kejian/codesearchnet-python-rebalanced · Datasets at Hugging Face

text stringlengths 75 104k	code_tokens list	avg_line_len float64 7.91 980	score float64 0 0.18
def populate(self, compound_dict=None, x=1, y=1, z=1): """Expand lattice and create compound from lattice. populate will expand lattice based on user input. The user must also pass in a dictionary that contains the keys that exist in the basis_dict. The corresponding Compound will be th...	[ "def", "populate", "(", "self", ",", "compound_dict", "=", "None", ",", "x", "=", "1", ",", "y", "=", "1", ",", "z", "=", "1", ")", ":", "error_dict", "=", "{", "0", ":", "'X'", ",", "1", ":", "'Y'", ",", "2", ":", "'Z'", "}", "try", ":", ...	42.440945	0.001088
def rename(self, file_id, new_filename, session=None): """Renames the stored file with the specified file_id. For example:: my_db = MongoClient().test fs = GridFSBucket(my_db) # Get _id of file to rename file_id = fs.upload_from_stream("test_file", "data I want ...	[ "def", "rename", "(", "self", ",", "file_id", ",", "new_filename", ",", "session", "=", "None", ")", ":", "result", "=", "self", ".", "_files", ".", "update_one", "(", "{", "\"_id\"", ":", "file_id", "}", ",", "{", "\"$set\"", ":", "{", "\"filename\"",...	39.785714	0.001753
def Alt_Fn(self, n, dl = 0): """Alt + Fn1~12 组合键 """ self.Delay(dl) self.keyboard.press_key(self.keyboard.alt_key) self.keyboard.tap_key(self.keyboard.function_keys[n]) self.keyboard.release_key(self.keyboard.alt_key)	[ "def", "Alt_Fn", "(", "self", ",", "n", ",", "dl", "=", "0", ")", ":", "self", ".", "Delay", "(", "dl", ")", "self", ".", "keyboard", ".", "press_key", "(", "self", ".", "keyboard", ".", "alt_key", ")", "self", ".", "keyboard", ".", "tap_key", "(...	37	0.015094
def get_values(self, idx): """ Return the variable values at the given indices """ if isinstance(idx, list): idx = np.array(idx, dtype=int) return self._data[:, idx]	[ "def", "get_values", "(", "self", ",", "idx", ")", ":", "if", "isinstance", "(", "idx", ",", "list", ")", ":", "idx", "=", "np", ".", "array", "(", "idx", ",", "dtype", "=", "int", ")", "return", "self", ".", "_data", "[", ":", ",", "idx", "]" ...	26.375	0.009174
def trim(self): """ Trims data based on propensity score to create a subsample with better covariate balance. The default cutoff value is set to 0.1. To set a custom cutoff value, modify the object attribute named cutoff directly. This method should only be executed after the propensity score has bee...	[ "def", "trim", "(", "self", ")", ":", "if", "0", "<", "self", ".", "cutoff", "<=", "0.5", ":", "pscore", "=", "self", ".", "raw_data", "[", "'pscore'", "]", "keep", "=", "(", "pscore", ">=", "self", ".", "cutoff", ")", "&", "(", "pscore", "<=", ...	30.214286	0.030928
def set(self, uri, content): """ Cache node content for uri. No return. """ key, value = self._prepare_node(uri, content) self._set(key, value)	[ "def", "set", "(", "self", ",", "uri", ",", "content", ")", ":", "key", ",", "value", "=", "self", ".", "_prepare_node", "(", "uri", ",", "content", ")", "self", ".", "_set", "(", "key", ",", "value", ")" ]	26.428571	0.010471
def locus(args): """ %prog locus bamfile Extract selected locus from a list of TREDs for validation, and run lobSTR. """ from jcvi.formats.sam import get_minibam # See `Format-lobSTR-database.ipynb` for a list of TREDs for validation INCLUDE = ["HD", "SBMA", "SCA1", "SCA2", "SCA8", "SCA17",...	[ "def", "locus", "(", "args", ")", ":", "from", "jcvi", ".", "formats", ".", "sam", "import", "get_minibam", "# See `Format-lobSTR-database.ipynb` for a list of TREDs for validation", "INCLUDE", "=", "[", "\"HD\"", ",", "\"SBMA\"", ",", "\"SCA1\"", ",", "\"SCA2\"", "...	28.824561	0.000589
def job_delete(job_id): '''Deletes the job together with its logs and metadata. :param job_id: An identifier for the job :type job_id: string :statuscode 200: no error :statuscode 403: not authorized to delete the job :statuscode 404: the job could not be found :statuscode 409: an error oc...	[ "def", "job_delete", "(", "job_id", ")", ":", "conn", "=", "db", ".", "ENGINE", ".", "connect", "(", ")", "job", "=", "db", ".", "get_job", "(", "job_id", ")", "if", "not", "job", ":", "return", "json", ".", "dumps", "(", "{", "'error'", ":", "'j...	32.857143	0.001056
def infer_call_result(self, caller, context=None): """infer what a class is returning when called""" if ( self.is_subtype_of("%s.type" % (BUILTINS,), context) and len(caller.args) == 3 ): result = self._infer_type_call(caller, context) yield result...	[ "def", "infer_call_result", "(", "self", ",", "caller", ",", "context", "=", "None", ")", ":", "if", "(", "self", ".", "is_subtype_of", "(", "\"%s.type\"", "%", "(", "BUILTINS", ",", ")", ",", "context", ")", "and", "len", "(", "caller", ".", "args", ...	40.375	0.002016
def to_df(self, variables=None, format='wide', fillna=np.nan, **kwargs): ''' Merge variables into a single pandas DataFrame. Args: variables (list): Optional list of column names to retain; if None, all variables are returned. format (str): Whether to return a Da...	[ "def", "to_df", "(", "self", ",", "variables", "=", "None", ",", "format", "=", "'wide'", ",", "fillna", "=", "np", ".", "nan", ",", "", "", "kwargs", ")", ":", "if", "variables", "is", "None", ":", "variables", "=", "list", "(", "self", ".", "...	43.317073	0.001101
def _validate(self, data, owner=None): """Validate input data in returning an empty list if true. :param data: data to validate with this schema. :param Schema owner: schema owner. :raises: Exception if the data is not validated. """ if isinstance(data, DynamicValue): ...	[ "def", "_validate", "(", "self", ",", "data", ",", "owner", "=", "None", ")", ":", "if", "isinstance", "(", "data", ",", "DynamicValue", ")", ":", "data", "=", "data", "(", ")", "if", "data", "is", "None", "and", "not", "self", ".", "nullable", ":"...	35.075	0.001387
def to_int(d, key, default_to_zero=False, default=None, required=True): """Pull a value from the dict and convert to int :param default_to_zero: If the value is None or empty, treat it as zero :param default: If the value is missing in the dict use this default """ value = d.get(key) or default ...	[ "def", "to_int", "(", "d", ",", "key", ",", "default_to_zero", "=", "False", ",", "default", "=", "None", ",", "required", "=", "True", ")", ":", "value", "=", "d", ".", "get", "(", "key", ")", "or", "default", "if", "(", "value", "in", "[", "\"\...	34.533333	0.00188
def is_reversible(T, mu=None, tol=1e-15): r""" checks whether T is reversible in terms of given stationary distribution. If no distribution is given, it will be calculated out of T. performs follwing check: :math:`\pi_i P_{ij} = \pi_j P_{ji} Parameters ---------- T : scipy.sparse matrix...	[ "def", "is_reversible", "(", "T", ",", "mu", "=", "None", ",", "tol", "=", "1e-15", ")", ":", "if", "not", "is_transition_matrix", "(", "T", ",", "tol", ")", ":", "raise", "ValueError", "(", "\"given matrix is not a valid transition matrix.\"", ")", "T", "="...	25.771429	0.001068
def _getbins(): """ gets the right version of vsearch, muscle, and smalt depending on linux vs osx """ # Return error if system is 32-bit arch. # This is straight from the python docs: # https://docs.python.org/2/library/platform.html#cross-platform if not _sys.maxsize > 2**32: _sys.exi...	[ "def", "_getbins", "(", ")", ":", "# Return error if system is 32-bit arch.", "# This is straight from the python docs:", "# https://docs.python.org/2/library/platform.html#cross-platform", "if", "not", "_sys", ".", "maxsize", ">", "2", "**", "32", ":", "_sys", ".", "exit", ...	39.5375	0.002159
def run_process_with_timeout( args, filename_in=None, filename_out=None, filename_err=None, cwd=None, timeout=None, sudo=None): """Execute the specified process but within a certain timeout. @param args: the actuall process. This should be a list of strin...	[ "def", "run_process_with_timeout", "(", "args", ",", "filename_in", "=", "None", ",", "filename_out", "=", "None", ",", "filename_err", "=", "None", ",", "cwd", "=", "None", ",", "timeout", "=", "None", ",", "sudo", "=", "None", ")", ":", "if", "timeout"...	37.950355	0.000182
def updatecache(filename, module_globals=None): """Update a cache entry and return its list of lines. If something's wrong, print a message, discard the cache entry, and return an empty list.""" if filename in cache: del cache[filename] if not filename or (filename.startswith('<') and filen...	[ "def", "updatecache", "(", "filename", ",", "module_globals", "=", "None", ")", ":", "if", "filename", "in", "cache", ":", "del", "cache", "[", "filename", "]", "if", "not", "filename", "or", "(", "filename", ".", "startswith", "(", "'<'", ")", "and", ...	34.161765	0.000418
def user_can_edit_news(user): """ Check if the user has permission to edit any of the registered NewsItem types. """ newsitem_models = [model.get_newsitem_model() for model in NEWSINDEX_MODEL_CLASSES] if user.is_active and user.is_superuser: # admin can edit news ...	[ "def", "user_can_edit_news", "(", "user", ")", ":", "newsitem_models", "=", "[", "model", ".", "get_newsitem_model", "(", ")", "for", "model", "in", "NEWSINDEX_MODEL_CLASSES", "]", "if", "user", ".", "is_active", "and", "user", ".", "is_superuser", ":", "# adm...	30.944444	0.001742
def get_markdown_levels(lines, levels=set((0, 1, 2, 3, 4, 5, 6))): r""" Return a list of 2-tuples with a level integer for the heading levels >>> get_markdown_levels('paragraph \n##bad\n# hello\n ### world\n') [(0, 'paragraph '), (2, 'bad'), (0, '# hello'), (3, 'world')] >>> get_markdown_levels('- bul...	[ "def", "get_markdown_levels", "(", "lines", ",", "levels", "=", "set", "(", "(", "0", ",", "1", ",", "2", ",", "3", ",", "4", ",", "5", ",", "6", ")", ")", ")", ":", "if", "isinstance", "(", "levels", ",", "(", "int", ",", "float", ",", "base...	39.612903	0.000795
def group_by_interpolate(df, x=None, y=None, group_by=None, number_of_points=100, tidy=False, individual_x_cols=False, header_name="Unit", dx=10.0, generate_new_x=True): """Use this for generating wide format from long (tidy) data""" ti...	[ "def", "group_by_interpolate", "(", "df", ",", "x", "=", "None", ",", "y", "=", "None", ",", "group_by", "=", "None", ",", "number_of_points", "=", "100", ",", "tidy", "=", "False", ",", "individual_x_cols", "=", "False", ",", "header_name", "=", "\"Unit...	30.515625	0.000496
def syncItems(self, client=None, clientId=None): """ Returns an instance of :class:`plexapi.sync.SyncList` for specified client. Parameters: client (:class:`~plexapi.myplex.MyPlexDevice`): a client to query SyncItems for. clientId (str): an identifier of a client to ...	[ "def", "syncItems", "(", "self", ",", "client", "=", "None", ",", "clientId", "=", "None", ")", ":", "if", "client", ":", "clientId", "=", "client", ".", "clientIdentifier", "elif", "clientId", "is", "None", ":", "clientId", "=", "X_PLEX_IDENTIFIER", "data...	43.166667	0.008816
def norm_squared(x, Mx=None, inner_product=ip_euclid): '''Compute the norm^2 w.r.t. to a given scalar product.''' assert(len(x.shape) == 2) if Mx is None: rho = inner_product(x, x) else: assert(len(Mx.shape) == 2) rho = inner_product(x, Mx) if rho.shape == (1, 1): if...	[ "def", "norm_squared", "(", "x", ",", "Mx", "=", "None", ",", "inner_product", "=", "ip_euclid", ")", ":", "assert", "(", "len", "(", "x", ".", "shape", ")", "==", "2", ")", "if", "Mx", "is", "None", ":", "rho", "=", "inner_product", "(", "x", ",...	36.733333	0.00177
def remote_is_append_blob(self): # type: (Descriptor) -> bool """Remote destination is an Azure Append Blob :param Descriptor self: this :rtype: bool :return: remote is an Azure Append Blob """ return self.entity.mode == blobxfer.models.azure.StorageModes.Append	[ "def", "remote_is_append_blob", "(", "self", ")", ":", "# type: (Descriptor) -> bool", "return", "self", ".", "entity", ".", "mode", "==", "blobxfer", ".", "models", ".", "azure", ".", "StorageModes", ".", "Append" ]	38.875	0.009434
def _with_loc(f: W) -> W: """Wrap a reader function in a decorator to supply line and column information along with relevant forms.""" @functools.wraps(f) def with_lineno_and_col(ctx): meta = lmap.map( {READER_LINE_KW: ctx.reader.line, READER_COL_KW: ctx.reader.col} ) ...	[ "def", "_with_loc", "(", "f", ":", "W", ")", "->", "W", ":", "@", "functools", ".", "wraps", "(", "f", ")", "def", "with_lineno_and_col", "(", "ctx", ")", ":", "meta", "=", "lmap", ".", "map", "(", "{", "READER_LINE_KW", ":", "ctx", ".", "reader", ...	29.75	0.002037
def cleave_sequence(input_layer, unroll=None): """Cleaves a tensor into a sequence, this is the inverse of squash. Recurrent methods unroll across an array of Tensors with each one being a timestep. This cleaves the first dim so that each it is an array of Tensors. It is the inverse of squash_sequence. Arg...	[ "def", "cleave_sequence", "(", "input_layer", ",", "unroll", "=", "None", ")", ":", "if", "unroll", "is", "None", ":", "raise", "ValueError", "(", "'You must set unroll either here or in the defaults.'", ")", "shape", "=", "input_layer", ".", "shape", "if", "shape...	34	0.010534
def items(self, raw = False): """Like `items` for dicts but with a `raw` option # Parameters _raw_ : `optional [bool]` > Default `False`, if `True` the `KeysView` contains the raw values as the values # Returns `KeysView` > The key-value pairs of the record ...	[ "def", "items", "(", "self", ",", "raw", "=", "False", ")", ":", "if", "raw", ":", "return", "self", ".", "_fieldDict", ".", "items", "(", ")", "else", ":", "return", "collections", ".", "abc", ".", "Mapping", ".", "items", "(", "self", ")" ]	23.210526	0.010893
def make_series(x, args, *kwargs): """Coerce a provided array/sequence/generator into a pandas.Series object FIXME: Deal with CSR, COO, DOK and other sparse matrices like this: pd.Series(csr.toarray()[:,0]) or, if csr.shape[1] == 2 pd.Series(csr.toarray()[:,1], index=csr.toarray()[:,0])...	[ "def", "make_series", "(", "x", ",", "", "args", ",", "", "*", "kwargs", ")", ":", "if", "isinstance", "(", "x", ",", "pd", ".", "Series", ")", ":", "return", "x", "try", ":", "if", "len", "(", "args", ")", "==", "1", "and", "'pk'", "not", ...	35.576923	0.002104
def from_web_element(self, web_element): """ Store reference to a WebElement instance representing the element on the DOM. Use it when an instance of WebElement has already been created (e.g. as the result of find_element) and you want to create a UIComponent out of it withou...	[ "def", "from_web_element", "(", "self", ",", "web_element", ")", ":", "if", "isinstance", "(", "web_element", ",", "WebElement", ")", "is", "not", "True", ":", "raise", "TypeError", "(", "\"web_element parameter is not of type WebElement.\"", ")", "self", ".", "_w...	55.181818	0.008104
def merge_paths(paths, weights=None): """ Zip together sorted lists. >>> paths = [[1, 2, 3], [1, 3, 4], [2, 4, 5]] >>> G = merge_paths(paths) >>> nx.topological_sort(G) [1, 2, 3, 4, 5] >>> paths = [[1, 2, 3, 4], [1, 2, 3, 2, 4]] >>> G = merge_paths(paths, weights=(1, 2)) >>> nx.topo...	[ "def", "merge_paths", "(", "paths", ",", "weights", "=", "None", ")", ":", "G", "=", "make_paths", "(", "paths", ",", "weights", "=", "weights", ")", "G", "=", "reduce_paths", "(", "G", ")", "return", "G" ]	26.5625	0.002273
def Tethering_unbind(self, port): """ Function path: Tethering.unbind Domain: Tethering Method name: unbind Parameters: Required arguments: 'port' (type: integer) -> Port number to unbind. No return value. Description: Request browser port unbinding. """ assert isinstance(port, (in...	[ "def", "Tethering_unbind", "(", "self", ",", "port", ")", ":", "assert", "isinstance", "(", "port", ",", "(", "int", ",", ")", ")", ",", "\"Argument 'port' must be of type '['int']'. Received type: '%s'\"", "%", "type", "(", "port", ")", "subdom_funcs", "=", "se...	27.5	0.048828
def lint(fix_imports): """ Run flake8. """ from glob import glob from subprocess import call # FIXME: should support passing these in an option skip = [ 'ansible', 'db', 'flask_sessions', 'node_modules', 'requirements', ] root_files = glob('*....	[ "def", "lint", "(", "fix_imports", ")", ":", "from", "glob", "import", "glob", "from", "subprocess", "import", "call", "# FIXME: should support passing these in an option", "skip", "=", "[", "'ansible'", ",", "'db'", ",", "'flask_sessions'", ",", "'node_modules'", "...	26.866667	0.001198
def eaSimpleConverge(population, toolbox, cxpb, mutpb, ngen, stats=None, halloffame=None, callback=None, verbose=True): """This algorithm reproduce the simplest evolutionary algorithm as presented in chapter 7 of [Back2000]_. Modified to allow checking if there is no change for ngen, a...	[ "def", "eaSimpleConverge", "(", "population", ",", "toolbox", ",", "cxpb", ",", "mutpb", ",", "ngen", ",", "stats", "=", "None", ",", "halloffame", "=", "None", ",", "callback", "=", "None", ",", "verbose", "=", "True", ")", ":", "# Evaluate the individual...	36.253968	0.000426
def get_node(self, key): """Delegate to our current "value provider" for the node belonging to this key.""" if key in self.names: return self.values.get_member_node(key) if hasattr(self.values, 'get_member_node') else None return self.parent.get_node(key)	[ "def", "get_node", "(", "self", ",", "key", ")", ":", "if", "key", "in", "self", ".", "names", ":", "return", "self", ".", "values", ".", "get_member_node", "(", "key", ")", "if", "hasattr", "(", "self", ".", "values", ",", "'get_member_node'", ")", ...	53.8	0.014652
def _build_template_map(cookbook, cookbook_name, stencil): """Build a map of variables for this generated cookbook and stencil. Get template variables from stencil option values, adding the default ones like cookbook and cookbook year. """ template_map = { 'cookbook': {"name": cookbook_name...	[ "def", "_build_template_map", "(", "cookbook", ",", "cookbook_name", ",", "stencil", ")", ":", "template_map", "=", "{", "'cookbook'", ":", "{", "\"name\"", ":", "cookbook_name", "}", ",", "'options'", ":", "stencil", "[", "'options'", "]", "}", "# Cookbooks m...	39.608696	0.001072
def _cassists_any(self,dc,dt,dt2,name,nodiag=False,memlimit=-1): """Calculates probability of gene i regulating gene j with continuous anchor data assisted method, with multiple tests, by converting log likelihoods into probabilities per A for all B. dc: numpy.ndarray(nt,ns,dtype=ftype(='f4' by default)) Continuous ...	[ "def", "_cassists_any", "(", "self", ",", "dc", ",", "dt", ",", "dt2", ",", "name", ",", "nodiag", "=", "False", ",", "memlimit", "=", "-", "1", ")", ":", "if", "self", ".", "lib", "is", "None", ":", "raise", "ValueError", "(", "\"Not initialized.\""...	58.152778	0.046501
def serve(content): """Write content to a temp file and serve it in browser""" temp_folder = tempfile.gettempdir() temp_file_name = tempfile.gettempprefix() + str(uuid.uuid4()) + ".html" # Generate a file path with a random name in temporary dir temp_file_path = os.path.join(temp_folder, temp_file_n...	[ "def", "serve", "(", "content", ")", ":", "temp_folder", "=", "tempfile", ".", "gettempdir", "(", ")", "temp_file_name", "=", "tempfile", ".", "gettempprefix", "(", ")", "+", "str", "(", "uuid", ".", "uuid4", "(", ")", ")", "+", "\".html\"", "# Generate ...	33.1	0.001468
def getNetworkSummary(self, suid, verbose=None): """ Returns summary of collection containing the specified network. :param suid: Cytoscape Collection/Subnetwork SUID :param verbose: print more :returns: 200: successful operation """ surl=self.___url sv...	[ "def", "getNetworkSummary", "(", "self", ",", "suid", ",", "verbose", "=", "None", ")", ":", "surl", "=", "self", ".", "___url", "sv", "=", "surl", ".", "split", "(", "'/'", ")", "[", "-", "1", "]", "surl", "=", "surl", ".", "rstrip", "(", "sv", ...	33.733333	0.013462
def _derive_distinct_intervals(self, rows): """ Returns the set of distinct intervals in a row set. :param list[dict[str,T]] rows: The rows set. :rtype: set[(int,int)] """ ret = set() for row in rows: self._add_interval(ret, (row[self._key_start_date...	[ "def", "_derive_distinct_intervals", "(", "self", ",", "rows", ")", ":", "ret", "=", "set", "(", ")", "for", "row", "in", "rows", ":", "self", ".", "_add_interval", "(", "ret", ",", "(", "row", "[", "self", ".", "_key_start_date", "]", ",", "row", "[...	27.384615	0.008152
def dataCollector( self ): """ Returns a method or function that will be used to collect mime data \ for a list of tablewidgetitems. If set, the method should accept a \ single argument for a list of items and then return a QMimeData \ instance. :usage \|fro...	[ "def", "dataCollector", "(", "self", ")", ":", "func", "=", "None", "if", "(", "self", ".", "_dataCollectorRef", ")", ":", "func", "=", "self", ".", "_dataCollectorRef", "(", ")", "if", "(", "not", "func", ")", ":", "self", ".", "_dataCollectorRef", "=...	39.181818	0.010566
def _parse_contract(self, player_info): """ Parse the player's contract. Depending on the player's contract status, a contract table is located at the bottom of the stats page and includes player wages by season. If found, create a dictionary housing the wages by season. ...	[ "def", "_parse_contract", "(", "self", ",", "player_info", ")", ":", "contract", "=", "{", "}", "salary_table", "=", "player_info", "(", "'table#br-salaries'", ")", "for", "row", "in", "salary_table", "(", "'tbody tr'", ")", ".", "items", "(", ")", ":", "i...	37.193548	0.001691
def popitem(self): """Pop an item from the dict.""" try: item = dict.popitem(self) return (item[0], item[1][0]) except KeyError, e: raise BadRequestKeyError(str(e))	[ "def", "popitem", "(", "self", ")", ":", "try", ":", "item", "=", "dict", ".", "popitem", "(", "self", ")", "return", "(", "item", "[", "0", "]", ",", "item", "[", "1", "]", "[", "0", "]", ")", "except", "KeyError", ",", "e", ":", "raise", "B...	31.142857	0.008929
def min_interval(self,name, alpha=_alpha, kwargs): """ Calculate minimum interval for parameter. """ data = self.get(name, kwargs) return min_interval(data,alpha)	[ "def", "min_interval", "(", "self", ",", "name", ",", "alpha", "=", "_alpha", ",", "", "", "kwargs", ")", ":", "data", "=", "self", ".", "get", "(", "name", ",", "", "", "kwargs", ")", "return", "min_interval", "(", "data", ",", "alpha", ")" ]	33.666667	0.024155
def get_section_key_line(self, data, key, opt_extension=':'): """Get the next section line for a given key. :param data: the data to proceed :param key: the key :param opt_extension: an optional extension to delimit the opt value """ return super(GoogledocTools, self).g...	[ "def", "get_section_key_line", "(", "self", ",", "data", ",", "key", ",", "opt_extension", "=", "':'", ")", ":", "return", "super", "(", "GoogledocTools", ",", "self", ")", ".", "get_section_key_line", "(", "data", ",", "key", ",", "opt_extension", ")" ]	39.666667	0.008219
def get_directory_modules(directory): """Return a list containing tuples of e.g. ('__init__', 'example/import_test_project/__init__.py') """ if _local_modules and os.path.dirname(_local_modules[0][1]) == directory: return _local_modules if not os.path.isdir(directory): # example/imp...	[ "def", "get_directory_modules", "(", "directory", ")", ":", "if", "_local_modules", "and", "os", ".", "path", ".", "dirname", "(", "_local_modules", "[", "0", "]", "[", "1", "]", ")", "==", "directory", ":", "return", "_local_modules", "if", "not", "os", ...	33.857143	0.001368
def record(self, localStreamName, pathToFile, **kwargs): """ Records any inbound stream. The record command allows users to record a stream that may not yet exist. When a new stream is brought into the server, it is checked against a list of streams to be recorded. Streams can b...	[ "def", "record", "(", "self", ",", "localStreamName", ",", "pathToFile", ",", "", "", "kwargs", ")", ":", "return", "self", ".", "protocol", ".", "execute", "(", "'record'", ",", "localStreamName", "=", "localStreamName", ",", "pathToFile", "=", "pathToFil...	42.1	0.000929
def copy_from_server_to_local(dataset_remote_dir, dataset_local_dir, remote_fname, local_fname): """Copies a remote file locally. Parameters ---------- remote_fname : str Remote file to copy local_fname : str Path and name of the local copy to be made o...	[ "def", "copy_from_server_to_local", "(", "dataset_remote_dir", ",", "dataset_local_dir", ",", "remote_fname", ",", "local_fname", ")", ":", "log", ".", "debug", "(", "\"Copying file `{}` to a local directory `{}`.\"", ".", "format", "(", "remote_fname", ",", "dataset_loca...	34.622642	0.00053
def _auto_adjust_panel_spans(dashboard): '''Adjust panel spans to take up the available width. For each group of panels that would be laid out on the same level, scale up the unspecified panel spans to fill up the level. ''' for row in dashboard.get('rows', []): levels = [] current_...	[ "def", "_auto_adjust_panel_spans", "(", "dashboard", ")", ":", "for", "row", "in", "dashboard", ".", "get", "(", "'rows'", ",", "[", "]", ")", ":", "levels", "=", "[", "]", "current_level", "=", "[", "]", "levels", ".", "append", "(", "current_level", ...	43	0.000711
def status(self, obj): """Get the wifi interface status.""" reply = self._send_cmd_to_wpas(obj['name'], 'STATUS', True) result = reply.split('\n') status = '' for l in result: if l.startswith('wpa_state='): status = l[10:] return stat...	[ "def", "status", "(", "self", ",", "obj", ")", ":", "reply", "=", "self", ".", "_send_cmd_to_wpas", "(", "obj", "[", "'name'", "]", ",", "'STATUS'", ",", "True", ")", "result", "=", "reply", ".", "split", "(", "'\\n'", ")", "status", "=", "''", "fo...	30.272727	0.008746
def evergreen_video(self, kwargs): """Filter evergreen content to exclusively video content.""" eqs = self.evergreen(kwargs) eqs = eqs.filter(VideohubVideo()) return eqs	[ "def", "evergreen_video", "(", "self", ",", "", "", "kwargs", ")", ":", "eqs", "=", "self", ".", "evergreen", "(", "", "", "kwargs", ")", "eqs", "=", "eqs", ".", "filter", "(", "VideohubVideo", "(", ")", ")", "return", "eqs" ]	40.2	0.009756
def _get_resolved_alias_name(self, property_name, original_alias_value, intrinsics_resolver): """ Alias names can be supplied as an intrinsic function. This method tries to extract alias name from a reference to a parameter. If it cannot completely resolve (ie. if a complex intrinsic function wa...	[ "def", "_get_resolved_alias_name", "(", "self", ",", "property_name", ",", "original_alias_value", ",", "intrinsics_resolver", ")", ":", "# Try to resolve.", "resolved_alias_name", "=", "intrinsics_resolver", ".", "resolve_parameter_refs", "(", "original_alias_value", ")", ...	60.73913	0.008457
def read(path, attribute, **kwargs): ''' Read the given attributes on the given file/directory :param str path: The file to get attributes from :param str attribute: The attribute to read :param bool hex: Return the values with forced hexadecimal values :return: A string containing the value...	[ "def", "read", "(", "path", ",", "attribute", ",", "", "", "kwargs", ")", ":", "kwargs", "=", "salt", ".", "utils", ".", "args", ".", "clean_kwargs", "(", "", "", "kwargs", ")", "hex_", "=", "kwargs", ".", "pop", "(", "'hex'", ",", "False", "...	30.44186	0.00148
def get_network_by_id(self, network_id: int) -> Network: """Get a network from the database by its identifier.""" return self.session.query(Network).get(network_id)	[ "def", "get_network_by_id", "(", "self", ",", "network_id", ":", "int", ")", "->", "Network", ":", "return", "self", ".", "session", ".", "query", "(", "Network", ")", ".", "get", "(", "network_id", ")" ]	59.333333	0.011111
def _create_regexp_filter(regex): """Returns a boolean function that filters strings based on a regular exp. Args: regex: A string describing the regexp to use. Returns: A function taking a string and returns True if any of its substrings matches regex. """ # Warning: Note that python's regex lib...	[ "def", "_create_regexp_filter", "(", "regex", ")", ":", "# Warning: Note that python's regex library allows inputs that take", "# exponential time. Time-limiting it is difficult. When we move to", "# a true multi-tenant tensorboard server, the regexp implementation here", "# would need to be repla...	38.681818	0.012615
def _get_timestamp_tuple(ts): """ Internal method to get a timestamp tuple from a value. Handles input being a datetime or a Timestamp. """ if isinstance(ts, datetime.datetime): return Timestamp.from_datetime(ts).tuple() elif isinstance(ts, Timestamp): return ts raise...	[ "def", "_get_timestamp_tuple", "(", "ts", ")", ":", "if", "isinstance", "(", "ts", ",", "datetime", ".", "datetime", ")", ":", "return", "Timestamp", ".", "from_datetime", "(", "ts", ")", ".", "tuple", "(", ")", "elif", "isinstance", "(", "ts", ",", "T...	36.4	0.008043
def send(self, diffTo, diffFrom): """ Do a btrfs send. """ diff = self.toObj.diff(diffTo, diffFrom) self._open(self.butterStore.send(diff))	[ "def", "send", "(", "self", ",", "diffTo", ",", "diffFrom", ")", ":", "diff", "=", "self", ".", "toObj", ".", "diff", "(", "diffTo", ",", "diffFrom", ")", "self", ".", "_open", "(", "self", ".", "butterStore", ".", "send", "(", "diff", ")", ")" ]	40	0.01227
def write_tlv(data): """Convert a dict to TLV8 bytes.""" tlv = b'' for key, value in data.items(): tag = bytes([int(key)]) length = len(value) pos = 0 # A tag with length > 255 is added multiple times and concatenated into # one buffer when reading the TLV again. ...	[ "def", "write_tlv", "(", "data", ")", ":", "tlv", "=", "b''", "for", "key", ",", "value", "in", "data", ".", "items", "(", ")", ":", "tag", "=", "bytes", "(", "[", "int", "(", "key", ")", "]", ")", "length", "=", "len", "(", "value", ")", "po...	29.333333	0.001835
def parse(url): """Parses a search URL.""" config = {} url = urlparse.urlparse(url) # Remove query strings. path = url.path[1:] path = path.split('?', 2)[0] if url.scheme in SCHEMES: config["ENGINE"] = SCHEMES[url.scheme] if url.scheme in USES_URL: config["URL"] = ur...	[ "def", "parse", "(", "url", ")", ":", "config", "=", "{", "}", "url", "=", "urlparse", ".", "urlparse", "(", "url", ")", "# Remove query strings.", "path", "=", "url", ".", "path", "[", "1", ":", "]", "path", "=", "path", ".", "split", "(", "'?'", ...	21.121951	0.002208
def get_urls(self): """ Add the entries view to urls. """ urls = super(FormAdmin, self).get_urls() extra_urls = [ re_path("^(?P<form_id>\d+)/entries/$", self.admin_site.admin_view(self.entries_view), name="form_entries"), re...	[ "def", "get_urls", "(", "self", ")", ":", "urls", "=", "super", "(", "FormAdmin", ",", "self", ")", ".", "get_urls", "(", ")", "extra_urls", "=", "[", "re_path", "(", "\"^(?P<form_id>\\d+)/entries/$\"", ",", "self", ".", "admin_site", ".", "admin_view", "(...	42.05	0.016279
async def unlock(self, device): """ Unlock the device if not already unlocked. :param device: device object, block device path or mount path :returns: whether the device is unlocked """ device = self._find_device(device) if not self.is_handleable(device) or not d...	[ "async", "def", "unlock", "(", "self", ",", "device", ")", ":", "device", "=", "self", ".", "_find_device", "(", "device", ")", "if", "not", "self", ".", "is_handleable", "(", "device", ")", "or", "not", "device", ".", "is_crypto", ":", "self", ".", ...	43.690476	0.001066
def value(self, name): """get value of a track at the current time""" return self.tracks.get(name).row_value(self.controller.row)	[ "def", "value", "(", "self", ",", "name", ")", ":", "return", "self", ".", "tracks", ".", "get", "(", "name", ")", ".", "row_value", "(", "self", ".", "controller", ".", "row", ")" ]	47.666667	0.013793
def get_class(classname): """ Returns the class object associated with the dot-notation classname. Taken from here: http://stackoverflow.com/a/452981 :param classname: the classname :type classname: str :return: the class object :rtype: object """ parts = classname.split('.') m...	[ "def", "get_class", "(", "classname", ")", ":", "parts", "=", "classname", ".", "split", "(", "'.'", ")", "module", "=", "\".\"", ".", "join", "(", "parts", "[", ":", "-", "1", "]", ")", "m", "=", "__import__", "(", "module", ")", "for", "comp", ...	25.176471	0.002252
def remove_ip(self, IPAddress): """ Release the specified IP-address from the server. """ self.cloud_manager.release_ip(IPAddress.address) self.ip_addresses.remove(IPAddress)	[ "def", "remove_ip", "(", "self", ",", "IPAddress", ")", ":", "self", ".", "cloud_manager", ".", "release_ip", "(", "IPAddress", ".", "address", ")", "self", ".", "ip_addresses", ".", "remove", "(", "IPAddress", ")" ]	34.833333	0.009346
def add_process(self, name, cmd, quiet=False, env=None, cwd=None): """ Add a process to this manager instance. The process will not be started until :func:`~honcho.manager.Manager.loop` is called. """ assert name not in self._processes, "process names must be unique" proc...	[ "def", "add_process", "(", "self", ",", "name", ",", "cmd", ",", "quiet", "=", "False", ",", "env", "=", "None", ",", "cwd", "=", "None", ")", ":", "assert", "name", "not", "in", "self", ".", "_processes", ",", "\"process names must be unique\"", "proc",...	42.052632	0.002448
def clean_conditionally(node): """Remove the clean_el if it looks like bad content based on rules.""" if node.tag not in ('form', 'table', 'ul', 'div', 'p'): return # this is not the tag we are looking for weight = get_class_weight(node) # content_score = LOOK up the content score for this nod...	[ "def", "clean_conditionally", "(", "node", ")", ":", "if", "node", ".", "tag", "not", "in", "(", "'form'", ",", "'table'", ",", "'ul'", ",", "'div'", ",", "'p'", ")", ":", "return", "# this is not the tag we are looking for", "weight", "=", "get_class_weight",...	37.921875	0.001205
def split_first(s, delims): """ Given a string and an iterable of delimiters, split on the first found delimiter. Return two split parts and the matched delimiter. If not found, then the first part is the full input string. Example:: >>> split_first('foo/bar?baz', '?/=') ('foo', '...	[ "def", "split_first", "(", "s", ",", "delims", ")", ":", "min_idx", "=", "None", "min_delim", "=", "None", "for", "d", "in", "delims", ":", "idx", "=", "s", ".", "find", "(", "d", ")", "if", "idx", "<", "0", ":", "continue", "if", "min_idx", "is"...	26.354839	0.002361
def make_virtual_offset(block_start_offset, within_block_offset): """Compute a BGZF virtual offset from block start and within block offsets. The BAM indexing scheme records read positions using a 64 bit 'virtual offset', comprising in C terms: block_start_offset << 16 \| within_block_offset Here blo...	[ "def", "make_virtual_offset", "(", "block_start_offset", ",", "within_block_offset", ")", ":", "if", "within_block_offset", "<", "0", "or", "within_block_offset", ">=", "65536", ":", "raise", "ValueError", "(", "\"Require 0 <= within_block_offset < 2**16, got %i\"", "%", ...	40.97561	0.001744
def apply_filters(query, args): """ Apply all QueryFilters, validating the querystring in the process. """ pre_joins = [] for querystring_key, filter_value in args.items(multi=True): if querystring_key in filter_registry: cls_inst = filter_registry[querystring_key] qu...	[ "def", "apply_filters", "(", "query", ",", "args", ")", ":", "pre_joins", "=", "[", "]", "for", "querystring_key", ",", "filter_value", "in", "args", ".", "items", "(", "multi", "=", "True", ")", ":", "if", "querystring_key", "in", "filter_registry", ":", ...	38.142857	0.001828
def wheregreater(self, fieldname, value): """ Returns a new DataTable with rows only where the value at `fieldname` > `value`. """ return self.mask([elem > value for elem in self[fieldname]])	[ "def", "wheregreater", "(", "self", ",", "fieldname", ",", "value", ")", ":", "return", "self", ".", "mask", "(", "[", "elem", ">", "value", "for", "elem", "in", "self", "[", "fieldname", "]", "]", ")" ]	37.666667	0.008658
def update( self, jump ): """ Update the lattice state by accepting a specific jump Args: jump (Jump): The jump that has been accepted. Returns: None. """ atom = jump.initial_site.atom dr = jump.dr( self.cell_lengths ) #print( "at...	[ "def", "update", "(", "self", ",", "jump", ")", ":", "atom", "=", "jump", ".", "initial_site", ".", "atom", "dr", "=", "jump", ".", "dr", "(", "self", ".", "cell_lengths", ")", "#print( \"atom {} jumped from site {} to site {}\".format( atom.number, jump.initial_sit...	37	0.012075
def acquire(self, username, password, frontend='headless'): """Acquire a Machine resource.""" with self._lock() as root_session: for clone in self._clones: # Search for a free clone session = Session() try: clone.lock_machin...	[ "def", "acquire", "(", "self", ",", "username", ",", "password", ",", "frontend", "=", "'headless'", ")", ":", "with", "self", ".", "_lock", "(", ")", "as", "root_session", ":", "for", "clone", "in", "self", ".", "_clones", ":", "# Search for a free clone"...	44.018519	0.001235
def aggregate(self, val1, val2): """Aggregate two event values.""" assert val1 is not None assert val2 is not None return self._aggregator(val1, val2)	[ "def", "aggregate", "(", "self", ",", "val1", ",", "val2", ")", ":", "assert", "val1", "is", "not", "None", "assert", "val2", "is", "not", "None", "return", "self", ".", "_aggregator", "(", "val1", ",", "val2", ")" ]	35.6	0.010989
def list_all_orders(cls, **kwargs): """List Orders Return a list of Orders This method makes a synchronous HTTP request by default. To make an asynchronous HTTP request, please pass async=True >>> thread = api.list_all_orders(async=True) >>> result = thread.get() ...	[ "def", "list_all_orders", "(", "cls", ",", "", "", "kwargs", ")", ":", "kwargs", "[", "'_return_http_data_only'", "]", "=", "True", "if", "kwargs", ".", "get", "(", "'async'", ")", ":", "return", "cls", ".", "_list_all_orders_with_http_info", "(", "*", "...	35.565217	0.002381
def get_checks( target_type=None, tags=None, ruleset_name=None, ruleset_file=None, ruleset=None, logging_level=logging.WARNING, checks_paths=None, skips=None, ): """ Get the sanity checks for the target. :param skips: name of checks to skip :param target_type: TargetType...	[ "def", "get_checks", "(", "target_type", "=", "None", ",", "tags", "=", "None", ",", "ruleset_name", "=", "None", ",", "ruleset_file", "=", "None", ",", "ruleset", "=", "None", ",", "logging_level", "=", "logging", ".", "WARNING", ",", "checks_paths", "=",...	31.676471	0.001802
def freq_filt(bma): """ This is a framework for 2D FFT filtering. It has not be tested or finished - might be a dead end See separate utility freq_analysis.py """ """ Want to fit linear function to artifact line in freq space, Then mask everything near that line at distances of ~5-200 pixel...	[ "def", "freq_filt", "(", "bma", ")", ":", "\"\"\"\n Want to fit linear function to artifact line in freq space,\n Then mask everything near that line at distances of ~5-200 pixels, \n Or whatever the maximum CCD artifact dimension happens to be, \n This will depend on scaling - consult CCD m...	29.362069	0.015341
def setProxy(self, protocol="http"): """ Public method to set a proxy for the browser. """ # Setting proxy try: new = { protocol: self.proxies[protocol]} self.br.set_proxies( new ) except: # No proxy defined for that protocol ...	[ "def", "setProxy", "(", "self", ",", "protocol", "=", "\"http\"", ")", ":", "# Setting proxy", "try", ":", "new", "=", "{", "protocol", ":", "self", ".", "proxies", "[", "protocol", "]", "}", "self", ".", "br", ".", "set_proxies", "(", "new", ")", "e...	29.090909	0.018182
def trim_display_field(self, value, max_length): """Return a value for display; if longer than max length, use ellipsis.""" if not value: return '' if len(value) > max_length: return value[:max_length - 3] + '...' return value	[ "def", "trim_display_field", "(", "self", ",", "value", ",", "max_length", ")", ":", "if", "not", "value", ":", "return", "''", "if", "len", "(", "value", ")", ">", "max_length", ":", "return", "value", "[", ":", "max_length", "-", "3", "]", "+", "'....	35.428571	0.011811
def _det_tc(detector_name, ra, dec, tc, ref_frame='geocentric'): """Returns the coalescence time of a signal in the given detector. Parameters ---------- detector_name : string The name of the detector, e.g., 'H1'. ra : float The right ascension of the signal, in radians. dec : ...	[ "def", "_det_tc", "(", "detector_name", ",", "ra", ",", "dec", ",", "tc", ",", "ref_frame", "=", "'geocentric'", ")", ":", "if", "ref_frame", "==", "detector_name", ":", "return", "tc", "detector", "=", "Detector", "(", "detector_name", ")", "if", "ref_fra...	35.333333	0.000918
def filter_label(label, replace_by_similar=True): """Some labels currently don't work together because of LaTeX naming clashes. Those will be replaced by simple strings. """ bad_names = ['celsius', 'degree', 'ohm', 'venus', 'mars', 'astrosun', 'fullmoon', 'leftmoon', 'female', 'male', 'c...	[ "def", "filter_label", "(", "label", ",", "replace_by_similar", "=", "True", ")", ":", "bad_names", "=", "[", "'celsius'", ",", "'degree'", ",", "'ohm'", ",", "'venus'", ",", "'mars'", ",", "'astrosun'", ",", "'fullmoon'", ",", "'leftmoon'", ",", "'female'",...	47.4375	0.001292
def array(shape, dtype=_np.float64, autolock=False): """Factory method for shared memory arrays supporting all numpy dtypes.""" assert _NP_AVAILABLE, "To use the shared array object, numpy must be available!" if not isinstance(dtype, _np.dtype): dtype = _np.dtype(dtype) # Not bothering to transl...	[ "def", "array", "(", "shape", ",", "dtype", "=", "_np", ".", "float64", ",", "autolock", "=", "False", ")", ":", "assert", "_NP_AVAILABLE", ",", "\"To use the shared array object, numpy must be available!\"", "if", "not", "isinstance", "(", "dtype", ",", "_np", ...	55.823529	0.002073
def reordi(iorder, ndim, array): """ Re-order the elements of an integer array according to a given order vector. http://naif.jpl.nasa.gov/pub/naif/toolkit_docs/C/cspice/reordi_c.html :param iorder: Order vector to be used to re-order array. :type iorder: Array of ints :param ndim: Dimensi...	[ "def", "reordi", "(", "iorder", ",", "ndim", ",", "array", ")", ":", "iorder", "=", "stypes", ".", "toIntVector", "(", "iorder", ")", "ndim", "=", "ctypes", ".", "c_int", "(", "ndim", ")", "array", "=", "stypes", ".", "toIntVector", "(", "array", ")"...	31.52381	0.001466
def delete_post(self, post_id): """ Delete the post defined by ``post_id`` :param post_id: The identifier corresponding to a post :type post_id: int :return: Returns True if the post was successfully deleted and False otherwise. """ status = False ...	[ "def", "delete_post", "(", "self", ",", "post_id", ")", ":", "status", "=", "False", "success", "=", "0", "post_id", "=", "_as_int", "(", "post_id", ")", "with", "self", ".", "_engine", ".", "begin", "(", ")", "as", "conn", ":", "try", ":", "post_del...	38.583333	0.001404
def CreateCampaignWithBiddingStrategy(client, bidding_strategy_id, budget_id): """Create a Campaign with a Shared Bidding Strategy. Args: client: AdWordsClient the client to run the example with. bidding_strategy_id: string the bidding strategy ID to use. budget_id: string the shared budget ID to use. ...	[ "def", "CreateCampaignWithBiddingStrategy", "(", "client", ",", "bidding_strategy_id", ",", "budget_id", ")", ":", "# Initialize appropriate service.", "campaign_service", "=", "client", ".", "GetService", "(", "'CampaignService'", ",", "version", "=", "'v201809'", ")", ...	29.130435	0.009386
def lessThan(self, leftIndex, rightIndex): """ Returns true if the value of the item referred to by the given index left is less than the value of the item referred to by the given index right, otherwise returns false. """ leftData = self.sourceModel().data(leftIndex, RegistryTable...	[ "def", "lessThan", "(", "self", ",", "leftIndex", ",", "rightIndex", ")", ":", "leftData", "=", "self", ".", "sourceModel", "(", ")", ".", "data", "(", "leftIndex", ",", "RegistryTableModel", ".", "SORT_ROLE", ")", "rightData", "=", "self", ".", "sourceMod...	56.5	0.015251
def pack_header_for_user( self, user, override_access_lifespan=None, override_refresh_lifespan=None, **custom_claims ): """ Encodes a jwt token and packages it into a header dict for a given user :param: user: The user to package the ...	[ "def", "pack_header_for_user", "(", "self", ",", "user", ",", "override_access_lifespan", "=", "None", ",", "override_refresh_lifespan", "=", "None", ",", "", "", "custom_claims", ")", ":", "token", "=", "self", ".", "encode_jwt_token", "(", "user", ",", "ov...	52.133333	0.001883
def analyze_pages(file_name, char_margin=1.0): """ Input: the file path to the PDF file Output: yields the layout object for each page in the PDF """ log = logging.getLogger(__name__) # Open a PDF file. with open(os.path.realpath(file_name), "rb") as fp: # Create a PDF parser object ...	[ "def", "analyze_pages", "(", "file_name", ",", "char_margin", "=", "1.0", ")", ":", "log", "=", "logging", ".", "getLogger", "(", "__name__", ")", "# Open a PDF file.", "with", "open", "(", "os", ".", "path", ".", "realpath", "(", "file_name", ")", ",", ...	43.117647	0.001334
def add_subtask(self, task, params={}, **options): """Creates a new subtask and adds it to the parent task. Returns the full record for the newly created subtask. Parameters ---------- task : {Id} The task to add a subtask to. [data] : {Object} Data for the request ...	[ "def", "add_subtask", "(", "self", ",", "task", ",", "params", "=", "{", "}", ",", "", "", "options", ")", ":", "path", "=", "\"/tasks/%s/subtasks\"", "%", "(", "task", ")", "return", "self", ".", "client", ".", "post", "(", "path", ",", "params", ...	38.090909	0.009324
def setQuery( self, query ): """ Assigns the query for this widget, loading the query builder tree with the pertinent information. :param query \| <Query> \|\| <QueryCompound> \|\| None """ tree = self.uiQueryTREE tree.blockSignals(True) ...	[ "def", "setQuery", "(", "self", ",", "query", ")", ":", "tree", "=", "self", ".", "uiQueryTREE", "tree", ".", "blockSignals", "(", "True", ")", "tree", ".", "setUpdatesEnabled", "(", "False", ")", "tree", ".", "clear", "(", ")", "# assign a top level query...	34.133333	0.016144
def get_movies(self): """ Retrieves all the movies published by the artist :return: List. Movies published by the artist """ return itunespy.lookup(id=self.artist_id, entity=itunespy.entities['movie'])[1:]	[ "def", "get_movies", "(", "self", ")", ":", "return", "itunespy", ".", "lookup", "(", "id", "=", "self", ".", "artist_id", ",", "entity", "=", "itunespy", ".", "entities", "[", "'movie'", "]", ")", "[", "1", ":", "]" ]	40	0.012245
def read_file(fname, args, *kwargs): """Read data from a file saved in the standard IAMC format or a table with year/value columns """ if not isstr(fname): raise ValueError('reading multiple files not supported, ' 'please use `pyam.IamDataFrame.append()`') logger()...	[ "def", "read_file", "(", "fname", ",", "", "args", ",", "", "*", "kwargs", ")", ":", "if", "not", "isstr", "(", "fname", ")", ":", "raise", "ValueError", "(", "'reading multiple files not supported, '", "'please use `pyam.IamDataFrame.append()`'", ")", "logger",...	47.692308	0.001582
def get(self): """ get the conesearch object Return: - ``conesearch`` .. todo:: - @review: when complete, clean get method - @review: when complete add logging """ self.log.info('starting the ``get`` method') # SEARCH ...	[ "def", "get", "(", "self", ")", ":", "self", ".", "log", ".", "info", "(", "'starting the ``get`` method'", ")", "# SEARCH NED WITH SINGLE CONESEARCHES TO RETURN LIST OF MATCHED NAMES", "names", ",", "searchParams", "=", "self", ".", "get_crossmatch_names", "(", "listOf...	27.787879	0.002107
def _submit_request(self, url, params=None, data=None, headers=None, method="GET"): """Submits the given request, and handles the errors appropriately. Args: url (str): the request to send. params (dict): params to be passed along to get/post ...	[ "def", "_submit_request", "(", "self", ",", "url", ",", "params", "=", "None", ",", "data", "=", "None", ",", "headers", "=", "None", ",", "method", "=", "\"GET\"", ")", ":", "if", "headers", "is", "None", ":", "headers", "=", "{", "}", "if", "self...	40.363636	0.001649
def to_bytes(s, encoding=None, errors='strict'): ''' Given bytes, bytearray, str, or unicode (python 2), return bytes (str for python 2) ''' if encoding is None: # Try utf-8 first, and fall back to detected encoding encoding = ('utf-8', __salt_system_encoding__) if not isinstance...	[ "def", "to_bytes", "(", "s", ",", "encoding", "=", "None", ",", "errors", "=", "'strict'", ")", ":", "if", "encoding", "is", "None", ":", "# Try utf-8 first, and fall back to detected encoding", "encoding", "=", "(", "'utf-8'", ",", "__salt_system_encoding__", ")"...	34.794118	0.000822
def mavloss(logfile): '''work out signal loss times for a log file''' print("Processing log %s" % filename) mlog = mavutil.mavlink_connection(filename, planner_format=args.planner, notimestamps=args.notimestamps, ...	[ "def", "mavloss", "(", "logfile", ")", ":", "print", "(", "\"Processing log %s\"", "%", "filename", ")", "mlog", "=", "mavutil", ".", "mavlink_connection", "(", "filename", ",", "planner_format", "=", "args", ".", "planner", ",", "notimestamps", "=", "args", ...	37.694444	0.001437
def auto_model(layout, scan_length=None, one_vs_rest=False): '''Create a simple default model for each of the tasks in a BIDSLayout. Contrasts each trial type against all other trial types and trial types at the run level and then uses t-tests at each other level present to aggregate these results up. ...	[ "def", "auto_model", "(", "layout", ",", "scan_length", "=", "None", ",", "one_vs_rest", "=", "False", ")", ":", "base_name", "=", "split", "(", "layout", ".", "root", ")", "[", "-", "1", "]", "tasks", "=", "layout", ".", "entities", "[", "'task'", "...	39.057692	0.00096
def load_world(filename): """ Load a world from the given HDF5 filename. The return type is determined by ``ecell4_base.core.load_version_information``. Parameters ---------- filename : str A HDF5 filename. Returns ------- w : World Return one from ``BDWorld``, ``EG...	[ "def", "load_world", "(", "filename", ")", ":", "import", "ecell4_base", "vinfo", "=", "ecell4_base", ".", "core", ".", "load_version_information", "(", "filename", ")", "if", "vinfo", ".", "startswith", "(", "\"ecell4-bd\"", ")", ":", "return", "ecell4_base", ...	34.885714	0.00239
def convert_examples_to_features(examples, tokenizer, max_seq_length, doc_stride, max_query_length, is_training): """Loads a data file into a list of `InputBatch`s.""" unique_id = 1000000000 features = [] for (example_index, example) in enumerate(examples): que...	[ "def", "convert_examples_to_features", "(", "examples", ",", "tokenizer", ",", "max_seq_length", ",", "doc_stride", ",", "max_query_length", ",", "is_training", ")", ":", "unique_id", "=", "1000000000", "features", "=", "[", "]", "for", "(", "example_index", ",", ...	44.621118	0.00177
def save(d, output_file, indent=4, spacer=" ", quote='"', newlinechar="\n", end_comment=False, **kwargs): """ Write a dictionary to an output Mapfile on disk Parameters ---------- d: dict A Python dictionary based on the the mappyfile schema output_file: string The output filen...	[ "def", "save", "(", "d", ",", "output_file", ",", "indent", "=", "4", ",", "spacer", "=", "\" \"", ",", "quote", "=", "'\"'", ",", "newlinechar", "=", "\"\\n\"", ",", "end_comment", "=", "False", ",", "", "", "kwargs", ")", ":", "map_string", "=", ...	28.886364	0.001522
def get_definition(self): '''Returns the definition of the complex item''' serialized = super(ComplexSchemaItem, self).serialize() # Adjust entries in the serialization del serialized['definition_name'] serialized['title'] = self.definition_name properties = {} ...	[ "def", "get_definition", "(", "self", ")", ":", "serialized", "=", "super", "(", "ComplexSchemaItem", ",", "self", ")", ".", "serialize", "(", ")", "# Adjust entries in the serialization", "del", "serialized", "[", "'definition_name'", "]", "serialized", "[", "'ti...	38.857143	0.001794
def ChiSquared(k, tag=None): """ A Chi-Squared random variate Parameters ---------- k : int The degrees of freedom of the distribution (must be greater than one) """ assert int(k) == k and k >= 1, 'Chi-Squared "k" must be an integer greater than 0' return uv(ss.chi2(k), tag=...	[ "def", "ChiSquared", "(", "k", ",", "tag", "=", "None", ")", ":", "assert", "int", "(", "k", ")", "==", "k", "and", "k", ">=", "1", ",", "'Chi-Squared \"k\" must be an integer greater than 0'", "return", "uv", "(", "ss", ".", "chi2", "(", "k", ")", ","...	28.545455	0.009259
def random_pure_actions(nums_actions, random_state=None): """ Return a tuple of random pure actions (integers). Parameters ---------- nums_actions : tuple(int) Tuple of the numbers of actions, one for each player. random_state : int or np.random.RandomState, optional Random see...	[ "def", "random_pure_actions", "(", "nums_actions", ",", "random_state", "=", "None", ")", ":", "random_state", "=", "check_random_state", "(", "random_state", ")", "action_profile", "=", "tuple", "(", "[", "random_state", ".", "randint", "(", "num_actions", ")", ...	30.576923	0.00122
def p_array(self,t): """expression : '{' commalist '}' \| kw_array '[' commalist ']' """ if len(t)==4: t[0] = ArrayLit(t[2].children) elif len(t)==5: t[0] = ArrayLit(t[3].children) else: raise NotImplementedError('unk_len',len(t)) # pragma: no cover	[ "def", "p_array", "(", "self", ",", "t", ")", ":", "if", "len", "(", "t", ")", "==", "4", ":", "t", "[", "0", "]", "=", "ArrayLit", "(", "t", "[", "2", "]", ".", "children", ")", "elif", "len", "(", "t", ")", "==", "5", ":", "t", "[", "...	40	0.031469

def populate(self, compound_dict=None, x=1, y=1, z=1): """Expand lattice and create compound from lattice. populate will expand lattice based on user input. The user must also pass in a dictionary that contains the keys that exist in the basis_dict. The corresponding Compound will be th...

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def rename(self, file_id, new_filename, session=None): """Renames the stored file with the specified file_id. For example:: my_db = MongoClient().test fs = GridFSBucket(my_db) # Get _id of file to rename file_id = fs.upload_from_stream("test_file", "data I want ...

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def Alt_Fn(self, n, dl = 0): """Alt + Fn1~12 组合键 """ self.Delay(dl) self.keyboard.press_key(self.keyboard.alt_key) self.keyboard.tap_key(self.keyboard.function_keys[n]) self.keyboard.release_key(self.keyboard.alt_key)

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def get_values(self, idx): """ Return the variable values at the given indices """ if isinstance(idx, list): idx = np.array(idx, dtype=int) return self._data[:, idx]

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def trim(self): """ Trims data based on propensity score to create a subsample with better covariate balance. The default cutoff value is set to 0.1. To set a custom cutoff value, modify the object attribute named cutoff directly. This method should only be executed after the propensity score has bee...

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def set(self, uri, content): """ Cache node content for uri. No return. """ key, value = self._prepare_node(uri, content) self._set(key, value)

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def locus(args): """ %prog locus bamfile Extract selected locus from a list of TREDs for validation, and run lobSTR. """ from jcvi.formats.sam import get_minibam # See `Format-lobSTR-database.ipynb` for a list of TREDs for validation INCLUDE = ["HD", "SBMA", "SCA1", "SCA2", "SCA8", "SCA17",...

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def job_delete(job_id): '''Deletes the job together with its logs and metadata. :param job_id: An identifier for the job :type job_id: string :statuscode 200: no error :statuscode 403: not authorized to delete the job :statuscode 404: the job could not be found :statuscode 409: an error oc...

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def infer_call_result(self, caller, context=None): """infer what a class is returning when called""" if ( self.is_subtype_of("%s.type" % (BUILTINS,), context) and len(caller.args) == 3 ): result = self._infer_type_call(caller, context) yield result...

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def to_df(self, variables=None, format='wide', fillna=np.nan, **kwargs): ''' Merge variables into a single pandas DataFrame. Args: variables (list): Optional list of column names to retain; if None, all variables are returned. format (str): Whether to return a Da...

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def _validate(self, data, owner=None): """Validate input data in returning an empty list if true. :param data: data to validate with this schema. :param Schema owner: schema owner. :raises: Exception if the data is not validated. """ if isinstance(data, DynamicValue): ...

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def to_int(d, key, default_to_zero=False, default=None, required=True): """Pull a value from the dict and convert to int :param default_to_zero: If the value is None or empty, treat it as zero :param default: If the value is missing in the dict use this default """ value = d.get(key) or default ...

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def is_reversible(T, mu=None, tol=1e-15): r""" checks whether T is reversible in terms of given stationary distribution. If no distribution is given, it will be calculated out of T. performs follwing check: :math:`\pi_i P_{ij} = \pi_j P_{ji} Parameters ---------- T : scipy.sparse matrix...

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def _getbins(): """ gets the right version of vsearch, muscle, and smalt depending on linux vs osx """ # Return error if system is 32-bit arch. # This is straight from the python docs: # https://docs.python.org/2/library/platform.html#cross-platform if not _sys.maxsize > 2**32: _sys.exi...

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def run_process_with_timeout( args, filename_in=None, filename_out=None, filename_err=None, cwd=None, timeout=None, sudo=None): """Execute the specified process but within a certain timeout. @param args: the actuall process. This should be a list of strin...

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def updatecache(filename, module_globals=None): """Update a cache entry and return its list of lines. If something's wrong, print a message, discard the cache entry, and return an empty list.""" if filename in cache: del cache[filename] if not filename or (filename.startswith('<') and filen...

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def user_can_edit_news(user): """ Check if the user has permission to edit any of the registered NewsItem types. """ newsitem_models = [model.get_newsitem_model() for model in NEWSINDEX_MODEL_CLASSES] if user.is_active and user.is_superuser: # admin can edit news ...

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def get_markdown_levels(lines, levels=set((0, 1, 2, 3, 4, 5, 6))): r""" Return a list of 2-tuples with a level integer for the heading levels >>> get_markdown_levels('paragraph \n##bad\n# hello\n ### world\n') [(0, 'paragraph '), (2, 'bad'), (0, '# hello'), (3, 'world')] >>> get_markdown_levels('- bul...

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def group_by_interpolate(df, x=None, y=None, group_by=None, number_of_points=100, tidy=False, individual_x_cols=False, header_name="Unit", dx=10.0, generate_new_x=True): """Use this for generating wide format from long (tidy) data""" ti...

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def syncItems(self, client=None, clientId=None): """ Returns an instance of :class:`plexapi.sync.SyncList` for specified client. Parameters: client (:class:`~plexapi.myplex.MyPlexDevice`): a client to query SyncItems for. clientId (str): an identifier of a client to ...

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def norm_squared(x, Mx=None, inner_product=ip_euclid): '''Compute the norm^2 w.r.t. to a given scalar product.''' assert(len(x.shape) == 2) if Mx is None: rho = inner_product(x, x) else: assert(len(Mx.shape) == 2) rho = inner_product(x, Mx) if rho.shape == (1, 1): if...

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def remote_is_append_blob(self): # type: (Descriptor) -> bool """Remote destination is an Azure Append Blob :param Descriptor self: this :rtype: bool :return: remote is an Azure Append Blob """ return self.entity.mode == blobxfer.models.azure.StorageModes.Append

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def _with_loc(f: W) -> W: """Wrap a reader function in a decorator to supply line and column information along with relevant forms.""" @functools.wraps(f) def with_lineno_and_col(ctx): meta = lmap.map( {READER_LINE_KW: ctx.reader.line, READER_COL_KW: ctx.reader.col} ) ...

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def cleave_sequence(input_layer, unroll=None): """Cleaves a tensor into a sequence, this is the inverse of squash. Recurrent methods unroll across an array of Tensors with each one being a timestep. This cleaves the first dim so that each it is an array of Tensors. It is the inverse of squash_sequence. Arg...

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def items(self, raw = False): """Like `items` for dicts but with a `raw` option # Parameters _raw_ : `optional [bool]` > Default `False`, if `True` the `KeysView` contains the raw values as the values # Returns `KeysView` > The key-value pairs of the record ...

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def make_series(x, *args, **kwargs): """Coerce a provided array/sequence/generator into a pandas.Series object FIXME: Deal with CSR, COO, DOK and other sparse matrices like this: pd.Series(csr.toarray()[:,0]) or, if csr.shape[1] == 2 pd.Series(csr.toarray()[:,1], index=csr.toarray()[:,0])...

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def from_web_element(self, web_element): """ Store reference to a WebElement instance representing the element on the DOM. Use it when an instance of WebElement has already been created (e.g. as the result of find_element) and you want to create a UIComponent out of it withou...

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def merge_paths(paths, weights=None): """ Zip together sorted lists. >>> paths = [[1, 2, 3], [1, 3, 4], [2, 4, 5]] >>> G = merge_paths(paths) >>> nx.topological_sort(G) [1, 2, 3, 4, 5] >>> paths = [[1, 2, 3, 4], [1, 2, 3, 2, 4]] >>> G = merge_paths(paths, weights=(1, 2)) >>> nx.topo...

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def Tethering_unbind(self, port): """ Function path: Tethering.unbind Domain: Tethering Method name: unbind Parameters: Required arguments: 'port' (type: integer) -> Port number to unbind. No return value. Description: Request browser port unbinding. """ assert isinstance(port, (in...

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def lint(fix_imports): """ Run flake8. """ from glob import glob from subprocess import call # FIXME: should support passing these in an option skip = [ 'ansible', 'db', 'flask_sessions', 'node_modules', 'requirements', ] root_files = glob('*....

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def eaSimpleConverge(population, toolbox, cxpb, mutpb, ngen, stats=None, halloffame=None, callback=None, verbose=True): """This algorithm reproduce the simplest evolutionary algorithm as presented in chapter 7 of [Back2000]_. Modified to allow checking if there is no change for ngen, a...

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def get_node(self, key): """Delegate to our current "value provider" for the node belonging to this key.""" if key in self.names: return self.values.get_member_node(key) if hasattr(self.values, 'get_member_node') else None return self.parent.get_node(key)

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def _build_template_map(cookbook, cookbook_name, stencil): """Build a map of variables for this generated cookbook and stencil. Get template variables from stencil option values, adding the default ones like cookbook and cookbook year. """ template_map = { 'cookbook': {"name": cookbook_name...

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def _cassists_any(self,dc,dt,dt2,name,nodiag=False,memlimit=-1): """Calculates probability of gene i regulating gene j with continuous anchor data assisted method, with multiple tests, by converting log likelihoods into probabilities per A for all B. dc: numpy.ndarray(nt,ns,dtype=ftype(='f4' by default)) Continuous ...

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def serve(content): """Write content to a temp file and serve it in browser""" temp_folder = tempfile.gettempdir() temp_file_name = tempfile.gettempprefix() + str(uuid.uuid4()) + ".html" # Generate a file path with a random name in temporary dir temp_file_path = os.path.join(temp_folder, temp_file_n...

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def getNetworkSummary(self, suid, verbose=None): """ Returns summary of collection containing the specified network. :param suid: Cytoscape Collection/Subnetwork SUID :param verbose: print more :returns: 200: successful operation """ surl=self.___url sv...

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def _derive_distinct_intervals(self, rows): """ Returns the set of distinct intervals in a row set. :param list[dict[str,T]] rows: The rows set. :rtype: set[(int,int)] """ ret = set() for row in rows: self._add_interval(ret, (row[self._key_start_date...

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def dataCollector( self ): """ Returns a method or function that will be used to collect mime data \ for a list of tablewidgetitems. If set, the method should accept a \ single argument for a list of items and then return a QMimeData \ instance. :usage |fro...

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def _parse_contract(self, player_info): """ Parse the player's contract. Depending on the player's contract status, a contract table is located at the bottom of the stats page and includes player wages by season. If found, create a dictionary housing the wages by season. ...

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def popitem(self): """Pop an item from the dict.""" try: item = dict.popitem(self) return (item[0], item[1][0]) except KeyError, e: raise BadRequestKeyError(str(e))

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31.142857

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def min_interval(self,name, alpha=_alpha, **kwargs): """ Calculate minimum interval for parameter. """ data = self.get(name, **kwargs) return min_interval(data,alpha)

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33.666667

0.024155

def get_section_key_line(self, data, key, opt_extension=':'): """Get the next section line for a given key. :param data: the data to proceed :param key: the key :param opt_extension: an optional extension to delimit the opt value """ return super(GoogledocTools, self).g...

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39.666667

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def get_directory_modules(directory): """Return a list containing tuples of e.g. ('__init__', 'example/import_test_project/__init__.py') """ if _local_modules and os.path.dirname(_local_modules[0][1]) == directory: return _local_modules if not os.path.isdir(directory): # example/imp...

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33.857143

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def record(self, localStreamName, pathToFile, **kwargs): """ Records any inbound stream. The record command allows users to record a stream that may not yet exist. When a new stream is brought into the server, it is checked against a list of streams to be recorded. Streams can b...

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42.1

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def copy_from_server_to_local(dataset_remote_dir, dataset_local_dir, remote_fname, local_fname): """Copies a remote file locally. Parameters ---------- remote_fname : str Remote file to copy local_fname : str Path and name of the local copy to be made o...

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34.622642

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def _auto_adjust_panel_spans(dashboard): '''Adjust panel spans to take up the available width. For each group of panels that would be laid out on the same level, scale up the unspecified panel spans to fill up the level. ''' for row in dashboard.get('rows', []): levels = [] current_...

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43

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def status(self, obj): """Get the wifi interface status.""" reply = self._send_cmd_to_wpas(obj['name'], 'STATUS', True) result = reply.split('\n') status = '' for l in result: if l.startswith('wpa_state='): status = l[10:] return stat...

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def evergreen_video(self, **kwargs): """Filter evergreen content to exclusively video content.""" eqs = self.evergreen(**kwargs) eqs = eqs.filter(VideohubVideo()) return eqs

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40.2

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def _get_resolved_alias_name(self, property_name, original_alias_value, intrinsics_resolver): """ Alias names can be supplied as an intrinsic function. This method tries to extract alias name from a reference to a parameter. If it cannot completely resolve (ie. if a complex intrinsic function wa...

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60.73913

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def read(path, attribute, **kwargs): ''' Read the given attributes on the given file/directory :param str path: The file to get attributes from :param str attribute: The attribute to read :param bool hex: Return the values with forced hexadecimal values :return: A string containing the value...

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30.44186

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def get_network_by_id(self, network_id: int) -> Network: """Get a network from the database by its identifier.""" return self.session.query(Network).get(network_id)

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59.333333

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def _create_regexp_filter(regex): """Returns a boolean function that filters strings based on a regular exp. Args: regex: A string describing the regexp to use. Returns: A function taking a string and returns True if any of its substrings matches regex. """ # Warning: Note that python's regex lib...

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38.681818

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def _get_timestamp_tuple(ts): """ Internal method to get a timestamp tuple from a value. Handles input being a datetime or a Timestamp. """ if isinstance(ts, datetime.datetime): return Timestamp.from_datetime(ts).tuple() elif isinstance(ts, Timestamp): return ts raise...

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def send(self, diffTo, diffFrom): """ Do a btrfs send. """ diff = self.toObj.diff(diffTo, diffFrom) self._open(self.butterStore.send(diff))

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40

0.01227

def write_tlv(data): """Convert a dict to TLV8 bytes.""" tlv = b'' for key, value in data.items(): tag = bytes([int(key)]) length = len(value) pos = 0 # A tag with length > 255 is added multiple times and concatenated into # one buffer when reading the TLV again. ...

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29.333333

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def parse(url): """Parses a search URL.""" config = {} url = urlparse.urlparse(url) # Remove query strings. path = url.path[1:] path = path.split('?', 2)[0] if url.scheme in SCHEMES: config["ENGINE"] = SCHEMES[url.scheme] if url.scheme in USES_URL: config["URL"] = ur...

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21.121951

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def get_urls(self): """ Add the entries view to urls. """ urls = super(FormAdmin, self).get_urls() extra_urls = [ re_path("^(?P<form_id>\d+)/entries/$", self.admin_site.admin_view(self.entries_view), name="form_entries"), re...

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42.05

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async def unlock(self, device): """ Unlock the device if not already unlocked. :param device: device object, block device path or mount path :returns: whether the device is unlocked """ device = self._find_device(device) if not self.is_handleable(device) or not d...

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43.690476

0.001066

def value(self, name): """get value of a track at the current time""" return self.tracks.get(name).row_value(self.controller.row)

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47.666667

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def get_class(classname): """ Returns the class object associated with the dot-notation classname. Taken from here: http://stackoverflow.com/a/452981 :param classname: the classname :type classname: str :return: the class object :rtype: object """ parts = classname.split('.') m...

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25.176471

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def remove_ip(self, IPAddress): """ Release the specified IP-address from the server. """ self.cloud_manager.release_ip(IPAddress.address) self.ip_addresses.remove(IPAddress)

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34.833333

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def add_process(self, name, cmd, quiet=False, env=None, cwd=None): """ Add a process to this manager instance. The process will not be started until :func:`~honcho.manager.Manager.loop` is called. """ assert name not in self._processes, "process names must be unique" proc...

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42.052632

0.002448

def clean_conditionally(node): """Remove the clean_el if it looks like bad content based on rules.""" if node.tag not in ('form', 'table', 'ul', 'div', 'p'): return # this is not the tag we are looking for weight = get_class_weight(node) # content_score = LOOK up the content score for this nod...

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37.921875

0.001205

def split_first(s, delims): """ Given a string and an iterable of delimiters, split on the first found delimiter. Return two split parts and the matched delimiter. If not found, then the first part is the full input string. Example:: >>> split_first('foo/bar?baz', '?/=') ('foo', '...

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26.354839

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def make_virtual_offset(block_start_offset, within_block_offset): """Compute a BGZF virtual offset from block start and within block offsets. The BAM indexing scheme records read positions using a 64 bit 'virtual offset', comprising in C terms: block_start_offset << 16 | within_block_offset Here blo...

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40.97561

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def apply_filters(query, args): """ Apply all QueryFilters, validating the querystring in the process. """ pre_joins = [] for querystring_key, filter_value in args.items(multi=True): if querystring_key in filter_registry: cls_inst = filter_registry[querystring_key] qu...

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38.142857

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def wheregreater(self, fieldname, value): """ Returns a new DataTable with rows only where the value at `fieldname` > `value`. """ return self.mask([elem > value for elem in self[fieldname]])

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37.666667

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def update( self, jump ): """ Update the lattice state by accepting a specific jump Args: jump (Jump): The jump that has been accepted. Returns: None. """ atom = jump.initial_site.atom dr = jump.dr( self.cell_lengths ) #print( "at...

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37

0.012075

def acquire(self, username, password, frontend='headless'): """Acquire a Machine resource.""" with self._lock() as root_session: for clone in self._clones: # Search for a free clone session = Session() try: clone.lock_machin...

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44.018519

0.001235

def aggregate(self, val1, val2): """Aggregate two event values.""" assert val1 is not None assert val2 is not None return self._aggregator(val1, val2)

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35.6

0.010989

def list_all_orders(cls, **kwargs): """List Orders Return a list of Orders This method makes a synchronous HTTP request by default. To make an asynchronous HTTP request, please pass async=True >>> thread = api.list_all_orders(async=True) >>> result = thread.get() ...

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35.565217

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def get_checks( target_type=None, tags=None, ruleset_name=None, ruleset_file=None, ruleset=None, logging_level=logging.WARNING, checks_paths=None, skips=None, ): """ Get the sanity checks for the target. :param skips: name of checks to skip :param target_type: TargetType...

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31.676471

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def freq_filt(bma): """ This is a framework for 2D FFT filtering. It has not be tested or finished - might be a dead end See separate utility freq_analysis.py """ """ Want to fit linear function to artifact line in freq space, Then mask everything near that line at distances of ~5-200 pixel...

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29.362069

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def setProxy(self, protocol="http"): """ Public method to set a proxy for the browser. """ # Setting proxy try: new = { protocol: self.proxies[protocol]} self.br.set_proxies( new ) except: # No proxy defined for that protocol ...

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def trim_display_field(self, value, max_length): """Return a value for display; if longer than max length, use ellipsis.""" if not value: return '' if len(value) > max_length: return value[:max_length - 3] + '...' return value

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def _det_tc(detector_name, ra, dec, tc, ref_frame='geocentric'): """Returns the coalescence time of a signal in the given detector. Parameters ---------- detector_name : string The name of the detector, e.g., 'H1'. ra : float The right ascension of the signal, in radians. dec : ...

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def filter_label(label, replace_by_similar=True): """Some labels currently don't work together because of LaTeX naming clashes. Those will be replaced by simple strings. """ bad_names = ['celsius', 'degree', 'ohm', 'venus', 'mars', 'astrosun', 'fullmoon', 'leftmoon', 'female', 'male', 'c...

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def array(shape, dtype=_np.float64, autolock=False): """Factory method for shared memory arrays supporting all numpy dtypes.""" assert _NP_AVAILABLE, "To use the shared array object, numpy must be available!" if not isinstance(dtype, _np.dtype): dtype = _np.dtype(dtype) # Not bothering to transl...

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def reordi(iorder, ndim, array): """ Re-order the elements of an integer array according to a given order vector. http://naif.jpl.nasa.gov/pub/naif/toolkit_docs/C/cspice/reordi_c.html :param iorder: Order vector to be used to re-order array. :type iorder: Array of ints :param ndim: Dimensi...

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def delete_post(self, post_id): """ Delete the post defined by ``post_id`` :param post_id: The identifier corresponding to a post :type post_id: int :return: Returns True if the post was successfully deleted and False otherwise. """ status = False ...

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def CreateCampaignWithBiddingStrategy(client, bidding_strategy_id, budget_id): """Create a Campaign with a Shared Bidding Strategy. Args: client: AdWordsClient the client to run the example with. bidding_strategy_id: string the bidding strategy ID to use. budget_id: string the shared budget ID to use. ...

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def lessThan(self, leftIndex, rightIndex): """ Returns true if the value of the item referred to by the given index left is less than the value of the item referred to by the given index right, otherwise returns false. """ leftData = self.sourceModel().data(leftIndex, RegistryTable...

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def pack_header_for_user( self, user, override_access_lifespan=None, override_refresh_lifespan=None, **custom_claims ): """ Encodes a jwt token and packages it into a header dict for a given user :param: user: The user to package the ...

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def analyze_pages(file_name, char_margin=1.0): """ Input: the file path to the PDF file Output: yields the layout object for each page in the PDF """ log = logging.getLogger(__name__) # Open a PDF file. with open(os.path.realpath(file_name), "rb") as fp: # Create a PDF parser object ...

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def add_subtask(self, task, params={}, **options): """Creates a new subtask and adds it to the parent task. Returns the full record for the newly created subtask. Parameters ---------- task : {Id} The task to add a subtask to. [data] : {Object} Data for the request ...

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def setQuery( self, query ): """ Assigns the query for this widget, loading the query builder tree with the pertinent information. :param query | <Query> || <QueryCompound> || None """ tree = self.uiQueryTREE tree.blockSignals(True) ...

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def get_movies(self): """ Retrieves all the movies published by the artist :return: List. Movies published by the artist """ return itunespy.lookup(id=self.artist_id, entity=itunespy.entities['movie'])[1:]

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def read_file(fname, *args, **kwargs): """Read data from a file saved in the standard IAMC format or a table with year/value columns """ if not isstr(fname): raise ValueError('reading multiple files not supported, ' 'please use `pyam.IamDataFrame.append()`') logger()...

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def get(self): """ *get the conesearch object* **Return:** - ``conesearch`` .. todo:: - @review: when complete, clean get method - @review: when complete add logging """ self.log.info('starting the ``get`` method') # SEARCH ...

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def _submit_request(self, url, params=None, data=None, headers=None, method="GET"): """Submits the given request, and handles the errors appropriately. Args: url (str): the request to send. params (dict): params to be passed along to get/post ...

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def to_bytes(s, encoding=None, errors='strict'): ''' Given bytes, bytearray, str, or unicode (python 2), return bytes (str for python 2) ''' if encoding is None: # Try utf-8 first, and fall back to detected encoding encoding = ('utf-8', __salt_system_encoding__) if not isinstance...

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def mavloss(logfile): '''work out signal loss times for a log file''' print("Processing log %s" % filename) mlog = mavutil.mavlink_connection(filename, planner_format=args.planner, notimestamps=args.notimestamps, ...

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def auto_model(layout, scan_length=None, one_vs_rest=False): '''Create a simple default model for each of the tasks in a BIDSLayout. Contrasts each trial type against all other trial types and trial types at the run level and then uses t-tests at each other level present to aggregate these results up. ...

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def load_world(filename): """ Load a world from the given HDF5 filename. The return type is determined by ``ecell4_base.core.load_version_information``. Parameters ---------- filename : str A HDF5 filename. Returns ------- w : World Return one from ``BDWorld``, ``EG...

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def convert_examples_to_features(examples, tokenizer, max_seq_length, doc_stride, max_query_length, is_training): """Loads a data file into a list of `InputBatch`s.""" unique_id = 1000000000 features = [] for (example_index, example) in enumerate(examples): que...

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def save(d, output_file, indent=4, spacer=" ", quote='"', newlinechar="\n", end_comment=False, **kwargs): """ Write a dictionary to an output Mapfile on disk Parameters ---------- d: dict A Python dictionary based on the the mappyfile schema output_file: string The output filen...

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def get_definition(self): '''Returns the definition of the complex item''' serialized = super(ComplexSchemaItem, self).serialize() # Adjust entries in the serialization del serialized['definition_name'] serialized['title'] = self.definition_name properties = {} ...

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def ChiSquared(k, tag=None): """ A Chi-Squared random variate Parameters ---------- k : int The degrees of freedom of the distribution (must be greater than one) """ assert int(k) == k and k >= 1, 'Chi-Squared "k" must be an integer greater than 0' return uv(ss.chi2(k), tag=...

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def random_pure_actions(nums_actions, random_state=None): """ Return a tuple of random pure actions (integers). Parameters ---------- nums_actions : tuple(int) Tuple of the numbers of actions, one for each player. random_state : int or np.random.RandomState, optional Random see...

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def p_array(self,t): """expression : '{' commalist '}' | kw_array '[' commalist ']' """ if len(t)==4: t[0] = ArrayLit(t[2].children) elif len(t)==5: t[0] = ArrayLit(t[3].children) else: raise NotImplementedError('unk_len',len(t)) # pragma: no cover

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