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 get_type_lookup_session(self): """Gets the OsidSession associated with the type lookup service. return: (osid.type.TypeLookupSession) - a TypeLookupSession raise: OperationFailed - unable to complete request raise: Unimplemented - supports_type_lookup() is false compliance...	[ "def", "get_type_lookup_session", "(", "self", ")", ":", "if", "not", "self", ".", "supports_type_lookup", "(", ")", ":", "raise", "Unimplemented", "(", ")", "try", ":", "from", ".", "import", "sessions", "except", "ImportError", ":", "raise", "# OperationFail...	37.285714	0.002491
def process_sample(job, inputs, tar_id): """ Converts sample.tar(.gz) into two fastq files. Due to edge conditions... BEWARE: HERE BE DRAGONS :param JobFunctionWrappingJob job: passed by Toil automatically :param Namespace inputs: Stores input arguments (see main) :param str tar_id: FileStore I...	[ "def", "process_sample", "(", "job", ",", "inputs", ",", "tar_id", ")", ":", "job", ".", "fileStore", ".", "logToMaster", "(", "'Processing sample into read pairs: {}'", ".", "format", "(", "inputs", ".", "uuid", ")", ")", "work_dir", "=", "job", ".", "fileS...	45.829787	0.002273
def _log_http_response(method, url, status, headers=None, content=None): """ Log the HTTP response of an HMC REST API call, at the debug level. Parameters: method (:term:`string`): HTTP method name in upper case, e.g. 'GET' url (:term:`string`): HTTP URL (base URL and oper...	[ "def", "_log_http_response", "(", "method", ",", "url", ",", "status", ",", "headers", "=", "None", ",", "content", "=", "None", ")", ":", "if", "method", "==", "'POST'", "and", "url", ".", "endswith", "(", "'/api/sessions'", ")", ":", "# In Python 3 up to...	42.810811	0.001235
def get_num_names_in_namespace( self, namespace_id ): """ Get the number of names in a namespace """ cur = self.db.cursor() return namedb_get_num_names_in_namespace( cur, namespace_id, self.lastblock )	[ "def", "get_num_names_in_namespace", "(", "self", ",", "namespace_id", ")", ":", "cur", "=", "self", ".", "db", ".", "cursor", "(", ")", "return", "namedb_get_num_names_in_namespace", "(", "cur", ",", "namespace_id", ",", "self", ".", "lastblock", ")" ]	39.333333	0.029046
def publish(tgt, fun, arg=None, tgt_type='glob', returner='', timeout=5, roster=None): ''' Publish a command "from the minion out to other minions". In reality, the minion does not execute this function, it is executed by the master. Th...	[ "def", "publish", "(", "tgt", ",", "fun", ",", "arg", "=", "None", ",", "tgt_type", "=", "'glob'", ",", "returner", "=", "''", ",", "timeout", "=", "5", ",", "roster", "=", "None", ")", ":", "return", "_publish", "(", "tgt", ",", "fun", ",", "arg...	28.863014	0.001836
def load_tt_file(self, locale, path_func=None, encoding=None): """ Load a tt file's tt dict into \|self.tt_dd\|. \|tt\| means text transform. locale: locale key into \|self.tt_dd\|. path_func: tt file path func encoding: tt file encoding """ #/...	[ "def", "load_tt_file", "(", "self", ",", "locale", ",", "path_func", "=", "None", ",", "encoding", "=", "None", ")", ":", "#/", "path_func", "=", "path_func", "or", "self", ".", "path_func", "encoding", "=", "encoding", "or", "self", ".", "file_encoding", ...	31.225	0.020186
def _serialise_posts_and_tags_from_joined_rows(cls, joined_rows): """ Translates multiple rows of joined post and tag information into the dictionary format expected by flask-blogging. There will be one row per post/tag pairing. """ posts_by_id = OrderedDict() tag...	[ "def", "_serialise_posts_and_tags_from_joined_rows", "(", "cls", ",", "joined_rows", ")", ":", "posts_by_id", "=", "OrderedDict", "(", ")", "tags_by_post_id", "=", "defaultdict", "(", "list", ")", "for", "joined_row", "in", "joined_rows", ":", "post_id", "=", "joi...	39.35	0.002481
def solve_ideal(n,c,t,segments): """solve_ideal: use ideal point for finding set of solutions for two-objective TSP Parameters: - n: number of cities - c,t: alternative edge weights, to compute two objective functions - segments: number of segments for finding various non-dominated solut...	[ "def", "solve_ideal", "(", "n", ",", "c", ",", "t", ",", "segments", ")", ":", "model", "=", "base_model", "(", "n", ",", "c", ",", "t", ")", "# base model for minimizing cost or time", "x", ",", "u", ",", "C", ",", "T", "=", "model", ".", "data", ...	35.553191	0.011066
def check_yaml_configs(configs, key): """Get a diagnostic for the yaml configs. key is the section to look for to get a name for the config at hand. """ diagnostic = {} for i in configs: for fname in i: with open(fname) as stream: try: res...	[ "def", "check_yaml_configs", "(", "configs", ",", "key", ")", ":", "diagnostic", "=", "{", "}", "for", "i", "in", "configs", ":", "for", "fname", "in", "i", ":", "with", "open", "(", "fname", ")", "as", "stream", ":", "try", ":", "res", "=", "yaml"...	37.038462	0.001012
def get_drake_data(steps): """ Returns: a dictionary of outputs mapped to inputs Note that an output is either a target or a leaf node in the step tree """ output_inputs = {} if len(steps) == 0: return output_inputs for step in steps: output_inputs[step] = get_inputs...	[ "def", "get_drake_data", "(", "steps", ")", ":", "output_inputs", "=", "{", "}", "if", "len", "(", "steps", ")", "==", "0", ":", "return", "output_inputs", "for", "step", "in", "steps", ":", "output_inputs", "[", "step", "]", "=", "get_inputs", "(", "s...	27.105263	0.001876
def cc_to_local_params(pitch, radius, oligo): """Returns local parameters for an oligomeric assembly. Parameters ---------- pitch : float Pitch of assembly radius : float Radius of assembly oligo : int Oligomeric state of assembly Returns ------- pitchloc : ...	[ "def", "cc_to_local_params", "(", "pitch", ",", "radius", ",", "oligo", ")", ":", "rloc", "=", "numpy", ".", "sin", "(", "numpy", ".", "pi", "/", "oligo", ")", "", "radius", "alpha", "=", "numpy", ".", "arctan", "(", "(", "2", "", "numpy", ".", ...	29.846154	0.001248
def migrate(): ''' Migrate zones from old to new ids in datasets. Should only be run once with the new version of geozones w/ geohisto. ''' counter = Counter() drom_zone = GeoZone.objects(id='country-subset:fr:drom').first() dromcom_zone = GeoZone.objects(id='country-subset:fr:dromcom').fir...	[ "def", "migrate", "(", ")", ":", "counter", "=", "Counter", "(", ")", "drom_zone", "=", "GeoZone", ".", "objects", "(", "id", "=", "'country-subset:fr:drom'", ")", ".", "first", "(", ")", "dromcom_zone", "=", "GeoZone", ".", "objects", "(", "id", "=", ...	39.488372	0.000287
def list_upgrades(bin_env=None, user=None, cwd=None): ''' Check whether or not an upgrade is available for all packages CLI Example: .. code-block:: bash salt '*' pip.list_upgrades ''' cmd = _get_pip_bin(bin_env) cmd.extend(['list', '--outdated'...	[ "def", "list_upgrades", "(", "bin_env", "=", "None", ",", "user", "=", "None", ",", "cwd", "=", "None", ")", ":", "cmd", "=", "_get_pip_bin", "(", "bin_env", ")", "cmd", ".", "extend", "(", "[", "'list'", ",", "'--outdated'", "]", ")", "pip_version", ...	36.223684	0.000707
def drag_and_drop(self, source_selector, destination_selector, **kwargs): """Drag and drop Args: source_selector: (str) destination_selector: (str) Kwargs: use_javascript_dnd: bool; default: config proxy_driver:use_javascript_dnd """ ...	[ "def", "drag_and_drop", "(", "self", ",", "source_selector", ",", "destination_selector", ",", "", "", "kwargs", ")", ":", "self", ".", "info_log", "(", "\"Drag and drop: source (%s); destination (%s)\"", "%", "(", "source_selector", ",", "destination_selector", ")"...	47.686275	0.000806
def _try_get_string(dev, index, langid = None, default_str_i0 = "", default_access_error = "Error Accessing String"): """ try to get a string, but return a string no matter what """ if index == 0 : string = default_str_i0 else: try: if langid is None: ...	[ "def", "_try_get_string", "(", "dev", ",", "index", ",", "langid", "=", "None", ",", "default_str_i0", "=", "\"\"", ",", "default_access_error", "=", "\"Error Accessing String\"", ")", ":", "if", "index", "==", "0", ":", "string", "=", "default_str_i0", "else"...	33.2	0.021484
def _cls_lookup_dist(cls): """ Attempt to resolve the distribution from the provided class in the most naive way - this assumes the Python module path to the class contains the name of the package that provided the module and class. """ frags = cls.__module__.split('.') for name in ('.'.joi...	[ "def", "_cls_lookup_dist", "(", "cls", ")", ":", "frags", "=", "cls", ".", "__module__", ".", "split", "(", "'.'", ")", "for", "name", "in", "(", "'.'", ".", "join", "(", "frags", "[", ":", "x", "]", ")", "for", "x", "in", "range", "(", "len", ...	36.083333	0.002252
def get_samples_with_constraints(self, init_points_count): """ Draw random samples and only save those that satisfy constraints Finish when required number of samples is generated """ samples = np.empty((0, self.space.dimensionality)) while samples.shape[0] < init_points...	[ "def", "get_samples_with_constraints", "(", "self", ",", "init_points_count", ")", ":", "samples", "=", "np", ".", "empty", "(", "(", "0", ",", "self", ".", "space", ".", "dimensionality", ")", ")", "while", "samples", ".", "shape", "[", "0", "]", "<", ...	46.866667	0.009763
def get_process(cmd): """Get a command process.""" if sys.platform.startswith('win'): startupinfo = subprocess.STARTUPINFO() startupinfo.dwFlags \|= subprocess.STARTF_USESHOWWINDOW process = subprocess.Popen( cmd, startupinfo=startupinfo, stdout=subpro...	[ "def", "get_process", "(", "cmd", ")", ":", "if", "sys", ".", "platform", ".", "startswith", "(", "'win'", ")", ":", "startupinfo", "=", "subprocess", ".", "STARTUPINFO", "(", ")", "startupinfo", ".", "dwFlags", "\|=", "subprocess", ".", "STARTF_USESHOWWINDOW...	27.826087	0.001511
def is_paired(text, open='(', close=')'): """Check if the text only contains: 1. blackslash escaped parentheses, or 2. parentheses paired. """ count = 0 escape = False for c in text: if escape: escape = False elif c == '\\': escape = True elif ...	[ "def", "is_paired", "(", "text", ",", "open", "=", "'('", ",", "close", "=", "')'", ")", ":", "count", "=", "0", "escape", "=", "False", "for", "c", "in", "text", ":", "if", "escape", ":", "escape", "=", "False", "elif", "c", "==", "'\\\\'", ":",...	24.263158	0.002088
def wrap_tuple_streams(unwrapped, kdims, streams): """ Fills in tuple keys with dimensioned stream values as appropriate. """ param_groups = [(s.contents.keys(), s) for s in streams] pairs = [(name,s) for (group, s) in param_groups for name in group] substituted = [] for pos,el in enumerate...	[ "def", "wrap_tuple_streams", "(", "unwrapped", ",", "kdims", ",", "streams", ")", ":", "param_groups", "=", "[", "(", "s", ".", "contents", ".", "keys", "(", ")", ",", "s", ")", "for", "s", "in", "streams", "]", "pairs", "=", "[", "(", "name", ",",...	42.4	0.010769
def set_cycle_mrkr(self, epoch_start, end=False): """Mark epoch start as cycle start or end. Parameters ---------- epoch_start: int start time of the epoch, in seconds end : bool If True, marked as cycle end; otherwise, marks cycle start """ ...	[ "def", "set_cycle_mrkr", "(", "self", ",", "epoch_start", ",", "end", "=", "False", ")", ":", "if", "self", ".", "rater", "is", "None", ":", "raise", "IndexError", "(", "'You need to have at least one rater'", ")", "bound", "=", "'start'", "if", "end", ":", ...	33.925926	0.002123
def _dimensions(self): """tuple of dimension objects in this collection. This composed tuple is the source for the dimension objects in this collection. """ return tuple(d for d in self._all_dimensions if d.dimension_type != DT.MR_CAT)	[ "def", "_dimensions", "(", "self", ")", ":", "return", "tuple", "(", "d", "for", "d", "in", "self", ".", "_all_dimensions", "if", "d", ".", "dimension_type", "!=", "DT", ".", "MR_CAT", ")" ]	38.571429	0.01087
def make_reader_task(self, stream, callback): """ Create a reader executor task for a stream. """ return self.loop.create_task(self.executor_wrapper(background_reader, stream, self.loop, callback))	[ "def", "make_reader_task", "(", "self", ",", "stream", ",", "callback", ")", ":", "return", "self", ".", "loop", ".", "create_task", "(", "self", ".", "executor_wrapper", "(", "background_reader", ",", "stream", ",", "self", ".", "loop", ",", "callback", "...	37.5	0.013043
def unassign_comment_from_book(self, comment_id, book_id): """Removes a ``Comment`` from a ``Book``. arg: comment_id (osid.id.Id): the ``Id`` of the ``Comment`` arg: book_id (osid.id.Id): the ``Id`` of the ``Book`` raise: NotFound - ``comment_id`` or ``book_id`` not found or ...	[ "def", "unassign_comment_from_book", "(", "self", ",", "comment_id", ",", "book_id", ")", ":", "# Implemented from template for", "# osid.resource.ResourceBinAssignmentSession.unassign_resource_from_bin", "mgr", "=", "self", ".", "_get_provider_manager", "(", "'COMMENTING'", ",...	53.315789	0.00194
def remove_actor(self, actor, reset_camera=False): """ Removes an actor from the Renderer. Parameters ---------- actor : vtk.vtkActor Actor that has previously added to the Renderer. reset_camera : bool, optional Resets camera so all actors can b...	[ "def", "remove_actor", "(", "self", ",", "actor", ",", "reset_camera", "=", "False", ")", ":", "name", "=", "None", "if", "isinstance", "(", "actor", ",", "str", ")", ":", "name", "=", "actor", "keys", "=", "list", "(", "self", ".", "_actors", ".", ...	31.466667	0.001027
def json2paramater(self, ss_spec): ''' generate all possible configs for hyperparameters from hyperparameter space. ss_spec: hyperparameter space ''' if isinstance(ss_spec, dict): if '_type' in ss_spec.keys(): _type = ss_spec['_type'] _...	[ "def", "json2paramater", "(", "self", ",", "ss_spec", ")", ":", "if", "isinstance", "(", "ss_spec", ",", "dict", ")", ":", "if", "'_type'", "in", "ss_spec", ".", "keys", "(", ")", ":", "_type", "=", "ss_spec", "[", "'_type'", "]", "_value", "=", "ss_...	42.194444	0.001931
def GT(self, a, b): """Greater-than comparison""" return Operators.ITEBV(256, Operators.UGT(a, b), 1, 0)	[ "def", "GT", "(", "self", ",", "a", ",", "b", ")", ":", "return", "Operators", ".", "ITEBV", "(", "256", ",", "Operators", ".", "UGT", "(", "a", ",", "b", ")", ",", "1", ",", "0", ")" ]	39.333333	0.016667
def generate_join_docs_list(self, left_collection_list, right_collection_list): """ Helper function for merge_join_docs :param left_collection_list: Left Collection to be joined :type left_collection_list: MongoCollection :param right_collection_list: Right Coll...	[ "def", "generate_join_docs_list", "(", "self", ",", "left_collection_list", ",", "right_collection_list", ")", ":", "joined_docs", "=", "[", "]", "if", "(", "len", "(", "left_collection_list", ")", "!=", "0", ")", "and", "(", "len", "(", "right_collection_list",...	43.740741	0.002486
def default_scopes(self, scopes): """Set default scopes for client.""" validate_scopes(scopes) self._default_scopes = " ".join(set(scopes)) if scopes else ""	[ "def", "default_scopes", "(", "self", ",", "scopes", ")", ":", "validate_scopes", "(", "scopes", ")", "self", ".", "_default_scopes", "=", "\" \"", ".", "join", "(", "set", "(", "scopes", ")", ")", "if", "scopes", "else", "\"\"" ]	44.5	0.01105
def main() -> None: """ Command-line handler for the ``grep_in_openxml`` tool. Use the ``--help`` option for help. """ parser = ArgumentParser( formatter_class=RawDescriptionHelpFormatter, description=""" Performs a grep (global-regular-expression-print) search of files in OpenXML fo...	[ "def", "main", "(", ")", "->", "None", ":", "parser", "=", "ArgumentParser", "(", "formatter_class", "=", "RawDescriptionHelpFormatter", ",", "description", "=", "\"\"\"\nPerforms a grep (global-regular-expression-print) search of files in OpenXML\nformat, which is to say inside ZI...	36.731092	0.000223
def svd_convolution(inp, outmaps, kernel, r, pad=None, stride=None, dilation=None, uv_init=None, b_init=None, base_axis=1, fix_parameters=False, rng=None, with_bias=True): """SVD convolution is a low rank approximation of the convolution layer. It can be seen as a depth w...	[ "def", "svd_convolution", "(", "inp", ",", "outmaps", ",", "kernel", ",", "r", ",", "pad", "=", "None", ",", "stride", "=", "None", ",", "dilation", "=", "None", ",", "uv_init", "=", "None", ",", "b_init", "=", "None", ",", "base_axis", "=", "1", "...	39.22449	0.001184
def import_task_to_graph(diagram_graph, process_id, process_attributes, task_element): """ Adds to graph the new element that represents BPMN task. In our representation tasks have only basic attributes and elements, inherited from Activity type, so this method only needs to call add_flo...	[ "def", "import_task_to_graph", "(", "diagram_graph", ",", "process_id", ",", "process_attributes", ",", "task_element", ")", ":", "BpmnDiagramGraphImport", ".", "import_activity_to_graph", "(", "diagram_graph", ",", "process_id", ",", "process_attributes", ",", "task_elem...	64.538462	0.009401
def snapshot(self, mode): ''' Take a snapshot of the system. ''' self._init_env() self._save_cfg_packages(self._get_changed_cfg_pkgs(self._get_cfg_pkgs())) self._save_payload(*self._scan_payload())	[ "def", "snapshot", "(", "self", ",", "mode", ")", ":", "self", ".", "_init_env", "(", ")", "self", ".", "_save_cfg_packages", "(", "self", ".", "_get_changed_cfg_pkgs", "(", "self", ".", "_get_cfg_pkgs", "(", ")", ")", ")", "self", ".", "_save_payload", ...	29.875	0.012195
def lookup_job_tasks(self, statuses, user_ids=None, job_ids=None, job_names=None, task_ids=None, task_attempts=None, labels=None, create...	[ "def", "lookup_job_tasks", "(", "self", ",", "statuses", ",", "user_ids", "=", "None", ",", "job_ids", "=", "None", ",", "job_names", "=", "None", ",", "task_ids", "=", "None", ",", "task_attempts", "=", "None", ",", "labels", "=", "None", ",", "create_t...	44.222222	0.008605
def send(self, dispatcher): """Sends this outgoing packet to dispatcher's socket""" if self.sent_complete: return sent = dispatcher.send(self.to_send) self.to_send = self.to_send[sent:]	[ "def", "send", "(", "self", ",", "dispatcher", ")", ":", "if", "self", ".", "sent_complete", ":", "return", "sent", "=", "dispatcher", ".", "send", "(", "self", ".", "to_send", ")", "self", ".", "to_send", "=", "self", ".", "to_send", "[", "sent", ":...	28.857143	0.009615
def get_libsodium(): '''Locate the libsodium C library''' __SONAMES = (13, 10, 5, 4) # Import libsodium from system sys_sodium = ctypes.util.find_library('sodium') if sys_sodium is None: sys_sodium = ctypes.util.find_library('libsodium') if sys_sodium: try: return c...	[ "def", "get_libsodium", "(", ")", ":", "__SONAMES", "=", "(", "13", ",", "10", ",", "5", ",", "4", ")", "# Import libsodium from system", "sys_sodium", "=", "ctypes", ".", "util", ".", "find_library", "(", "'sodium'", ")", "if", "sys_sodium", "is", "None",...	28.377358	0.000643
def load_extra_emacs_page_navigation_bindings(): """ Key bindings, for scrolling up and down through pages. This are separate bindings, because GNU readline doesn't have them. """ registry = ConditionalRegistry(Registry(), EmacsMode()) handle = registry.add_binding handle(Keys.ControlV)(scr...	[ "def", "load_extra_emacs_page_navigation_bindings", "(", ")", ":", "registry", "=", "ConditionalRegistry", "(", "Registry", "(", ")", ",", "EmacsMode", "(", ")", ")", "handle", "=", "registry", ".", "add_binding", "handle", "(", "Keys", ".", "ControlV", ")", "...	33.642857	0.002066
def _calc_dist2root(self): """ For each node in the tree, set its root-to-node distance as dist2root attribute """ self.tree.root.dist2root = 0.0 for clade in self.tree.get_nonterminals(order='preorder'): # parents first for c in clade.clades: ...	[ "def", "_calc_dist2root", "(", "self", ")", ":", "self", ".", "tree", ".", "root", ".", "dist2root", "=", "0.0", "for", "clade", "in", "self", ".", "tree", ".", "get_nonterminals", "(", "order", "=", "'preorder'", ")", ":", "# parents first", "for", "c",...	42.363636	0.010504
def plot_sites(calc_id=-1): """ Plot the sites """ # NB: matplotlib is imported inside since it is a costly import import matplotlib.pyplot as p dstore = util.read(calc_id) sitecol = dstore['sitecol'] lons, lats = sitecol.lons, sitecol.lats if len(lons) > 1 and cross_idl(*lons): ...	[ "def", "plot_sites", "(", "calc_id", "=", "-", "1", ")", ":", "# NB: matplotlib is imported inside since it is a costly import", "import", "matplotlib", ".", "pyplot", "as", "p", "dstore", "=", "util", ".", "read", "(", "calc_id", ")", "sitecol", "=", "dstore", ...	30.363636	0.001451
def _advapi32_sign(private_key, data, hash_algorithm, rsa_pss_padding=False): """ Generates an RSA, DSA or ECDSA signature via CryptoAPI :param private_key: The PrivateKey to generate the signature with :param data: A byte string of the data the signature is for :param hash_algori...	[ "def", "_advapi32_sign", "(", "private_key", ",", "data", ",", "hash_algorithm", ",", "rsa_pss_padding", "=", "False", ")", ":", "algo", "=", "private_key", ".", "algorithm", "if", "algo", "==", "'rsa'", "and", "hash_algorithm", "==", "'raw'", ":", "padded_dat...	29.915966	0.001088
def save_dependencies(self, instance, schema): """Save data: and list:data: references as parents.""" def add_dependency(value): """Add parent Data dependency.""" try: DataDependency.objects.update_or_create( parent=Data.objects.get(pk=value), ...	[ "def", "save_dependencies", "(", "self", ",", "instance", ",", "schema", ")", ":", "def", "add_dependency", "(", "value", ")", ":", "\"\"\"Add parent Data dependency.\"\"\"", "try", ":", "DataDependency", ".", "objects", ".", "update_or_create", "(", "parent", "="...	39.363636	0.002255
def sync_hooks(user_id, repositories): """Sync repository hooks for a user.""" from .api import GitHubAPI try: # Sync hooks gh = GitHubAPI(user_id=user_id) for repo_id in repositories: try: with db.session.begin_nested(): gh.sync_repo_...	[ "def", "sync_hooks", "(", "user_id", ",", "repositories", ")", ":", "from", ".", "api", "import", "GitHubAPI", "try", ":", "# Sync hooks", "gh", "=", "GitHubAPI", "(", "user_id", "=", "user_id", ")", "for", "repo_id", "in", "repositories", ":", "try", ":",...	37.3	0.001307
def create_plane(width=1, height=1, width_segments=1, height_segments=1, direction='+z'): """ Generate vertices & indices for a filled and outlined plane. Parameters ---------- width : float Plane width. height : float Plane height. width_segments : int ...	[ "def", "create_plane", "(", "width", "=", "1", ",", "height", "=", "1", ",", "width_segments", "=", "1", ",", "height_segments", "=", "1", ",", "direction", "=", "'+z'", ")", ":", "x_grid", "=", "width_segments", "y_grid", "=", "height_segments", "x_grid1"...	31.682243	0.000286
def stratHeun(f, G, y0, tspan, dW=None): """Use the Stratonovich Heun algorithm to integrate Stratonovich equation dy = f(y,t)dt + G(y,t) \circ dW(t) where y is the d-dimensional state vector, f is a vector-valued function, G is an d x m matrix-valued function giving the noise coefficients and dW(t...	[ "def", "stratHeun", "(", "f", ",", "G", ",", "y0", ",", "tspan", ",", "dW", "=", "None", ")", ":", "(", "d", ",", "m", ",", "f", ",", "G", ",", "y0", ",", "tspan", ",", "dW", ",", "__", ")", "=", "_check_args", "(", "f", ",", "G", ",", ...	40.789474	0.00168
def resolve(self): """ Resolve differences between the target and the source configuration """ if self.source and self.target: for key in self.source.keys(): if (key not in self.dont_carry_over_options and not self.target.has(key)): ...	[ "def", "resolve", "(", "self", ")", ":", "if", "self", ".", "source", "and", "self", ".", "target", ":", "for", "key", "in", "self", ".", "source", ".", "keys", "(", ")", ":", "if", "(", "key", "not", "in", "self", ".", "dont_carry_over_options", "...	51	0.008264
def delete_message(queue, region, receipthandle, opts=None, user=None): ''' Delete one or more messages from a queue in a region queue The name of the queue to delete messages from region Region where SQS queues exists receipthandle The ReceiptHandle of the message to dele...	[ "def", "delete_message", "(", "queue", ",", "region", ",", "receipthandle", ",", "opts", "=", "None", ",", "user", "=", "None", ")", ":", "queues", "=", "list_queues", "(", "region", ",", "opts", ",", "user", ")", "url_map", "=", "_parse_queue_list", "("...	26.973684	0.001883
def est_propensity_s(self, lin_B=None, C_lin=1, C_qua=2.71): """ Estimates the propensity score with covariates selected using the algorithm suggested by [1]_. The propensity score is the conditional probability of receiving the treatment given the observed covariates. Estimation is done via a logistic r...	[ "def", "est_propensity_s", "(", "self", ",", "lin_B", "=", "None", ",", "C_lin", "=", "1", ",", "C_qua", "=", "2.71", ")", ":", "lin_basic", "=", "parse_lin_terms", "(", "self", ".", "raw_data", "[", "'K'", "]", ",", "lin_B", ")", "self", ".", "prope...	31.727273	0.028492
def reshape_bar_plot(df, x, y, bars): """Reshape data from long form to "bar plot form". Bar plot form has x value as the index with one column for bar grouping. Table values come from y values. """ idx = [bars, x] if df.duplicated(idx).any(): warnings.warn('Duplicated index found.') ...	[ "def", "reshape_bar_plot", "(", "df", ",", "x", ",", "y", ",", "bars", ")", ":", "idx", "=", "[", "bars", ",", "x", "]", "if", "df", ".", "duplicated", "(", "idx", ")", ".", "any", "(", ")", ":", "warnings", ".", "warn", "(", "'Duplicated index f...	34.416667	0.002358
def shorten(string, max_length=80, trailing_chars=3): ''' trims the 'string' argument down to 'max_length' to make previews to long string values ''' assert type(string).__name__ in {'str', 'unicode'}, 'shorten needs string to be a string, not {}'.format(type(string)) assert type(max_length) == int, 'shorte...	[ "def", "shorten", "(", "string", ",", "max_length", "=", "80", ",", "trailing_chars", "=", "3", ")", ":", "assert", "type", "(", "string", ")", ".", "__name__", "in", "{", "'str'", ",", "'unicode'", "}", ",", "'shorten needs string to be a string, not {}'", ...	60.625	0.008122
def clear_dns_cache(self, host: Optional[str]=None, port: Optional[int]=None) -> None: """Remove specified host/port or clear all dns local cache.""" if host is not None and port is not None: self._cached_hosts.remove((host, port)) elif...	[ "def", "clear_dns_cache", "(", "self", ",", "host", ":", "Optional", "[", "str", "]", "=", "None", ",", "port", ":", "Optional", "[", "int", "]", "=", "None", ")", "->", "None", ":", "if", "host", "is", "not", "None", "and", "port", "is", "not", ...	47.181818	0.015123
def interpolate(self, df): """Interpolate this `FrequencySeries` to a new resolution. Parameters ---------- df : `float` desired frequency resolution of the interpolated `FrequencySeries`, in Hz Returns ------- out : `FrequencySeries` ...	[ "def", "interpolate", "(", "self", ",", "df", ")", ":", "f0", "=", "self", ".", "f0", ".", "decompose", "(", ")", ".", "value", "N", "=", "(", "self", ".", "size", "-", "1", ")", "*", "(", "self", ".", "df", ".", "decompose", "(", ")", ".", ...	31.821429	0.002179
def plot_daily_volume(returns, transactions, ax=None, **kwargs): """ Plots trading volume per day vs. date. Also displays all-time daily average. Parameters ---------- returns : pd.Series Daily returns of the strategy, noncumulative. - See full explanation in tears.create_full...	[ "def", "plot_daily_volume", "(", "returns", ",", "transactions", ",", "ax", "=", "None", ",", "", "", "kwargs", ")", ":", "if", "ax", "is", "None", ":", "ax", "=", "plt", ".", "gca", "(", ")", "daily_txn", "=", "txn", ".", "get_txn_vol", "(", "tr...	31.333333	0.00086
def _get_mount_methods(self, disk_type): """Finds which mount methods are suitable for the specified disk type. Returns a list of all suitable mount methods. """ if self.disk_mounter == 'auto': methods = [] def add_method_if_exists(method): if (me...	[ "def", "_get_mount_methods", "(", "self", ",", "disk_type", ")", ":", "if", "self", ".", "disk_mounter", "==", "'auto'", ":", "methods", "=", "[", "]", "def", "add_method_if_exists", "(", "method", ")", ":", "if", "(", "method", "==", "'avfs'", "and", "_...	40.21875	0.002276
def draw_court(ax=None, color='gray', lw=1, outer_lines=False): """Returns an axes with a basketball court drawn onto to it. This function draws a court based on the x and y-axis values that the NBA stats API provides for the shot chart data. For example the center of the hoop is located at the (0,0) ...	[ "def", "draw_court", "(", "ax", "=", "None", ",", "color", "=", "'gray'", ",", "lw", "=", "1", ",", "outer_lines", "=", "False", ")", ":", "if", "ax", "is", "None", ":", "ax", "=", "plt", ".", "gca", "(", ")", "# Create the various parts of an NBA bask...	40.561798	0.00027
def import_locations(self, gpx_file): """Import GPX data files. ``import_locations()`` returns a series of lists representing track segments with :class:`Trackpoint` objects as contents. It expects data files in GPX format, as specified in `GPX 1.1 Schema Documentation`_, which...	[ "def", "import_locations", "(", "self", ",", "gpx_file", ")", ":", "self", ".", "_gpx_file", "=", "gpx_file", "data", "=", "utils", ".", "prepare_xml_read", "(", "gpx_file", ",", "objectify", "=", "True", ")", "try", ":", "self", ".", "metadata", ".", "i...	38.426667	0.001691
def ValidOptions(cls): """Returns a list of valid option names.""" valid_options = [] for obj_name in dir(cls): obj = getattr(cls, obj_name) if inspect.isclass(obj) and issubclass(obj, cls.OptionBase): valid_options.append(obj_name) return valid_options	[ "def", "ValidOptions", "(", "cls", ")", ":", "valid_options", "=", "[", "]", "for", "obj_name", "in", "dir", "(", "cls", ")", ":", "obj", "=", "getattr", "(", "cls", ",", "obj_name", ")", "if", "inspect", ".", "isclass", "(", "obj", ")", "and", "is...	35.25	0.010381
def import_from_json(self, data): """ Replace the current roster with the :meth:`export_as_json`-compatible dictionary in `data`. No events are fired during this activity. After this method completes, the whole roster contents are exchanged with the contents from `data`. ...	[ "def", "import_from_json", "(", "self", ",", "data", ")", ":", "self", ".", "version", "=", "data", ".", "get", "(", "\"ver\"", ",", "None", ")", "self", ".", "items", ".", "clear", "(", ")", "self", ".", "groups", ".", "clear", "(", ")", "for", ...	38.217391	0.00222
async def set_gpio_mode(self, gpio_id, mode, timeout=OTGW_DEFAULT_TIMEOUT): """ Configure the functions of the two GPIO pins of the gateway. The following functions are available: 0 No function, default for both ports on a freshly flashed chip 1 Ground - A permanently low output...	[ "async", "def", "set_gpio_mode", "(", "self", ",", "gpio_id", ",", "mode", ",", "timeout", "=", "OTGW_DEFAULT_TIMEOUT", ")", ":", "if", "gpio_id", "in", "\"AB\"", "and", "mode", "in", "range", "(", "8", ")", ":", "if", "mode", "==", "7", "and", "gpio_i...	43.906977	0.001036
def return_api_response(formatter=None): """ Decorator, which Applies the referenced formatter (if available) to the function output and adds it to the APIResponse Object's `formatted` attribute. :param formatter: bitex.formatters.Formatter() obj :return: bitex.api.response.APIResponse() """...	[ "def", "return_api_response", "(", "formatter", "=", "None", ")", ":", "def", "decorator", "(", "func", ")", ":", "@", "wraps", "(", "func", ")", "def", "wrapper", "(", "", "args", ",", "", "*", "kwargs", ")", ":", "try", ":", "r", "=", "func", ...	35.489796	0.001679
def SetHighlight( self, node, point=None, propagate=True ): """Set the currently-highlighted node""" if node == self.highlightedNode: return self.highlightedNode = node # TODO: restrict refresh to the squares for previous node and new node... self.UpdateDrawing() ...	[ "def", "SetHighlight", "(", "self", ",", "node", ",", "point", "=", "None", ",", "propagate", "=", "True", ")", ":", "if", "node", "==", "self", ".", "highlightedNode", ":", "return", "self", ".", "highlightedNode", "=", "node", "# TODO: restrict refresh to ...	47.666667	0.022883
def mpool(self, k_height, k_width, d_height=2, d_width=2, mode="VALID", input_layer=None, num_channels_in=None): """Construct a max pooling layer.""" return self._pool("mpool", pooling_layers.max_pooling2d,...	[ "def", "mpool", "(", "self", ",", "k_height", ",", "k_width", ",", "d_height", "=", "2", ",", "d_width", "=", "2", ",", "mode", "=", "\"VALID\"", ",", "input_layer", "=", "None", ",", "num_channels_in", "=", "None", ")", ":", "return", "self", ".", "...	36.25	0.020179
def destroy(name, conn=None, call=None): ''' Delete a single VM ''' if call == 'function': raise SaltCloudSystemExit( 'The destroy action must be called with -d, --destroy, ' '-a or --action.' ) __utils__['cloud.fire_event']( 'event', 'destroy...	[ "def", "destroy", "(", "name", ",", "conn", "=", "None", ",", "call", "=", "None", ")", ":", "if", "call", "==", "'function'", ":", "raise", "SaltCloudSystemExit", "(", "'The destroy action must be called with -d, --destroy, '", "'-a or --action.'", ")", "__utils__"...	35.870968	0.001751
def decode_body(body, content_type): """Decode event body""" if isinstance(body, dict): return body else: try: decoded_body = base64.b64decode(body) except: return body if content_type == 'application/json': ...	[ "def", "decode_body", "(", "body", ",", "content_type", ")", ":", "if", "isinstance", "(", "body", ",", "dict", ")", ":", "return", "body", "else", ":", "try", ":", "decoded_body", "=", "base64", ".", "b64decode", "(", "body", ")", "except", ":", "retu...	25.055556	0.008547
def conjugate(self): """Complex conjugate of of the product""" return self.__class__.create( *[arg.conjugate() for arg in reversed(self.args)])	[ "def", "conjugate", "(", "self", ")", ":", "return", "self", ".", "__class__", ".", "create", "(", "*", "[", "arg", ".", "conjugate", "(", ")", "for", "arg", "in", "reversed", "(", "self", ".", "args", ")", "]", ")" ]	42	0.011696
def residual_resample(weights): """ Performs the residual resampling algorithm used by particle filters. Based on observation that we don't need to use random numbers to select most of the weights. Take int(N*w^i) samples of each particle i, and then resample any remaining using a standard resampling a...	[ "def", "residual_resample", "(", "weights", ")", ":", "N", "=", "len", "(", "weights", ")", "indexes", "=", "np", ".", "zeros", "(", "N", ",", "'i'", ")", "# take int(N*w) copies of each weight, which ensures particles with the", "# same weight are drawn uniformly", "...	31.74	0.002445
def add_value_event(self, event_value, func, event_type=None, parameters=None, **kwargs): """ Add a function that is called when the value reach or pass the event_value. :param event_value: A single value or range specified as a tuple. If it is a range the function spec...	[ "def", "add_value_event", "(", "self", ",", "event_value", ",", "func", ",", "event_type", "=", "None", ",", "parameters", "=", "None", ",", "", "", "kwargs", ")", ":", "self", ".", "_sensor_value", ".", "add_value_event", "(", "event_value", ",", "func"...	40.130435	0.008466
def run_query_segments(doc, proc_id, engine, gps_start_time, gps_end_time, included_segments_string, excluded_segments_string = None, write_segments = True, start_pad = 0, end_pad = 0): """Runs a segment query. This was originally part of ligolw_query_segments, but now is also used by ligolw_segments_from_cats...	[ "def", "run_query_segments", "(", "doc", ",", "proc_id", ",", "engine", ",", "gps_start_time", ",", "gps_end_time", ",", "included_segments_string", ",", "excluded_segments_string", "=", "None", ",", "write_segments", "=", "True", ",", "start_pad", "=", "0", ",", ...	41.369565	0.012834
def from_credentials(cls: Type[SigningKeyType], salt: Union[str, bytes], password: Union[str, bytes], scrypt_params: Optional[ScryptParams] = None) -> SigningKeyType: """ Create a SigningKey object from credentials :param salt: Secret salt passphrase credential ...	[ "def", "from_credentials", "(", "cls", ":", "Type", "[", "SigningKeyType", "]", ",", "salt", ":", "Union", "[", "str", ",", "bytes", "]", ",", "password", ":", "Union", "[", "str", ",", "bytes", "]", ",", "scrypt_params", ":", "Optional", "[", "ScryptP...	41.588235	0.008299
def _ScheduleTasks(self, storage_writer): """Schedules tasks. Args: storage_writer (StorageWriter): storage writer for a session storage. """ logger.debug('Task scheduler started') self._status = definitions.STATUS_INDICATOR_RUNNING # TODO: make tasks persistent. # TODO: protect ta...	[ "def", "_ScheduleTasks", "(", "self", ",", "storage_writer", ")", ":", "logger", ".", "debug", "(", "'Task scheduler started'", ")", "self", ".", "_status", "=", "definitions", ".", "STATUS_INDICATOR_RUNNING", "# TODO: make tasks persistent.", "# TODO: protect task schedu...	29.795181	0.008219
def ulocalized_time(time, long_format=None, time_only=None, context=None, request=None): """ This function gets ans string as time or a DateTime objects and returns a string with the time formatted :param time: The time to process :type time: str/DateTime :param long_format:...	[ "def", "ulocalized_time", "(", "time", ",", "long_format", "=", "None", ",", "time_only", "=", "None", ",", "context", "=", "None", ",", "request", "=", "None", ")", ":", "# if time is a string, we'll try pass it through strptime with the various", "# formats defined.",...	35.868421	0.001429
def _parse_members(self, contents, module): """Extracts any module-level members from the code. They must appear before any type declalations.""" #We need to get hold of the text before the module's main CONTAINS keyword #so that we don't find variables from executables and claim them as...	[ "def", "_parse_members", "(", "self", ",", "contents", ",", "module", ")", ":", "#We need to get hold of the text before the module's main CONTAINS keyword", "#so that we don't find variables from executables and claim them as", "#belonging to the module.", "icontains", "=", "module", ...	47.829787	0.010898
def load_metadata_from_desc_file(self, desc_file, partition='train', max_duration=16.0,): """ Read metadata from the description file (possibly takes long, depending on the filesize) Params: desc_file (str): Path to a JSON-line file that cont...	[ "def", "load_metadata_from_desc_file", "(", "self", ",", "desc_file", ",", "partition", "=", "'train'", ",", "max_duration", "=", "16.0", ",", ")", ":", "logger", "=", "logUtil", ".", "getlogger", "(", ")", "logger", ".", "info", "(", "'Reading description fil...	46.408163	0.001292
def find_bin(self, value): """Index of bin corresponding to a value. Parameters ---------- value: float Value to be searched for. Returns ------- int index of bin to which value belongs (-1=underflow, N=overflow, None=not foun...	[ "def", "find_bin", "(", "self", ",", "value", ")", ":", "ixbin", "=", "np", ".", "searchsorted", "(", "self", ".", "bin_left_edges", ",", "value", ",", "side", "=", "\"right\"", ")", "if", "ixbin", "==", "0", ":", "return", "-", "1", "elif", "ixbin",...	29	0.002384
def invert(color): """Returns the inverse (negative) of a color. The red, green, and blue values are inverted, while the opacity is left alone. """ if isinstance(color, Number): # invert(n) and invert(n%) are CSS3 filters and should be left # intact return String.unquoted("inver...	[ "def", "invert", "(", "color", ")", ":", "if", "isinstance", "(", "color", ",", "Number", ")", ":", "# invert(n) and invert(n%) are CSS3 filters and should be left", "# intact", "return", "String", ".", "unquoted", "(", "\"invert(%s)\"", "%", "(", "color", ".", "r...	37.583333	0.002165
def extract_zip(filename, extract_dir): """ Extract the sources in a temporary folder. :arg filename, name of the zip file containing the data from MapQTL which will be extracted :arg extract_dir, folder in which to extract the archive. """ LOG.info("Extracting %s in %s " % (filename, extract_di...	[ "def", "extract_zip", "(", "filename", ",", "extract_dir", ")", ":", "LOG", ".", "info", "(", "\"Extracting %s in %s \"", "%", "(", "filename", ",", "extract_dir", ")", ")", "if", "not", "os", ".", "path", ".", "exists", "(", "extract_dir", ")", ":", "tr...	39.833333	0.000583
def set_name_lists(ethnicity=None): """Set three globally available lists of names.""" if not ethnicity: ethnicity = random.choice(get_ethnicities()) print("Loading names from: " + ethnicity) filename = names_dir + ethnicity + '.json' try: with open(filename, 'r') as injson: dat...	[ "def", "set_name_lists", "(", "ethnicity", "=", "None", ")", ":", "if", "not", "ethnicity", ":", "ethnicity", "=", "random", ".", "choice", "(", "get_ethnicities", "(", ")", ")", "print", "(", "\"Loading names from: \"", "+", "ethnicity", ")", "filename", "=...	35.043478	0.014493
def prepare(self): """ does some basic validation """ try: assert(type(self.sender) is Channel) assert(type(self.receiver) is Channel) return True except: return False	[ "def", "prepare", "(", "self", ")", ":", "try", ":", "assert", "(", "type", "(", "self", ".", "sender", ")", "is", "Channel", ")", "assert", "(", "type", "(", "self", ".", "receiver", ")", "is", "Channel", ")", "return", "True", "except", ":", "ret...	24.6	0.011765
def convert_boxed_text_elements(self): """ Textual material that is part of the body of text but outside the flow of the narrative text, for example, a sidebar, marginalia, text insert (whether enclosed in a box or not), caution, tip, note box, etc. <boxed-text> elements for PLo...	[ "def", "convert_boxed_text_elements", "(", "self", ")", ":", "for", "boxed_text", "in", "self", ".", "main", ".", "getroot", "(", ")", ".", "findall", "(", "'.//boxed-text'", ")", ":", "sec_el", "=", "boxed_text", ".", "find", "(", "'sec'", ")", "if", "s...	48.321429	0.001449
def stem(self, word): """Return Lovins stem. Parameters ---------- word : str The word to stem Returns ------- str Word stem Examples -------- >>> stmr = Lovins() >>> stmr.stem('reading') 'read' ...	[ "def", "stem", "(", "self", ",", "word", ")", ":", "# lowercase, normalize, and compose", "word", "=", "normalize", "(", "'NFC'", ",", "text_type", "(", "word", ".", "lower", "(", ")", ")", ")", "for", "suffix_len", "in", "range", "(", "11", ",", "0", ...	22.935484	0.001349
def format_exception(etype, value, tback, limit=None): """ Python 2 compatible version of traceback.format_exception Accepts negative limits like the Python 3 version """ rtn = ['Traceback (most recent call last):\n'] if limit is None or limit >= 0: rtn.extend(traceback.format_tb(tback...	[ "def", "format_exception", "(", "etype", ",", "value", ",", "tback", ",", "limit", "=", "None", ")", ":", "rtn", "=", "[", "'Traceback (most recent call last):\\n'", "]", "if", "limit", "is", "None", "or", "limit", ">=", "0", ":", "rtn", ".", "extend", "...	30.125	0.002012
def startswith(string, prefix): """ Like str.startswith, but also checks that the string starts with the given prefixes sequence of graphemes. str.startswith may return true for a prefix that is not visually represented as a prefix if a grapheme cluster is continued after the prefix ends. >>> grap...	[ "def", "startswith", "(", "string", ",", "prefix", ")", ":", "return", "string", ".", "startswith", "(", "prefix", ")", "and", "safe_split_index", "(", "string", ",", "len", "(", "prefix", ")", ")", "==", "len", "(", "prefix", ")" ]	37.230769	0.008065
def list_flavors(self, retrieve_all=True, _params): """Fetches a list of all Neutron service flavors for a project.""" return self.list('flavors', self.flavors_path, retrieve_all, _params)	[ "def", "list_flavors", "(", "self", ",", "retrieve_all", "=", "True", ",", "", "", "_params", ")", ":", "return", "self", ".", "list", "(", "'flavors'", ",", "self", ".", "flavors_path", ",", "retrieve_all", ",", "", "", "_params", ")" ]	57.5	0.008584
def maximum(self, node): """ find the max node when node regard as a root node :param node: :return: max node """ temp_node = node while temp_node.right is not None: temp_node = temp_node.right return temp_node	[ "def", "maximum", "(", "self", ",", "node", ")", ":", "temp_node", "=", "node", "while", "temp_node", ".", "right", "is", "not", "None", ":", "temp_node", "=", "temp_node", ".", "right", "return", "temp_node" ]	28.2	0.017182
def size(cls, pid): """Return the number of connections in the pool :param str pid: The pool id :rtype int """ with cls._lock: cls._ensure_pool_exists(pid) return len(cls._pools[pid])	[ "def", "size", "(", "cls", ",", "pid", ")", ":", "with", "cls", ".", "_lock", ":", "cls", ".", "_ensure_pool_exists", "(", "pid", ")", "return", "len", "(", "cls", ".", "_pools", "[", "pid", "]", ")" ]	24	0.008032
def __calculate_score(self, index_point, index_cluster): """! @brief Calculates Silhouette score for the specific object defined by index_point. @param[in] index_point (uint): Index point from input data for which Silhouette score should be calculated. @param[in] index_cluster (uin...	[ "def", "__calculate_score", "(", "self", ",", "index_point", ",", "index_cluster", ")", ":", "difference", "=", "self", ".", "__calculate_dataset_difference", "(", "index_point", ")", "a_score", "=", "self", ".", "__calculate_within_cluster_score", "(", "index_cluster...	46.3125	0.009259
def success(self): """Return boolean indicating whether a solution was found.""" self._check_valid() return self._problem._p.Status == gurobipy.GRB.OPTIMAL	[ "def", "success", "(", "self", ")", ":", "self", ".", "_check_valid", "(", ")", "return", "self", ".", "_problem", ".", "_p", ".", "Status", "==", "gurobipy", ".", "GRB", ".", "OPTIMAL" ]	44	0.011173
def calculate_category_probability(self): """ Caches the individual probabilities for each category """ total_tally = 0.0 probs = {} for category, bayes_category in \ self.categories.get_categories().items(): count = bayes_category.get_tally() ...	[ "def", "calculate_category_probability", "(", "self", ")", ":", "total_tally", "=", "0.0", "probs", "=", "{", "}", "for", "category", ",", "bayes_category", "in", "self", ".", "categories", ".", "get_categories", "(", ")", ".", "items", "(", ")", ":", "cou...	36.692308	0.002043
def run_query(db, query): ''' Run SQL query and return result CLI Example: .. code-block:: bash salt '' oracle.run_query my_db "select from my_table" ''' if db in [x.keys()[0] for x in show_dbs()]: conn = _connect(show_dbs(db)[db]['uri']) else: log.debug('No uri...	[ "def", "run_query", "(", "db", ",", "query", ")", ":", "if", "db", "in", "[", "x", ".", "keys", "(", ")", "[", "0", "]", "for", "x", "in", "show_dbs", "(", ")", "]", ":", "conn", "=", "_connect", "(", "show_dbs", "(", "db", ")", "[", "db", ...	30.5	0.001767
def write(args, kwargs): """Redirectable wrapper for print statements.""" debug = kwargs.pop("debug", None) warning = kwargs.pop("warning", None) if _logger: kwargs.pop("end", None) kwargs.pop("file", None) if debug: _logger.debug(args, **kwargs) elif warn...	[ "def", "write", "(", "", "args", ",", "", "*", "kwargs", ")", ":", "debug", "=", "kwargs", ".", "pop", "(", "\"debug\"", ",", "None", ")", "warning", "=", "kwargs", ".", "pop", "(", "\"warning\"", ",", "None", ")", "if", "_logger", ":", "kwargs",...	30.133333	0.002146
def make_date(df:DataFrame, date_field:str): "Make sure `df[field_name]` is of the right date type." field_dtype = df[date_field].dtype if isinstance(field_dtype, pd.core.dtypes.dtypes.DatetimeTZDtype): field_dtype = np.datetime64 if not np.issubdtype(field_dtype, np.datetime64): df[date...	[ "def", "make_date", "(", "df", ":", "DataFrame", ",", "date_field", ":", "str", ")", ":", "field_dtype", "=", "df", "[", "date_field", "]", ".", "dtype", "if", "isinstance", "(", "field_dtype", ",", "pd", ".", "core", ".", "dtypes", ".", "dtypes", ".",...	54.571429	0.010309
def ip_addrs(interface=None, include_loopback=False, cidr=None, type=None): ''' Returns a list of IPv4 addresses assigned to the host. interface Only IP addresses from that interface will be returned. include_loopback : False Include loopback 127.0.0.1 IPv4 address. cidr D...	[ "def", "ip_addrs", "(", "interface", "=", "None", ",", "include_loopback", "=", "False", ",", "cidr", "=", "None", ",", "type", "=", "None", ")", ":", "addrs", "=", "salt", ".", "utils", ".", "network", ".", "ip_addrs", "(", "interface", "=", "interfac...	30.195122	0.001565
def get_google_links(limit, params, headers): """ function to fetch links equal to limit every Google search result page has a start index. every page contains 10 search results. """ links = [] for start_index in range(0, limit, 10): params['start'] = start_index resp = s.get("https://www.google.com/search"...	[ "def", "get_google_links", "(", "limit", ",", "params", ",", "headers", ")", ":", "links", "=", "[", "]", "for", "start_index", "in", "range", "(", "0", ",", "limit", ",", "10", ")", ":", "params", "[", "'start'", "]", "=", "start_index", "resp", "="...	32.071429	0.04329
def add_star(self, component=None, kwargs): """ Shortcut to :meth:`add_component` but with kind='star' """ kwargs.setdefault('component', component) return self.add_component('star', kwargs)	[ "def", "add_star", "(", "self", ",", "component", "=", "None", ",", "", "", "kwargs", ")", ":", "kwargs", ".", "setdefault", "(", "'component'", ",", "component", ")", "return", "self", ".", "add_component", "(", "'star'", ",", "", "", "kwargs", ")...	38.166667	0.008547
def estimate(data, fit_offset="mean", fit_profile="tilt", border_px=0, from_mask=None, ret_mask=False): """Estimate the background value of an image Parameters ---------- data: np.ndarray Data from which to compute the background value fit_profile: str The type of backg...	[ "def", "estimate", "(", "data", ",", "fit_offset", "=", "\"mean\"", ",", "fit_profile", "=", "\"tilt\"", ",", "border_px", "=", "0", ",", "from_mask", "=", "None", ",", "ret_mask", "=", "False", ")", ":", "if", "fit_profile", "not", "in", "VALID_FIT_PROFIL...	34.266667	0.000315
def run_step(context): """Get $ENVs, allowing a default if not found. Set context properties from environment variables, and specify a default if the environment variable is not found. This differs from pypyr.steps.env get, which raises an error if attempting to read an $ENV that doesn't exist. ...	[ "def", "run_step", "(", "context", ")", ":", "logger", ".", "debug", "(", "\"started\"", ")", "assert", "context", ",", "f\"context must have value for {__name__}\"", "context", ".", "assert_key_has_value", "(", "'envGet'", ",", "__name__", ")", "# allow a list OR a s...	31.852941	0.000448
def truncate(self, date): """Truncate data beyond this date in all ctables.""" truncate_slice_end = self.data_len_for_day(date) glob_path = os.path.join(self._rootdir, "", "", "*.bcolz") sid_paths = sorted(glob(glob_path)) for sid_path in sid_paths: file_name = os...	[ "def", "truncate", "(", "self", ",", "date", ")", ":", "truncate_slice_end", "=", "self", ".", "data_len_for_day", "(", "date", ")", "glob_path", "=", "os", ".", "path", ".", "join", "(", "self", ".", "_rootdir", ",", "\"\"", ",", "\"\"", ",", "\"*.b...	33.285714	0.002086
def database_add_tags(object_id, input_params={}, always_retry=True, **kwargs): """ Invokes the /database-xxxx/addTags API method. For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Tags#API-method%3A-%2Fclass-xxxx%2FaddTags """ return DXHTTPRequest('/%s/addTags' % object_id, in...	[ "def", "database_add_tags", "(", "object_id", ",", "input_params", "=", "{", "}", ",", "always_retry", "=", "True", ",", "", "", "kwargs", ")", ":", "return", "DXHTTPRequest", "(", "'/%s/addTags'", "%", "object_id", ",", "input_params", ",", "always_retry", ...	51.714286	0.008152
def wash_line(line): """Wash a text line of certain punctuation errors, replacing them with more correct alternatives. E.g.: the string 'Yes , I like python.' will be transformed into 'Yes, I like python.' @param line: (string) the line to be washed. @return: (string) the washed line. ...	[ "def", "wash_line", "(", "line", ")", ":", "line", "=", "re_space_comma", ".", "sub", "(", "','", ",", "line", ")", "line", "=", "re_space_semicolon", ".", "sub", "(", "';'", ",", "line", ")", "line", "=", "re_space_period", ".", "sub", "(", "'.'", "...	43.823529	0.001314
async def initialize(bot: Bot, host, password, rest_port, ws_port, timeout=30): """ Initializes the websocket connection to the lavalink player. .. important:: This function must only be called AFTER the bot has received its "on_ready" event! Parameters ---------- bot : Bot ...	[ "async", "def", "initialize", "(", "bot", ":", "Bot", ",", "host", ",", "password", ",", "rest_port", ",", "ws_port", ",", "timeout", "=", "30", ")", ":", "global", "_loop", "_loop", "=", "bot", ".", "loop", "player_manager", ".", "user_id", "=", "bot"...	28.32	0.001365
def run(): """CLI endpoint.""" sys.path.insert(0, os.getcwd()) logging.basicConfig(level=logging.INFO, handlers=[logging.StreamHandler()]) parser = argparse.ArgumentParser(description="Manage Application", add_help=False) parser.add_argument('app', metavar='app', type=str, h...	[ "def", "run", "(", ")", ":", "sys", ".", "path", ".", "insert", "(", "0", ",", "os", ".", "getcwd", "(", ")", ")", "logging", ".", "basicConfig", "(", "level", "=", "logging", ".", "INFO", ",", "handlers", "=", "[", "logging", ".", "StreamHandler",...	35.137931	0.00191

def get_type_lookup_session(self): """Gets the OsidSession associated with the type lookup service. return: (osid.type.TypeLookupSession) - a TypeLookupSession raise: OperationFailed - unable to complete request raise: Unimplemented - supports_type_lookup() is false compliance...

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def process_sample(job, inputs, tar_id): """ Converts sample.tar(.gz) into two fastq files. Due to edge conditions... BEWARE: HERE BE DRAGONS :param JobFunctionWrappingJob job: passed by Toil automatically :param Namespace inputs: Stores input arguments (see main) :param str tar_id: FileStore I...

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def _log_http_response(method, url, status, headers=None, content=None): """ Log the HTTP response of an HMC REST API call, at the debug level. Parameters: method (:term:`string`): HTTP method name in upper case, e.g. 'GET' url (:term:`string`): HTTP URL (base URL and oper...

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def get_num_names_in_namespace( self, namespace_id ): """ Get the number of names in a namespace """ cur = self.db.cursor() return namedb_get_num_names_in_namespace( cur, namespace_id, self.lastblock )

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def publish(tgt, fun, arg=None, tgt_type='glob', returner='', timeout=5, roster=None): ''' Publish a command "from the minion out to other minions". In reality, the minion does not execute this function, it is executed by the master. Th...

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def _serialise_posts_and_tags_from_joined_rows(cls, joined_rows): """ Translates multiple rows of joined post and tag information into the dictionary format expected by flask-blogging. There will be one row per post/tag pairing. """ posts_by_id = OrderedDict() tag...

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def solve_ideal(n,c,t,segments): """solve_ideal: use ideal point for finding set of solutions for two-objective TSP Parameters: - n: number of cities - c,t: alternative edge weights, to compute two objective functions - segments: number of segments for finding various non-dominated solut...

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def check_yaml_configs(configs, key): """Get a diagnostic for the yaml *configs*. *key* is the section to look for to get a name for the config at hand. """ diagnostic = {} for i in configs: for fname in i: with open(fname) as stream: try: res...

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def get_drake_data(steps): """ Returns: a dictionary of outputs mapped to inputs Note that an output is either a target or a leaf node in the step tree """ output_inputs = {} if len(steps) == 0: return output_inputs for step in steps: output_inputs[step] = get_inputs...

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def cc_to_local_params(pitch, radius, oligo): """Returns local parameters for an oligomeric assembly. Parameters ---------- pitch : float Pitch of assembly radius : float Radius of assembly oligo : int Oligomeric state of assembly Returns ------- pitchloc : ...

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def migrate(): ''' Migrate zones from old to new ids in datasets. Should only be run once with the new version of geozones w/ geohisto. ''' counter = Counter() drom_zone = GeoZone.objects(id='country-subset:fr:drom').first() dromcom_zone = GeoZone.objects(id='country-subset:fr:dromcom').fir...

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39.488372

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def list_upgrades(bin_env=None, user=None, cwd=None): ''' Check whether or not an upgrade is available for all packages CLI Example: .. code-block:: bash salt '*' pip.list_upgrades ''' cmd = _get_pip_bin(bin_env) cmd.extend(['list', '--outdated'...

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def drag_and_drop(self, source_selector, destination_selector, **kwargs): """Drag and drop Args: source_selector: (str) destination_selector: (str) Kwargs: use_javascript_dnd: bool; default: config proxy_driver:use_javascript_dnd """ ...

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def _try_get_string(dev, index, langid = None, default_str_i0 = "", default_access_error = "Error Accessing String"): """ try to get a string, but return a string no matter what """ if index == 0 : string = default_str_i0 else: try: if langid is None: ...

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def _cls_lookup_dist(cls): """ Attempt to resolve the distribution from the provided class in the most naive way - this assumes the Python module path to the class contains the name of the package that provided the module and class. """ frags = cls.__module__.split('.') for name in ('.'.joi...

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def get_samples_with_constraints(self, init_points_count): """ Draw random samples and only save those that satisfy constraints Finish when required number of samples is generated """ samples = np.empty((0, self.space.dimensionality)) while samples.shape[0] < init_points...

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def get_process(cmd): """Get a command process.""" if sys.platform.startswith('win'): startupinfo = subprocess.STARTUPINFO() startupinfo.dwFlags |= subprocess.STARTF_USESHOWWINDOW process = subprocess.Popen( cmd, startupinfo=startupinfo, stdout=subpro...

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def is_paired(text, open='(', close=')'): """Check if the text only contains: 1. blackslash escaped parentheses, or 2. parentheses paired. """ count = 0 escape = False for c in text: if escape: escape = False elif c == '\\': escape = True elif ...

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def wrap_tuple_streams(unwrapped, kdims, streams): """ Fills in tuple keys with dimensioned stream values as appropriate. """ param_groups = [(s.contents.keys(), s) for s in streams] pairs = [(name,s) for (group, s) in param_groups for name in group] substituted = [] for pos,el in enumerate...

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def set_cycle_mrkr(self, epoch_start, end=False): """Mark epoch start as cycle start or end. Parameters ---------- epoch_start: int start time of the epoch, in seconds end : bool If True, marked as cycle end; otherwise, marks cycle start """ ...

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def _dimensions(self): """tuple of dimension objects in this collection. This composed tuple is the source for the dimension objects in this collection. """ return tuple(d for d in self._all_dimensions if d.dimension_type != DT.MR_CAT)

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def make_reader_task(self, stream, callback): """ Create a reader executor task for a stream. """ return self.loop.create_task(self.executor_wrapper(background_reader, stream, self.loop, callback))

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def unassign_comment_from_book(self, comment_id, book_id): """Removes a ``Comment`` from a ``Book``. arg: comment_id (osid.id.Id): the ``Id`` of the ``Comment`` arg: book_id (osid.id.Id): the ``Id`` of the ``Book`` raise: NotFound - ``comment_id`` or ``book_id`` not found or ...

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def remove_actor(self, actor, reset_camera=False): """ Removes an actor from the Renderer. Parameters ---------- actor : vtk.vtkActor Actor that has previously added to the Renderer. reset_camera : bool, optional Resets camera so all actors can b...

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31.466667

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def json2paramater(self, ss_spec): ''' generate all possible configs for hyperparameters from hyperparameter space. ss_spec: hyperparameter space ''' if isinstance(ss_spec, dict): if '_type' in ss_spec.keys(): _type = ss_spec['_type'] _...

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def GT(self, a, b): """Greater-than comparison""" return Operators.ITEBV(256, Operators.UGT(a, b), 1, 0)

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39.333333

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def generate_join_docs_list(self, left_collection_list, right_collection_list): """ Helper function for merge_join_docs :param left_collection_list: Left Collection to be joined :type left_collection_list: MongoCollection :param right_collection_list: Right Coll...

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def default_scopes(self, scopes): """Set default scopes for client.""" validate_scopes(scopes) self._default_scopes = " ".join(set(scopes)) if scopes else ""

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44.5

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def main() -> None: """ Command-line handler for the ``grep_in_openxml`` tool. Use the ``--help`` option for help. """ parser = ArgumentParser( formatter_class=RawDescriptionHelpFormatter, description=""" Performs a grep (global-regular-expression-print) search of files in OpenXML fo...

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def svd_convolution(inp, outmaps, kernel, r, pad=None, stride=None, dilation=None, uv_init=None, b_init=None, base_axis=1, fix_parameters=False, rng=None, with_bias=True): """SVD convolution is a low rank approximation of the convolution layer. It can be seen as a depth w...

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def import_task_to_graph(diagram_graph, process_id, process_attributes, task_element): """ Adds to graph the new element that represents BPMN task. In our representation tasks have only basic attributes and elements, inherited from Activity type, so this method only needs to call add_flo...

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def snapshot(self, mode): ''' Take a snapshot of the system. ''' self._init_env() self._save_cfg_packages(self._get_changed_cfg_pkgs(self._get_cfg_pkgs())) self._save_payload(*self._scan_payload())

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def lookup_job_tasks(self, statuses, user_ids=None, job_ids=None, job_names=None, task_ids=None, task_attempts=None, labels=None, create...

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def send(self, dispatcher): """Sends this outgoing packet to dispatcher's socket""" if self.sent_complete: return sent = dispatcher.send(self.to_send) self.to_send = self.to_send[sent:]

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def get_libsodium(): '''Locate the libsodium C library''' __SONAMES = (13, 10, 5, 4) # Import libsodium from system sys_sodium = ctypes.util.find_library('sodium') if sys_sodium is None: sys_sodium = ctypes.util.find_library('libsodium') if sys_sodium: try: return c...

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def load_extra_emacs_page_navigation_bindings(): """ Key bindings, for scrolling up and down through pages. This are separate bindings, because GNU readline doesn't have them. """ registry = ConditionalRegistry(Registry(), EmacsMode()) handle = registry.add_binding handle(Keys.ControlV)(scr...

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def _calc_dist2root(self): """ For each node in the tree, set its root-to-node distance as dist2root attribute """ self.tree.root.dist2root = 0.0 for clade in self.tree.get_nonterminals(order='preorder'): # parents first for c in clade.clades: ...

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def plot_sites(calc_id=-1): """ Plot the sites """ # NB: matplotlib is imported inside since it is a costly import import matplotlib.pyplot as p dstore = util.read(calc_id) sitecol = dstore['sitecol'] lons, lats = sitecol.lons, sitecol.lats if len(lons) > 1 and cross_idl(*lons): ...

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def _advapi32_sign(private_key, data, hash_algorithm, rsa_pss_padding=False): """ Generates an RSA, DSA or ECDSA signature via CryptoAPI :param private_key: The PrivateKey to generate the signature with :param data: A byte string of the data the signature is for :param hash_algori...

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def save_dependencies(self, instance, schema): """Save data: and list:data: references as parents.""" def add_dependency(value): """Add parent Data dependency.""" try: DataDependency.objects.update_or_create( parent=Data.objects.get(pk=value), ...

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def sync_hooks(user_id, repositories): """Sync repository hooks for a user.""" from .api import GitHubAPI try: # Sync hooks gh = GitHubAPI(user_id=user_id) for repo_id in repositories: try: with db.session.begin_nested(): gh.sync_repo_...

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def create_plane(width=1, height=1, width_segments=1, height_segments=1, direction='+z'): """ Generate vertices & indices for a filled and outlined plane. Parameters ---------- width : float Plane width. height : float Plane height. width_segments : int ...

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def stratHeun(f, G, y0, tspan, dW=None): """Use the Stratonovich Heun algorithm to integrate Stratonovich equation dy = f(y,t)dt + G(y,t) \circ dW(t) where y is the d-dimensional state vector, f is a vector-valued function, G is an d x m matrix-valued function giving the noise coefficients and dW(t...

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def resolve(self): """ Resolve differences between the target and the source configuration """ if self.source and self.target: for key in self.source.keys(): if (key not in self.dont_carry_over_options and not self.target.has(key)): ...

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def delete_message(queue, region, receipthandle, opts=None, user=None): ''' Delete one or more messages from a queue in a region queue The name of the queue to delete messages from region Region where SQS queues exists receipthandle The ReceiptHandle of the message to dele...

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def est_propensity_s(self, lin_B=None, C_lin=1, C_qua=2.71): """ Estimates the propensity score with covariates selected using the algorithm suggested by [1]_. The propensity score is the conditional probability of receiving the treatment given the observed covariates. Estimation is done via a logistic r...

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def reshape_bar_plot(df, x, y, bars): """Reshape data from long form to "bar plot form". Bar plot form has x value as the index with one column for bar grouping. Table values come from y values. """ idx = [bars, x] if df.duplicated(idx).any(): warnings.warn('Duplicated index found.') ...

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def shorten(string, max_length=80, trailing_chars=3): ''' trims the 'string' argument down to 'max_length' to make previews to long string values ''' assert type(string).__name__ in {'str', 'unicode'}, 'shorten needs string to be a string, not {}'.format(type(string)) assert type(max_length) == int, 'shorte...

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def clear_dns_cache(self, host: Optional[str]=None, port: Optional[int]=None) -> None: """Remove specified host/port or clear all dns local cache.""" if host is not None and port is not None: self._cached_hosts.remove((host, port)) elif...

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def interpolate(self, df): """Interpolate this `FrequencySeries` to a new resolution. Parameters ---------- df : `float` desired frequency resolution of the interpolated `FrequencySeries`, in Hz Returns ------- out : `FrequencySeries` ...

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def plot_daily_volume(returns, transactions, ax=None, **kwargs): """ Plots trading volume per day vs. date. Also displays all-time daily average. Parameters ---------- returns : pd.Series Daily returns of the strategy, noncumulative. - See full explanation in tears.create_full...

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def _get_mount_methods(self, disk_type): """Finds which mount methods are suitable for the specified disk type. Returns a list of all suitable mount methods. """ if self.disk_mounter == 'auto': methods = [] def add_method_if_exists(method): if (me...

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def draw_court(ax=None, color='gray', lw=1, outer_lines=False): """Returns an axes with a basketball court drawn onto to it. This function draws a court based on the x and y-axis values that the NBA stats API provides for the shot chart data. For example the center of the hoop is located at the (0,0) ...

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def import_locations(self, gpx_file): """Import GPX data files. ``import_locations()`` returns a series of lists representing track segments with :class:`Trackpoint` objects as contents. It expects data files in GPX format, as specified in `GPX 1.1 Schema Documentation`_, which...

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def ValidOptions(cls): """Returns a list of valid option names.""" valid_options = [] for obj_name in dir(cls): obj = getattr(cls, obj_name) if inspect.isclass(obj) and issubclass(obj, cls.OptionBase): valid_options.append(obj_name) return valid_options

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def import_from_json(self, data): """ Replace the current roster with the :meth:`export_as_json`-compatible dictionary in `data`. No events are fired during this activity. After this method completes, the whole roster contents are exchanged with the contents from `data`. ...

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async def set_gpio_mode(self, gpio_id, mode, timeout=OTGW_DEFAULT_TIMEOUT): """ Configure the functions of the two GPIO pins of the gateway. The following functions are available: 0 No function, default for both ports on a freshly flashed chip 1 Ground - A permanently low output...

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def return_api_response(formatter=None): """ Decorator, which Applies the referenced formatter (if available) to the function output and adds it to the APIResponse Object's `formatted` attribute. :param formatter: bitex.formatters.Formatter() obj :return: bitex.api.response.APIResponse() """...

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def SetHighlight( self, node, point=None, propagate=True ): """Set the currently-highlighted node""" if node == self.highlightedNode: return self.highlightedNode = node # TODO: restrict refresh to the squares for previous node and new node... self.UpdateDrawing() ...

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def mpool(self, k_height, k_width, d_height=2, d_width=2, mode="VALID", input_layer=None, num_channels_in=None): """Construct a max pooling layer.""" return self._pool("mpool", pooling_layers.max_pooling2d,...

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def destroy(name, conn=None, call=None): ''' Delete a single VM ''' if call == 'function': raise SaltCloudSystemExit( 'The destroy action must be called with -d, --destroy, ' '-a or --action.' ) __utils__['cloud.fire_event']( 'event', 'destroy...

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def decode_body(body, content_type): """Decode event body""" if isinstance(body, dict): return body else: try: decoded_body = base64.b64decode(body) except: return body if content_type == 'application/json': ...

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def conjugate(self): """Complex conjugate of of the product""" return self.__class__.create( *[arg.conjugate() for arg in reversed(self.args)])

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def residual_resample(weights): """ Performs the residual resampling algorithm used by particle filters. Based on observation that we don't need to use random numbers to select most of the weights. Take int(N*w^i) samples of each particle i, and then resample any remaining using a standard resampling a...

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def add_value_event(self, event_value, func, event_type=None, parameters=None, **kwargs): """ Add a function that is called when the value reach or pass the event_value. :param event_value: A single value or range specified as a tuple. If it is a range the function spec...

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def run_query_segments(doc, proc_id, engine, gps_start_time, gps_end_time, included_segments_string, excluded_segments_string = None, write_segments = True, start_pad = 0, end_pad = 0): """Runs a segment query. This was originally part of ligolw_query_segments, but now is also used by ligolw_segments_from_cats...

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def from_credentials(cls: Type[SigningKeyType], salt: Union[str, bytes], password: Union[str, bytes], scrypt_params: Optional[ScryptParams] = None) -> SigningKeyType: """ Create a SigningKey object from credentials :param salt: Secret salt passphrase credential ...

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def _ScheduleTasks(self, storage_writer): """Schedules tasks. Args: storage_writer (StorageWriter): storage writer for a session storage. """ logger.debug('Task scheduler started') self._status = definitions.STATUS_INDICATOR_RUNNING # TODO: make tasks persistent. # TODO: protect ta...

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def ulocalized_time(time, long_format=None, time_only=None, context=None, request=None): """ This function gets ans string as time or a DateTime objects and returns a string with the time formatted :param time: The time to process :type time: str/DateTime :param long_format:...

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def _parse_members(self, contents, module): """Extracts any module-level members from the code. They must appear before any type declalations.""" #We need to get hold of the text before the module's main CONTAINS keyword #so that we don't find variables from executables and claim them as...

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def load_metadata_from_desc_file(self, desc_file, partition='train', max_duration=16.0,): """ Read metadata from the description file (possibly takes long, depending on the filesize) Params: desc_file (str): Path to a JSON-line file that cont...

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def find_bin(self, value): """Index of bin corresponding to a value. Parameters ---------- value: float Value to be searched for. Returns ------- int index of bin to which value belongs (-1=underflow, N=overflow, None=not foun...

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def invert(color): """Returns the inverse (negative) of a color. The red, green, and blue values are inverted, while the opacity is left alone. """ if isinstance(color, Number): # invert(n) and invert(n%) are CSS3 filters and should be left # intact return String.unquoted("inver...

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def extract_zip(filename, extract_dir): """ Extract the sources in a temporary folder. :arg filename, name of the zip file containing the data from MapQTL which will be extracted :arg extract_dir, folder in which to extract the archive. """ LOG.info("Extracting %s in %s " % (filename, extract_di...

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def set_name_lists(ethnicity=None): """Set three globally available lists of names.""" if not ethnicity: ethnicity = random.choice(get_ethnicities()) print("Loading names from: " + ethnicity) filename = names_dir + ethnicity + '.json' try: with open(filename, 'r') as injson: dat...

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def prepare(self): """ does some basic validation """ try: assert(type(self.sender) is Channel) assert(type(self.receiver) is Channel) return True except: return False

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def convert_boxed_text_elements(self): """ Textual material that is part of the body of text but outside the flow of the narrative text, for example, a sidebar, marginalia, text insert (whether enclosed in a box or not), caution, tip, note box, etc. <boxed-text> elements for PLo...

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def stem(self, word): """Return Lovins stem. Parameters ---------- word : str The word to stem Returns ------- str Word stem Examples -------- >>> stmr = Lovins() >>> stmr.stem('reading') 'read' ...

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def format_exception(etype, value, tback, limit=None): """ Python 2 compatible version of traceback.format_exception Accepts negative limits like the Python 3 version """ rtn = ['Traceback (most recent call last):\n'] if limit is None or limit >= 0: rtn.extend(traceback.format_tb(tback...

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def startswith(string, prefix): """ Like str.startswith, but also checks that the string starts with the given prefixes sequence of graphemes. str.startswith may return true for a prefix that is not visually represented as a prefix if a grapheme cluster is continued after the prefix ends. >>> grap...

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def list_flavors(self, retrieve_all=True, **_params): """Fetches a list of all Neutron service flavors for a project.""" return self.list('flavors', self.flavors_path, retrieve_all, **_params)

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def maximum(self, node): """ find the max node when node regard as a root node :param node: :return: max node """ temp_node = node while temp_node.right is not None: temp_node = temp_node.right return temp_node

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def size(cls, pid): """Return the number of connections in the pool :param str pid: The pool id :rtype int """ with cls._lock: cls._ensure_pool_exists(pid) return len(cls._pools[pid])

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def __calculate_score(self, index_point, index_cluster): """! @brief Calculates Silhouette score for the specific object defined by index_point. @param[in] index_point (uint): Index point from input data for which Silhouette score should be calculated. @param[in] index_cluster (uin...

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def success(self): """Return boolean indicating whether a solution was found.""" self._check_valid() return self._problem._p.Status == gurobipy.GRB.OPTIMAL

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def calculate_category_probability(self): """ Caches the individual probabilities for each category """ total_tally = 0.0 probs = {} for category, bayes_category in \ self.categories.get_categories().items(): count = bayes_category.get_tally() ...

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def run_query(db, query): ''' Run SQL query and return result CLI Example: .. code-block:: bash salt '*' oracle.run_query my_db "select * from my_table" ''' if db in [x.keys()[0] for x in show_dbs()]: conn = _connect(show_dbs(db)[db]['uri']) else: log.debug('No uri...

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30.5

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def write(*args, **kwargs): """Redirectable wrapper for print statements.""" debug = kwargs.pop("debug", None) warning = kwargs.pop("warning", None) if _logger: kwargs.pop("end", None) kwargs.pop("file", None) if debug: _logger.debug(*args, **kwargs) elif warn...

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def make_date(df:DataFrame, date_field:str): "Make sure `df[field_name]` is of the right date type." field_dtype = df[date_field].dtype if isinstance(field_dtype, pd.core.dtypes.dtypes.DatetimeTZDtype): field_dtype = np.datetime64 if not np.issubdtype(field_dtype, np.datetime64): df[date...

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54.571429

0.010309

def ip_addrs(interface=None, include_loopback=False, cidr=None, type=None): ''' Returns a list of IPv4 addresses assigned to the host. interface Only IP addresses from that interface will be returned. include_loopback : False Include loopback 127.0.0.1 IPv4 address. cidr D...

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30.195122

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def get_google_links(limit, params, headers): """ function to fetch links equal to limit every Google search result page has a start index. every page contains 10 search results. """ links = [] for start_index in range(0, limit, 10): params['start'] = start_index resp = s.get("https://www.google.com/search"...

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def add_star(self, component=None, **kwargs): """ Shortcut to :meth:`add_component` but with kind='star' """ kwargs.setdefault('component', component) return self.add_component('star', **kwargs)

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def estimate(data, fit_offset="mean", fit_profile="tilt", border_px=0, from_mask=None, ret_mask=False): """Estimate the background value of an image Parameters ---------- data: np.ndarray Data from which to compute the background value fit_profile: str The type of backg...

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34.266667

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def run_step(context): """Get $ENVs, allowing a default if not found. Set context properties from environment variables, and specify a default if the environment variable is not found. This differs from pypyr.steps.env get, which raises an error if attempting to read an $ENV that doesn't exist. ...

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def truncate(self, date): """Truncate data beyond this date in all ctables.""" truncate_slice_end = self.data_len_for_day(date) glob_path = os.path.join(self._rootdir, "*", "*", "*.bcolz") sid_paths = sorted(glob(glob_path)) for sid_path in sid_paths: file_name = os...

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def database_add_tags(object_id, input_params={}, always_retry=True, **kwargs): """ Invokes the /database-xxxx/addTags API method. For more info, see: https://wiki.dnanexus.com/API-Specification-v1.0.0/Tags#API-method%3A-%2Fclass-xxxx%2FaddTags """ return DXHTTPRequest('/%s/addTags' % object_id, in...

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def wash_line(line): """Wash a text line of certain punctuation errors, replacing them with more correct alternatives. E.g.: the string 'Yes , I like python.' will be transformed into 'Yes, I like python.' @param line: (string) the line to be washed. @return: (string) the washed line. ...

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43.823529

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async def initialize(bot: Bot, host, password, rest_port, ws_port, timeout=30): """ Initializes the websocket connection to the lavalink player. .. important:: This function must only be called AFTER the bot has received its "on_ready" event! Parameters ---------- bot : Bot ...

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def run(): """CLI endpoint.""" sys.path.insert(0, os.getcwd()) logging.basicConfig(level=logging.INFO, handlers=[logging.StreamHandler()]) parser = argparse.ArgumentParser(description="Manage Application", add_help=False) parser.add_argument('app', metavar='app', type=str, h...

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