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def get_IoU_from_matches(match_pred2gt, matched_classes, ovelaps): """ if given an image, claculate the IoU of the segments in the image :param match_pred2gt: maps index of predicted segment to index of ground truth segment :param matched_classes: maps index of predicted segment to class number :par...
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def id_queue(obs_list, prediction_url='http://plants.deep.ifca.es/api', shuffle=False): """ Returns generator of identifications via buffer. Therefore we perform the identification query for the nxt observation while the user is still observing the current information. """ print "Generating the ...
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def periodogram(x, nfft=None, fs=1): """Compute the periodogram of the given signal, with the given fft size. Parameters ---------- x : array-like input signal nfft : int size of the fft to compute the periodogram. If None (default), the length of the signal is used. if nfft...
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def handle_429(e): """Renders full error page for too many site queries""" html = render.html("429") client_addr = get_ipaddr() count_ratelimit.labels(e, client_addr).inc() logger.error(f"Error: {e}, Source: {client_addr}") return html, 429
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def url_path_join(*items): """ Make it easier to build url path by joining every arguments with a '/' character. Args: items (list): Path elements """ return "/".join([item.lstrip("/").rstrip("/") for item in items])
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def f_match (pattern, string, flags = None): """ Match function Args: pattern (string): regexp (pattern|/pattern/flags) string (string): tested string flags (int): regexp flage Return: boolean """ if build_regexp(pattern, flags).search(to_strin...
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def validate_epoch(val_loader, model, criterion, epoch, args): """Perform validation on the validation set""" batch_time = AverageMeter() losses = AverageMeter() top1 = AverageMeter() batch_time = AverageMeter() data_time = AverageMeter() # switch to evaluate mode model.eval() end = time.time() b...
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def utf8_german_fix( uglystring ): """ If your string contains ugly characters (like ü, ö, ä or ß) in your source file, run this string through here. This adds the German "Umlaute" to your string, making (ÄÖÜäöü߀) compatible for processing. \tprint( utf8_german_fix("ü߀") ) == ü߀ """ ...
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def subtends(a1, b1, a2, b2, units='radians'): """ Calculate the angle subtended by 2 positions on a sphere """ if units.lower() == 'degrees': a1 = radians(a1) b1 = radians(b1) a2 = radians(a2) b2 = radians(b2) x1 = cos(a1) * cos(b1) y1 = sin(a1) * cos(b1) z1 = sin(...
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import os import sys def get_pcgr_bin(): """Return abs path to e.g. conda/env/pcgr/bin """ return os.path.dirname(os.path.realpath(sys.executable))
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import inspect def get_args(obj): """Get a list of argument names for a callable.""" if inspect.isfunction(obj): return inspect.getargspec(obj).args elif inspect.ismethod(obj): return inspect.getargspec(obj).args[1:] elif inspect.isclass(obj): return inspect.getargspec(obj.__in...
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import os import json def get_assumed_role_creds(service_name, assume_role_policy): """ Returns a new assume role object with AccessID, SecretKey and SessionToken :param service_name: :param assume_role_policy: """ sts_client = boto3.client("sts", region_name=os.environ["AWS_REGION"])...
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def name_value(obj): """ Convert (key, value) pairs to HAR format. """ return [{"name": k, "value": v} for k, v in obj.items()]
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def get_ids(id_type): """Get unique article identifiers from the dataset. Parameters ---------- id_type : str Dataframe column name, e.g. 'pubmed_id', 'pmcid', 'doi'. Returns ------- list of str List of unique identifiers in the dataset, e.g. all unique PMCIDs. """ ...
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def get_items_info(request): """Get a collection of person objects""" result = request.dbsession.query(Item).all() results=[] for c in result: results.append({'id':c.id, 'markup':c.markup}) return results
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def _test(value, *args, **keywargs): """ A function that exists for test purposes. >>> checks = [ ... '3, 6, min=1, max=3, test=list(a, b, c)', ... '3', ... '3, 6', ... '3,', ... 'min=1, test="a b c"', ... 'min=5, test="a, b, c"', ... 'min=1, max=...
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from typing import Union from typing import Sequence from typing import Any from typing import Tuple def plot_chromaticity_diagram_CIE1976UCS( cmfs: Union[ MultiSpectralDistributions, str, Sequence[Union[MultiSpectralDistributions, str]], ] = "CIE 1931 2 Degree Standard Observer", ...
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def generateFilter(targetType, left = False): """Generate filter function for loaded plugins""" def filter(plugins): for pi in plugins: if left: if not pi.isThisType(targetType): plugins.remove(pi) logger.info("Plugin: {} is filtered out by predefined filter"\ .format(pi.namePlugin())) ...
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import os def load_vel_map(component="u"): """ Loads all mean streamwise velocity profiles. Returns a `DataFrame` with `z_H` as the index and `y_R` as columns. """ # Define columns in set raw data file columns = dict(u=1, v=2, w=3) sets_dir = os.path.join("postProcessing", "sets") late...
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import requests import json import sys import pprint def check_int(es_url, es_index, hash_id): """Query for interferograms with specified input hash ID.""" query = { "query":{ "bool":{ "must":[ {"term":{"metadata.input_hash_id":hash_id}}, ...
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def format_sample_case(s: str) -> str: """format_sample_case convert a string s to a good form as a sample case. A good form means that, it use LR instead of CRLF, it has the trailing newline, and it has no superfluous whitespaces. """ if not s.strip(): return '' lines = s.strip().splitlin...
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from typing import Any import json def replace_floats_with_decimals(obj: Any, round_digits: int = 9) -> Any: """Convert all instances in `obj` of `float` to `Decimal`. Args: obj: Input object. round_digits: Rounding precision of `Decimal` values. Returns: Input `obj` with all `fl...
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def _calc_range_mixed_data_columns(data, observation, dtypes): """ Return range for each numeric column, 0 for categorical variables """ _, cols = data.shape result = np.zeros(cols) for col in range(cols): if np.issubdtype(dtypes[col], np.number): result[col] = max(max(data[:, col])...
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import os def get_from_hdfs(file_hdfs): """ compatible to HDFS path or local path """ if file_hdfs.startswith('hdfs'): file_local = os.path.split(file_hdfs)[-1] if os.path.exists(file_local): print(f"rm existing {file_local}") os.system(f"rm {file_local}") ...
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def search(request): """ Display search form/results for events (using distance-based search). Template: events/search.html Context: form - ``anthill.events.forms.SearchForm`` event_list - events in the near future searched - True/Fal...
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def logout() -> Response: """Logout route. Logs the current user out. :return: A redirect to the landing page. """ name: str = current_user.name logout_user() flash(f'User "{name}" logged out.', 'info') url: str = url_for('root') output: Response = redirect(url) return output
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def load_room(name): """ There is a potential security problem here. Who gets to set name? Can that expose a variable? """ return globals().get(name)
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def call_ipt_func(ipt_id: str, function_name: str, source, **kwargs): """Processes an image/wrapper with an IPT using an function like syntax :param ipt_id: :param function_name: :param source: :param kwargs: :return: """ cls_ = get_ipt_class(ipt_id) if cls_ is not None: item...
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def is_running(service): """ Checks if service is running using sysdmanager library. :param service: Service to be checked. :return: Information if service is running or not. """ manager = get_manager() if manager.is_active(service + ".service"): return 1 return 0
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def smoothen(data, kernel): """Convolve data with odd-size kernel, with boundary handling.""" n, = kernel.shape assert n % 2 == 1 m = (n-1) // 2 # pad input data k = m//2 + 1 data_padded = np.concatenate([ np.full(m, data[:k].mean()), data, np.full(m, data[-k:].mean(...
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def find_node_name(node_id, g): """Go through the attributes and find the node with the given name""" return g.node[node_id]["label"]
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from operator import xor def aes_cbc_decrypt(data, key, iv): """ Decrypt with aes in CBC mode @param {int[]} data cipher @param {int[]} key 16/24/32-Byte cipher key @param {int[]} iv 16-Byte IV @returns {int[]} decrypted data """ expanded_key = key_ex...
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from typing import Dict from typing import Counter def score_concepts(merged_graph: AMR, counts: tuple, concept_alignments: Dict[str, str]) -> Counter: """ Calculate TF-IDF counts for each node(concept) in `merged_graph` according to their aligned words. Parameters: merged_graph(AMR): Graph which...
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def timestamp_to_double(sparkdf): """ Utility function to cast columns of type 'timestamp' to type 'double.' """ for dtype in sparkdf.dtypes: if dtype[1] == 'timestamp': sparkdf = sparkdf.withColumn(dtype[0], col(dtype[0]).cast(DoubleType())) return sparkdf
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from typing import List import time def get_entrez_id_from_organism_full_name_batch(organism_full_names: List[str]) -> List[str]: """Retrieves the Entrez numeric ID of the given organisms. This numeric identifier is neccessary for BLAST and NCBI TAXONOMY searches. This function uses Biopython functio...
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def gunzip(content): """ Decompression is applied if the first to bytes matches with the gzip magic numbers. There is once chance in 65536 that a file that is not gzipped will be ungzipped. """ if len(content) == 0: raise DecompressionError('File contains zero bytes.') gzip_magic_numbers = [ 0x1f...
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def get_rigid_elements_with_node_ids(model: BDF, node_ids): """ Gets the series of rigid elements that use specific nodes Parameters ---------- node_ids : List[int] the node ids to check Returns ------- rbes : List[int] the set of self.rigid_elements """ try: ...
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def genFileBase(f): """ Given a filename, generate a safe 'base' name for HTML and PNG filenames """ baseName = w2res.getBaseMulti(f) baseName = "R"+w2res.removeGDBCharacters(baseName) return baseName
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import time def retrieve_results_average(query, index, k=10, verbose=False, tfidf=False): """ (NOT USED) Given a query, return most similar papers from the specified FAISS index. Also prunes the resulting papers by filtering out papers whose authors do not have tags. This uses the average paper repres...
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import base64 def _json_custom_hook(d): """Serialize NumPy arrays.""" if isinstance(d, dict) and '__ndarray__' in d: data = base64.b64decode(d['__ndarray__']) return np.frombuffer(data, d['dtype']).reshape(d['shape']) elif isinstance(d, dict) and '__qbytearray__' in d: return _deco...
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def basic_pyxll_function_3(x): """docstrings appear as help text in Excel""" return x
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import torch def log_mean_exp(x, dim=1): """ log(1/k * sum(exp(x))): this normalizes x. @param x: PyTorch.Tensor samples from gaussian @param dim: integer (default: 1) which dimension to take the mean over @return: PyTorch.Tensor mean of x """ m =...
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def get_shot_end_frame(shot_node): """ Returns the end frame of the given shot :param shot_node: str :return: int """ return maya.cmds.getAttr('{}.endFrame'.format(shot_node))
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def is_integer(): """ Generates a validator to validate if the value of a property is an integer. """ def wrapper(obj, prop): value = getattr(obj, prop) if value is None: return (True, None) try: int(value) except ValueError: return...
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def int_inputs(n): """An error handling function to get integer inputs from the user""" while True: try: option = int(input(Fore.LIGHTCYAN_EX + "\n >>> ")) if option not in range(1, n + 1): i_print_r("Invalid Entry :( Please Try Again.") contin...
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def gen_binder_rst(fname, binder_conf): """Generate the RST + link for the Binder badge. Parameters ---------- fname: str The path to the `.py` file for which a Binder badge will be generated. binder_conf: dict | None If a dictionary it must have the following keys: 'url': ...
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from datetime import datetime def downgrade(): """Make refresh token field not nullable.""" bind = op.get_bind() session = Session(bind=bind) class CRUDMixin(object): """Mixin that adds convenience methods for CRUD (create, read, update, delete) ops.""" @classmethod def creat...
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def height(grid): """Gets the height of the grid (stored in row-major order).""" return len(grid)
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import uuid import json def test_blank_index_upload_missing_indexd_credentials_unable_to_load_json( app, client, auth_client, encoded_creds_jwt, user_client ): """ test BlankIndex upload call but unable to load json with a ValueError """ class MockArboristResponse: """ Mock respon...
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import urllib def parameterize(url): """Encode input URL as POST parameter. url: a string which is the URL to be passed to ur1.ca service. Returns the POST parameter constructed from the URL. """ return urllib.urlencode({"longurl": url})
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def sum_ints(*args, **kwargs): """ This function is contrived to illustrate args in a function. """ print args return sum(args)
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def set_have_mods(have_mods: bool) -> None: """set_have_mods(have_mods: bool) -> None (internal) """ return None
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def user_required(handler): """ Decorator for checking if there's a user associated with the current session. Will also fail if there's no session present. """ def check_login(self, *args, **kwargs): """ If handler has no login_url specified invoke a 403 error...
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def student_editapplication(request): """View allowing a student to edit and/or submit their saved application""" FSJ_user = get_FSJ_user(request.user.username) award_id = request.GET.get('award_id', '') try: award = Award.objects.get(awardid = award_id) application = Applicati...
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import glob import os import warnings def create_and_calibrate(servers=None, nserver=8, npipeline_per_server=4, cal_directory='/home/ubuntu/mmanders'): """ Wraper to create a new BeamPointingControl instance and load bandpass calibration data from a directory. """ # Create the instance co...
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def get_haps_from_variants(translation_table_path: str, vcf_data: str, sample_id: str, solver: str = "CBC", config_path: str = None, phased = False) -> tuple: """ Same as get_haps_from_vcf, but bypasses the VCF file so that you can provide formatted vari...
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import torch def _populate_number_fields(data_dict): """Returns a dict with the number fields N_NODE, N_EDGE filled in. The N_NODE field is filled if the graph contains a non-`None` NODES field; otherwise, it is set to 0. The N_EDGE field is filled if the graph contains a non-`None` RECEIVERS field; otherw...
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import logging def to_graph(e, recursive=True, verbose=False, arg_values=None, arg_types=None, partial_types=None): """Compile a Python entity into equivalent TensorFlow code. Currently supported entities: * functions * classes Classes a...
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def to_frame(nc): """ Convert netCDF4 dataset to pandas frames """ s_params = ["time", "bmnum", "noise.sky", "tfreq", "scan", "nrang", "intt.sc", "intt.us", "mppul", "scnum"] v_params = ["v", "w_l", "gflg", "p_l", "slist", "gflg_conv", "gflg_kde", "v_mad", "cluster_tag", "ribiero_gflg"] _dict_ =...
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def gather_grade_info(fctx, flow_session, answer_visits): """ :returns: a :class:`GradeInfo` """ all_page_data = (FlowPageData.objects .filter( flow_session=flow_session, ordinal__isnull=False) .order_by("ordinal")) points = 0 provisional...
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import re def numericalSort(value): """ 複数ファイルの入力の際、ファイル名を昇順に並べる。 Input ------ value : 読み込みたいファイルへのパス Output ------ parts : ファイル中の数字 """ numbers = re.compile(r'(\d+)') parts = numbers.split(value) parts[1::2] = map(int, parts[1::2]) return parts
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def add_markings(obj, marking, selectors): """ Append a granular marking to the granular_markings collection. The method makes a best-effort attempt to distinguish between a marking-definition or language granular marking. Args: obj: An SDO or SRO object. marking: identifier or list...
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def add_to_list(str_to_add, dns_names): """ This will add a string to the dns_names array if it does not exist. It will then return the index of the string within the Array """ if str_to_add not in dns_names: dns_names.append(str_to_add) return dns_names.index(str_to_add)
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def check_icmp_path(sniffer, path, nodes, icmp_type = ipv6.ICMP_ECHO_REQUEST): """Verify icmp message is forwarded along the path. """ len_path = len(path) # Verify icmp message is forwarded to the next node of the path. for i in range(0, len_path): node_msg = sniffer.get_messages_sent_by(p...
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def ping(): """Determine if the container is working and healthy. In this sample container, we declare it healthy if we can load the model successfully.""" health = scoring_service.get_model() is not None # You can insert a health check here status = 200 if health else 404 return flask.Response(re...
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def cyber_pose_to_carla_transform(cyber_pose): """ Convert a Cyber pose a carla transform. """ return carla.Transform( cyber_point_to_carla_location(cyber_pose.position), cyber_quaternion_to_carla_rotation(cyber_pose.orientation))
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def _is_predator_testcase(testcase): """Return bool and error message for whether this testcase is applicable to predator or not.""" if build_manager.is_custom_binary(): return False, 'Not applicable to custom binaries.' if testcase.regression != 'NA': if not testcase.regression: return False, 'N...
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def _a_ij_Aij_Dij2(A): """A term that appears in the ASE of Kendall's tau and Somers' D.""" # See `somersd` References [2] section 4: Modified ASEs to test the null hypothesis... m, n = A.shape count = 0 for i in range(m): for j in range(n): count += A[i, j]*(_Aij(A, i, j) - _Dij...
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import requests from bs4 import BeautifulSoup def getWeekHouseMsg(): """ 获取一周的房产信息 :return: """ response = requests.get(url=week_host, headers=headers).text soup = BeautifulSoup(response, 'lxml') house_raw = soup.select('div[class=xfjj]') # 二手房均价 second_hand_price = house_raw[0].select('.f36')[0].string # 二...
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def _match(x, y): """Returns an array of the positions of (first) matches of y in x This is similar to R's `match` or Matlab's `[Lia, Locb] = ismember` See https://stackoverflow.com/a/8251757 This assumes that all values in y are in x, but no check is made Parameters --------...
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import os import logging import requests import tarfile def download_mnist_tfrecords() -> str: """ Return the path of a directory with the MNIST dataset in TFRecord format. The dataset will be downloaded into WORK_DIRECTORY, if it is not already present. """ if not tf.gfile.Exists(WORK_DIRECTO...
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def buildMeanAndCovMatFromRow(row): """ Build a covariance matrix from a row Paramters --------- row : astropy Table row Entries: {X, Y, Z, U, V, W, dX, dY, ..., cXY, cXZ, ...} Return ------ cov_mat : [6,6] numpy array Diagonal elements are dX^2, dY^2, ... Off-d...
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import inspect def getNumArgs(obj): """Return the number of "normal" arguments a callable object takes.""" sig = inspect.signature(obj) return sum(1 for p in sig.parameters.values() if p.kind == inspect.Parameter.POSITIONAL_ONLY or p.kind == inspect.Parameter.POSITIONAL_OR_KE...
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def min_distance_from_point(vec, p): """ Minimial distance between a single point and each point along a vector (in N dimensions) """ return np.apply_along_axis(np.linalg.norm, 1, vec - p).min()
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def create_environment(env_config): """Creates an simple sequential testing environment.""" if env_config['num_candidates'] < 4: raise ValueError('num_candidates must be at least 4.') SimpleSequentialResponse.MAX_DOC_ID = env_config['num_candidates'] - 1 user_model = SimpleSequentialUserModel( env_co...
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def nb_to_python(nb_path): """convert notebook to python script""" exporter = python.PythonExporter() output, resources = exporter.from_filename(nb_path) return output
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def add(data_source: DataSource) -> DataSource: """ Add a new data source to AuroraX Args: data_source: the data source to add (note: it must be a fully-defined DataSource object) Returns: the newly created data source Raises: pyaurorax.exceptions.AuroraXMaxRet...
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from typing import get_args import sys def initialize(): """Do all necessary actions before input loop starts""" isbench = False # udp,register,server,room arg_dict = get_args() if "udp" in arg_dict and arg_dict["udp"].isdigit(): StateHolder.udp_listen_port = int(arg_dict["udp"]) else:...
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def read_text(file, num=False): """ Read from txt [file]. If [num], then data is numerical data and will need to convert each string to an int. """ with open(file,'r') as f: data = f.read().splitlines() if num: data = [int(i) for i in data] return data
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def interpolate_rbf(x, y, z, x_val, y_val, z_val): """Radial basis function interpolation. Parameters ---------- x : np.ndarray x-faces or x-edges of a mesh y : np.ndarray y-faces or y-edges of a mesh z : np.ndarray z-faces or z-edges of a mesh x_val : np.ndarray ...
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def svm_loss_naive(W, X, y, reg): """ Structured SVM loss function, naive implementation (with loops). Inputs have dimension D, there are C classes, and we operate on minibatches of N examples. Inputs: - W: A numpy array of shape (D, C) containing weights. - X: A numpy array of shape (N, D) containing a...
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def get_batch(image_files, width, height, mode='RGB'): """ Get a single batch of data as an NumPy array """ data_batch = np.array( [get_image(sample_file, width, height, mode) for sample_file in image_files]).astype(np.float32) # Make sure the images are in 4 dimensions if len(data_batc...
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def ScriptProvenanceConst_get_decorator_type_name(): """ScriptProvenanceConst_get_decorator_type_name() -> std::string""" return _RMF.ScriptProvenanceConst_get_decorator_type_name()
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import os def load(dataset, trainset_name = ''): """Load training sets ====== Add a new dataset to graph learning by saving the data and labels. Parameters ---------- dataset : string Name of dataset. trainset_name : string (optional), default='' A modifier to uniquely...
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def parse_annotation(parameter): """ Tries to parse an internal annotation referencing ``Client`` or ``InteractionEvent``. Parameters ---------- parameter : ``Parameter`` The respective parameter's representation. Returns ------- choices : `None` or `dict` of (`str` or ...
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def search(request): """ Search results """ query = request.GET.get('query') res = MsVerse.objects.filter(raw_text__icontains=query).order_by( 'verse__chapter__book__num', 'verse__chapter__num', 'verse__num', 'hand__manuscript__liste_id') return default_response...
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from typing import Tuple from typing import List def _compare(pair: Tuple[List[int], List[int]]) -> float: """Just a wrapper for fingerprints.compare, that unpack its first argument""" return fingerprints.compare(*pair)
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import operator import re def output_onto(conll_tokens, markstart_dict, markend_dict, file_name): """ Outputs analysis results in OntoNotes .coref XML format :param conll_tokens: List of all processed ParsedToken objects in the document :param markstart_dict: Dictionary from markable starting token ids to Markab...
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def vertical() -> np.array: """Returns the Jones matrix for a horizontal linear polarizer.""" return np.asarray([[0, 0], [0, 1]])
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def resource_id(d, i, r): """Get resource id from meter reading. :param d: Report definition :type: d: Dict :param i: Item definition :type i: Dict :param r: Meter reading :type r: usage.reading.Reading """ return _get_reading_attr(r, 'resource_id')
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import logging def create_provider_router(neutron_client, project_id): """Create the provider router. :param neutron_client: Authenticated neutronclient :type neutron_client: neutronclient.Client object :param project_id: Project ID :type project_id: string :returns: Router object :rtype:...
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from typing import List import shlex def split(string: str) -> List[str]: """ Split string (which represents a command) into a list. This allows us to just copy/paste command prefixes without having to define a full list. """ return shlex.split(string)
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def compute_prevalence_percentage(df, groupby_fields): """ base: ['topic_id', 'year'] """ # agg_df = df.groupby(groupby_fields)['topic_weight'].sum().reset_index() # groupby_fields.append('topic_weight') # wide_df = agg_df[groupby_fields].copy().pivot(index=groupby_fields[0],columns=groupby_fiel...
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from datetime import datetime def get_token_history(address) -> pd.DataFrame: """Get info about token historical transactions. [Source: Ethplorer] Parameters ---------- address: str Token e.g. 0xf3db5fa2c66b7af3eb0c0b782510816cbe4813b8 Returns ------- pd.DataFrame: DataFr...
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def top1_accuracy(pred, y): """Main evaluation metric.""" return sum(pred.argmax(axis=1) == y) / float(len(y))
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from typing import Optional import os def lookup_default_client_credentials_json() -> Optional[str]: """ Try to look up the default Json file containing the Mix client credentials :return: str or None, the path to the default Json file, or none if not found """ path_client_cred_json = os.path.rea...
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import requests def dividend_history (symbol): """ This function returns the dividend historical data of the seed stock symbol. Args: symbol (:obj:`str`, required): 3 digits name of the desired stock. """ data = requests.get('https://apipubaws.tcbs.com.vn/tcanalysis/v1/company/{}/dividend-...
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def reftype_to_pipelines(reftype, cal_ver=None, context=None): """Given `exp_type` and `cal_ver` and `context`, locate the appropriate SYSTEM CRDSCFG reference file and determine the sequence of pipeline .cfgs required to process that exp_type. """ context = _get_missing_context(context) cal_ve...
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def levy(x: np.ndarray): """ The function is usually evaluated on the hypercube xi ∈ [-10, 10], for all i = 1, …, d. :param x: c(x1, x2, ..., xd) :return: the y-value (float) """ w = 1 + (x - 1) / 4 # same shape as x term1 = (np.sin(np.pi * w.T[0])) ** 2 term3 = (w.T[-1] - 1) ** 2 * (1...
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import warnings def _select_programme(state, audio_programme=None): """Select an audioProgramme to render. If audio_programme_id is provided, use that to make the selection, otherwise select the only audioProgramme, or the one with the lowest id. Parameters: state (_ItemSelectionState): 'adm...
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