuple(_x.item() for _x in padding)...
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def sort_key(entry): """Get the value for a key""" return entry[ds]
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def estimation_error_rate(y_true, y_pred): """ Compute estimation error rate score Estimation error rate represents the mean absolute error computed between true and predicted labels, expressed as a percentage, i.e. mae / range(y_true). It is defined as follows: eer = mae / range(y_true) m...
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def ldns_resolver_new_frm_fp(*args): """LDNS buffer.""" return _ldns.ldns_resolver_new_frm_fp(*args)
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from typing import Tuple from typing import List import asyncio from pathlib import Path async def _populate_downloads(executor, dataset: Dataset, destination: str, prefix: str, recursive: bool) -> Tuple[List[ObjectState], int]: """function to concurrently check if the list of files ...
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def requires_roles(roles): """ Assert the user has one of the required roles. :param list roles: the list of role names to verify :raises freshmaker.errors.Forbidden: if the user is not in the role """ def wrapper(f): @wraps(f) def wrapped(*args, **kwargs): if any(us...
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import random def cull_gammas(x, y, mRNA_to_miRNA: np.ndarray) -> np.ndarray: """ Removes gammas (sets them to 0) in such a way that the network remains connected. Currently very hacky: uses DFS to ensure connectivity. Would work better using a min-cut algorithm. """ legal = False while not le...
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def primality_test(n: PositiveInt) -> bool: """Determine whether a number is a prime.""" # Optimization 1: Test from 2 to sqrt(n) only, since a factor will appear twice when we test from 2 to n. # Optimization 2: Do not test even numbers except 2, since all even numbers is divisible by 2. # Optimizati...
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import requests import os import urllib import cgi import tempfile def download_data(urls): """Download the binaries from a URL and return the destination filename Retry downloading if either server or connection errors occur on a SSL connection urls: list of several urls (mirror servers) or single u...
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def diffusion_coeff(t, sigma): """Compute the diffusion coefficient of our SDE. Args: t: A vector of time steps. sigma: The $\sigma$ in our SDE. Returns: The vector of diffusion coefficients. """ return sigma**t
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def get_step_chart(simulation_objects): """Get the step chart of the container levels.""" fig = plt.figure(figsize=(14, 7)) for obj in simulation_objects: df = get_log_dataframe(obj) container_list = obj.container.container_list for container in container_list: if hasatt...
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def byte_xor(b: bytes, i: int) -> bytes: """ Calculate 'b XOR i' """ return int(bytes_to_int(b) ^ i).to_bytes(len(b), 'big')
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def get_file_name(f_size): """ Returns file name whose filesize correstponds with the files size passed in as parameter. """ for x,(z,y) in movie_dict.items(): if z == f_size : return x
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from typing import OrderedDict def get_form_errors(form): """ Django form errors do not obey natural field order, this template tag returns non-field and field-specific errors :param form: the form instance """ return { 'non_field': form.non_field_errors(), 'field_specific': Or...
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def query_db(db, query, args=(), one=False): """ Queries the database and returns a list of dictionaries. https://flask-doc.readthedocs.org/en/latest/patterns/sqlite3.html#easy-querying """ with db.cursor() as cur: logger.debug(f"Query: {query}") cur.execute(query, args) rv ...
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def is_valid_url(url: str) -> bool: """Evaluate whether or not a URL is acceptible for retrieval.""" return current_session().is_valid_url(url)
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def plot_poly(x,y,degree, *args): """ Plot the data with given degree of polynomial. Example: plot_poly(x,y,3) plot_poly(x,y,3,'x','y','title') Returns: p Usage: x_value = 100 p(x_value) gives the polynomial fit of x_value """ plt.figure(figsize=(12,8)) pl...
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import json import logging def get_kube_res_by_name(namespace, kube_res, res_name): """ A Wrapper of kubectl which parses resources from json :param res_name: The name of the resource :type res_name: str :param namespace: :type namespace: str :param kube_res: statefullset, deployment ... ...
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import torch import logging def __graph_initialization(module: MaxPooling, x: torch.Tensor, pos: torch.Tensor, edge_index: Adj = None) -> Data: """Graph initialization for asynchronous update. Both the input as well as the output graph have to be stored, in order to avoid repeated computation. The input ...
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def comment_exists_in_blogpost(func): """Checks to make sure the comment exists or renders a 404""" def wrapper(self, blog_id, comment_id, *args, **kwargs): blog_post = BlogPost.get_by_id(int(blog_id), parent=BLOG_KEY) int_comment_id = int(comment_id) comment = Comment.get_by_id(int_comm...
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import torch def log_sum_exp(tensor, dim=-1): """ Safe log-sum-exp operation """ return torch.logsumexp(tensor, dim)
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from typing import List from typing import Dict def get_vrf_group(files_list: List[str]) -> Dict[str, List[str]]: """ Group files by VRF name. """ groups = {} for filename_path in files_list: filename_path = filename_path.replace("\\", "/") # print(filename_path) if "show" i...
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def get_legislator_political_positions_by_slug(slug): """ Get just this legislator's political positions https://github.com/INN/maine-legislature/issues/82 """ copy = get_copy() political_positions = {} leg_id = get_legislator_id_by_slug(slug) for row in copy['position_political']: ...
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def config_bgp_neighbor_properties(dut, local_asn, neighbor_ip, family=None, mode=None, **kwargs): """ :param dut: :param local_asn: :param neighbor_ip: :param family: :param mode: :param kwargs: :return: """ st.log("Configuring the BGP neighbor properties ..") properties = ...
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def scr_total( bscr, scr_op ): """ This function simply adds the SCR_Op to the BSCR """ return bscr + scr_op
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def _eval_bernstein_dd(x, fvals): """Evaluate d-dimensional bernstein polynomial given grid of valuesv experimental Parameters ---------- x : array_like Values at which to evaluate the Bernstein polynomial. fvals : ndarray Grid values of coefficients for Bernstein polynomial ba...
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import re import six def load_tff_dat(fname, processor=None): """Read a tff.dat or dff.dat files generated by tff command Parameters ---------- fname : file or str File, or filename processor: callable or None A final output processor, by default a tuple of tuples is returned ...
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from typing import List def is_luhn(string: str) -> bool: """ Perform Luhn validation on input string Algorithm: * Double every other digit starting from 2nd last digit. * Subtract 9 if number is greater than 9. * Sum the numbers * >>> test_cases = [79927398710, 79927398711, 7992739871...
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import os from datetime import datetime import tempfile def create(type_id='', path=''): """Create a document or directory""" if g.level < 2: return abort(401) inherited_level = 1 type_item=None path = path[:-1] if path.endswith('/') else path if type_id: type_item = mongo.db....
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from typing import Optional def latest_date_for_day( start_date: datetime_.date, end_date: datetime_.date, day_of_month: int ) -> Optional[datetime_.date]: """ Given an integer day of a month, return the latest date with that day of the month, bounded by the supplied start_date and end_date. If no suc...
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import sqlite3 def handle_artist(command): """ Process the artist command """ conn = sqlite3.connect('myjazzalbums.sqlite') cur = conn.cursor() if command [-1] == "?": artist_name = command[6:-1].strip().title() else: artist_name = command[6:].strip().title() if ar...
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def generate_lda_distance(df, model, dictionary): """ 计算 LDA 主题模型距离 """ def compute_topic_distances(row): q1_bow = dictionary.doc2bow(row['cleaned_question1'].split()) q2_bow = dictionary.doc2bow(row['cleaned_question2'].split()) q1_topic_vec = np.array(model.get_document_topics...
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def build_get_request(base, service_name, operation_name=None, params=None): """ Builds a get request out of a service/operation and optional params. operation_name may be left blank if going to a custom url. """ urlarr = [base, service_name] if operation_name is not None: urlarr.append(...
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import tempfile import os import subprocess import shutil def rsys2graph(rsys, fname, output_dir=None, prog=None, save=False, **kwargs): """ Convenience function to call `rsys2dot` and write output to file and render the graph Parameters ---------- rsys : ReactionSystem fname : str ...
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import os def upload_file(target_filepath, metadata, access_token, datatypes=None, base_url=OH_BASE_URL, remote_file_info=None, project_member_id=None, max_bytes=MAX_FILE_DEFAULT): """ Upload a file from a local filepath using the "direct upload" API. To learn more about th...
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def dense(n_prev, n, *, activation="relu"): """Creates a dense, fully-connected layer. Args: n_prev: number of inputs from the previous layer n: number of nodes for this layer activation: activation function for this layer, one of {sigmoid, tanh, relu} """ unit = _nn...
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from typing import Tuple import json def load_poses(pose_path: str, skip_params: bool) -> Tuple[tf.Tensor, tf.Tensor, float]: """Loads poses from file.""" with open(pose_path) as pose_file: pose_dict = json.load(pose_file) poses = [] parameters = [] for pose in pose_dict['frames']: ...
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import glob def patternMatch(pattern, dir='./'): """ :pattern: A file pattern to match the desired output. Input to a glob, so use traditional unix wildcarding. :dir: The directory to search. :returns: list of matching files in the target directory """ files = [] files = glob.glob(dir+pa...
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def add_histogram_summary(tensor, name=None, prefix=None): """Adds a histogram summary for the given tensor. Args: tensor: A variable or op tensor. name: The optional name for the summary. prefix: An optional prefix for the summary names. Returns: A scalar `Tensor` of type `string` whose content...
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def tasks_page(): """ Tasks and completions page: tasks.html """ project = project_get_or_create() label_config = open(project.config['label_config']).read() # load editor config from XML task_ids = project.get_tasks().keys() completed_at = project.get_completed_at(task_ids) num_workers= ...
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def cors_middleware( *, allow_all: bool = False, origins: UrlCollection = None, urls: UrlCollection = None, expose_headers: StrCollection = None, allow_headers: StrCollection = DEFAULT_ALLOW_HEADERS, allow_methods: StrCollection = DEFAULT_ALLOW_METHODS, allow_credentials: bool = False, ...
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def trim_matrix(mat, i): """ Trims a matrix by deleting both a row and a column in a matrix (warning: inefficient) :param mat: matrix :param i: row index :return: """ mat = mat.copy() mat = mat.tocsr() delete_row_csr(mat, i) mat = mat.transpose() mat = mat.tocsr() delete...
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def removeBottomMargin(image, padding): """Remove the bottom margin of width = padding from an image Args: image (PIL.Image.Image): A PIL Image padding (int): The padding in pixels Returns: PIL.Image.Image: A PIL Image """ return image.crop((0, 0, image.width, image.height - padding))
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def num(val): """Return val as an int, float, or bool, depending on what it most closely resembles.""" if isinstance(val, (float, int)): return val elif val in ('True', 'False'): return val == 'True' elif isinstance(val, str): try: return int(val) except ...
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def get_alerts_request(has_share_mode=None, resolution=None, agent_id=None, host_name=None, condition_id=None, limit=None, offset=None, sort=None, min_id=None, event_at=None, alert_id=None, matched_at=None, reported_at=None, source=None): """ returns the response ...
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def log2_graph(x): """Log2'nin Uygulanması. TF'nin yerel bir uygulaması yoktur.""" return tf.log(x) / tf.log(2.0)
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import os import json import time from datetime import datetime def train_cnn(): """Step 0: load sentences, labels, and training parameters""" create_test = params["create_test"] # load train, cat and and other path configurations from parameter file train_file = params['train_file'] # cat_file ...
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def readUniformElementTopologyFromXdmf(elementTopologyName,Topology,hdf5,topologyid2name,topology2nodes): """ Read xmdf element topology information when there are uniform elements in the mesh Type of element given by elementTopologyName Heavy data stored in hdf5 topologyid2name -- lookup for number...
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def ranknode( data, out_path, entry_point, node_num, topk_path=60, prob_thres=0.4, num_sel_node=1 ): """Rank node according to pearson correlation """ # region select X nodes from path path_node_count = defaultdict(int) # select only first topk paths with prob >= threshold for i in out_path[...
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def fib(id): """ id: index (zero-based) returns: Fibonacci number for the given index id: 0 1 2 3 4 5 6 7 Fib: 0 1 1 2 3 5 8 13 """ if id < 0: return 0 if id == 0: return 0 if id == 1: return 1 first = 0 second = 1 counter = 2 fib_num = 0...
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def montecarlo_coupled(model,T,func,delta,voxel,ode_method,sample_rate, min_samples,max_samples,output_file): """ Obtains statistics of model using a coupled monte carlo esimator. """ M0 = 10 Mmax = 10e5 samples = np.zeros((Mmax,model.dimension)) event_count = 0. standdev = np.zeros(Mmax...
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def plot_trajectory_by_hour( move_data, start_hour, end_hour, id_=None, legend=True, n_rows=None, lat_origin=None, lon_origin=None, zoom_start=12, base_map=None, tile=TILES[0], save_as_html=False, color="black", filename="plot_trajectory_by_hour.html", ): """ ...
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def adaptive_approximate_multi_index_sparse_grid(fun, variable, options): """ A light weight wrapper for building multi-index approximations. Some checks are made to ensure certain required options have been provided. See :func:`pyapprox.approximate.adaptive_approximate_sparse_grid` for more detail...
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def conv_from_weights(x, weights, bias=None, padding=True, name=""): """ weights is a numpy array """ k = C.parameter(shape=weights.shape, init=weights) y = C.convolution(k, x, auto_padding=[False, padding, padding]) if bias: b = C.parameter(shape=bias.shape, init=bias) y = y + bias ...
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def GenerateOutputList(context, resource_list): """Returns list of outputs generated by this module.""" vm_res = resource_list[0] outputs = [{ 'name': 'internalIP', 'value': '$(ref.%s.networkInterfaces[0].networkIP)' % vm_res['name'], }] external_ips = context.properties.get(EXTERNAL_IPS, []) if...
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def execute_job(request): """ 执行磁盘容量查询作业 """ biz_id = request.POST.get('biz_id') ip = request.POST.get('ip') job_id = request.POST.get('job_id') # 调用作业平台API,或者作业执行实例ID client = get_client_by_request(request) # client.set_bk_api_ver('v2') result, job_instance_id = get_job_instan...
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