kejian/codesearchnet-python-linelen40-full

text stringlengths 89 104k	code_tokens list	avg_line_len float64 7.91 980	score float64 0 630
def three_d_effect(img, **kwargs): """Create 3D effect using convolution""" w = kwargs.get('weight', 1) LOG.debug("Applying 3D effect with weight %.2f", w) kernel = np.array([[-w, 0, w], [-w, 1, w], [-w, 0, w]]) mode = kwargs.get('convolve_mode', 'same')...	[ "def", "three_d_effect", "(", "img", ",", "", "", "kwargs", ")", ":", "w", "=", "kwargs", ".", "get", "(", "'weight'", ",", "1", ")", "LOG", ".", "debug", "(", "\"Applying 3D effect with weight %.2f\"", ",", "w", ")", "kernel", "=", "np", ".", "array...	38.529412	20.882353
def config_attributes(self): """ Helper method used by TorConfig when generating a torrc file. """ rtn = [('HiddenServiceDir', str(self.dir))] if self.conf._supports['HiddenServiceDirGroupReadable'] \ and self.group_readable: rtn.append(('HiddenServiceDirG...	[ "def", "config_attributes", "(", "self", ")", ":", "rtn", "=", "[", "(", "'HiddenServiceDir'", ",", "str", "(", "self", ".", "dir", ")", ")", "]", "if", "self", ".", "conf", ".", "_supports", "[", "'HiddenServiceDirGroupReadable'", "]", "and", "self", "....	40.5	17.125
def get_logical_plan(cluster, environ, topology, role=None): ''' Get the logical plan state of a topology in a cluster :param cluster: :param environ: :param topology: :param role: :return: ''' params = dict(cluster=cluster, environ=environ, topology=topology) if role is not None: params['role']...	[ "def", "get_logical_plan", "(", "cluster", ",", "environ", ",", "topology", ",", "role", "=", "None", ")", ":", "params", "=", "dict", "(", "cluster", "=", "cluster", ",", "environ", "=", "environ", ",", "topology", "=", "topology", ")", "if", "role", ...	31.466667	21.733333
def get_default_jvm_opts(tmp_dir=None, parallel_gc=False): """Retrieve default JVM tuning options Avoids issues with multiple spun up Java processes running into out of memory errors. Parallel GC can use a lot of cores on big machines and primarily helps reduce task latency and responsiveness which are...	[ "def", "get_default_jvm_opts", "(", "tmp_dir", "=", "None", ",", "parallel_gc", "=", "False", ")", ":", "opts", "=", "[", "\"-XX:+UseSerialGC\"", "]", "if", "not", "parallel_gc", "else", "[", "]", "if", "tmp_dir", ":", "opts", ".", "append", "(", "\"-Djava...	57.8125	31
def validate_id(tx_body): """Validate the transaction ID of a transaction Args: tx_body (dict): The Transaction to be transformed. """ # NOTE: Remove reference to avoid side effects # tx_body = deepcopy(tx_body) tx_body = rapidjson.loads(rapidjson.dum...	[ "def", "validate_id", "(", "tx_body", ")", ":", "# NOTE: Remove reference to avoid side effects", "# tx_body = deepcopy(tx_body)", "tx_body", "=", "rapidjson", ".", "loads", "(", "rapidjson", ".", "dumps", "(", "tx_body", ")", ")", "try", ":", "proposed_tx_id", "=", ...	35.083333	20.416667
def bresenham_line(self, x0, y0, x1, y1, color=None, colorFunc=None): """ Draw line from point x0, y0 to x1, y1 using Bresenham's algorithm. Will draw beyond matrix bounds. """ md.bresenham_line(self.set, x0, y0, x1, y1, color, colorFunc)	[ "def", "bresenham_line", "(", "self", ",", "x0", ",", "y0", ",", "x1", ",", "y1", ",", "color", "=", "None", ",", "colorFunc", "=", "None", ")", ":", "md", ".", "bresenham_line", "(", "self", ".", "set", ",", "x0", ",", "y0", ",", "x1", ",", "y...	39	19
def evaluate(self, values): ''' Evaluates the expression to an integer values is a dictionnary that associates n-bit variables to integer values. Every symbolic variables used in the expression must be represented. For instance, let x and y 4-bit variables, and e = x+y: ...	[ "def", "evaluate", "(", "self", ",", "values", ")", ":", "ret", "=", "self", ".", "mba", ".", "evaluate", "(", "self", ".", "vec", ",", "values", ")", "if", "isinstance", "(", "ret", ",", "six", ".", "integer_types", ")", ":", "return", "ret", "ret...	29.769231	22.461538
def clear_mappers(): """ Clears all mappers set up by SA and also clears all custom "id" and "slug" attributes inserted by the :func:`mapper` function in this module. This should only ever be needed in a testing context. """ # Remove our hybrid property constructs. for mpr, is_primary in _m...	[ "def", "clear_mappers", "(", ")", ":", "# Remove our hybrid property constructs.", "for", "mpr", ",", "is_primary", "in", "_mapper_registry", ".", "items", "(", ")", ":", "if", "is_primary", ":", "for", "attr_name", "in", "(", "'id'", ",", "'slug'", ")", ":", ...	40.095238	17.047619
def matching(self, packages): """Message for matching packages """ print("\nNot found package with the name [ {0}{1}{2} ]. " "Matching packages:\nNOTE: Not dependenc" "ies are resolved\n".format(self.meta.color["CYAN"], "".joi...	[ "def", "matching", "(", "self", ",", "packages", ")", ":", "print", "(", "\"\\nNot found package with the name [ {0}{1}{2} ]. \"", "\"Matching packages:\\nNOTE: Not dependenc\"", "\"ies are resolved\\n\"", ".", "format", "(", "self", ".", "meta", ".", "color", "[", "\"CYA...	49.125	15.5
def getobjpath(obj, path): """Returns an item or attribute of the object recursively. Item names are specified between brackets, eg: [item]. Attribute names are prefixed with a dot (the first one is optional), eg: .attr Example: getobjpath(obj, "attr1.attr2[item].attr3") """ if not path: ...	[ "def", "getobjpath", "(", "obj", ",", "path", ")", ":", "if", "not", "path", ":", "return", "obj", "if", "path", ".", "startswith", "(", "\"[\"", ")", ":", "item", "=", "path", "[", "1", ":", "path", ".", "index", "(", "\"]\"", ")", "]", "return"...	35.6	13.96
def _get_traceback_no_io(): """ Return a version of L{traceback} that doesn't do I/O. """ try: module = load_module(str("_traceback_no_io"), traceback) except NotImplementedError: # Can't fix the I/O problem, oh well: return traceback class FakeLineCache(object): ...	[ "def", "_get_traceback_no_io", "(", ")", ":", "try", ":", "module", "=", "load_module", "(", "str", "(", "\"_traceback_no_io\"", ")", ",", "traceback", ")", "except", "NotImplementedError", ":", "# Can't fix the I/O problem, oh well:", "return", "traceback", "class", ...	25.045455	17.409091
def configure_user(self, user, attributes, attribute_mapping): """Configures a user after creation and returns the updated user. By default, returns the user with his attributes updated. """ user.set_unusable_password() return self.update_user(user, attributes, attribute_mapping...	[ "def", "configure_user", "(", "self", ",", "user", ",", "attributes", ",", "attribute_mapping", ")", ":", "user", ".", "set_unusable_password", "(", ")", "return", "self", ".", "update_user", "(", "user", ",", "attributes", ",", "attribute_mapping", ",", "forc...	45.375	15.875
def _load_string_from_native_memory(self, addr_): """ Load zero terminated UTF-8 string from native memory. :param addr_: Native load address. :return: Loaded string. """ # check if addr is symbolic if self.state.solver.symbolic(addr_): l.error("...	[ "def", "_load_string_from_native_memory", "(", "self", ",", "addr_", ")", ":", "# check if addr is symbolic", "if", "self", ".", "state", ".", "solver", ".", "symbolic", "(", "addr_", ")", ":", "l", ".", "error", "(", "\"Loading strings from symbolic addresses is no...	37.444444	16.333333
def user_id(self): """Who created the event (:class:`~hangups.user.UserID`).""" return user.UserID(chat_id=self._event.sender_id.chat_id, gaia_id=self._event.sender_id.gaia_id)	[ "def", "user_id", "(", "self", ")", ":", "return", "user", ".", "UserID", "(", "chat_id", "=", "self", ".", "_event", ".", "sender_id", ".", "chat_id", ",", "gaia_id", "=", "self", ".", "_event", ".", "sender_id", ".", "gaia_id", ")" ]	54	18
def open(self): """Retrieve this file's attributes from the server. Returns a Future. .. versionchanged:: 2.0 No longer accepts a callback argument. .. versionchanged:: 0.2 :class:`~motor.MotorGridOut` now opens itself on demand, calling ``open`` expli...	[ "def", "open", "(", "self", ")", ":", "return", "self", ".", "_framework", ".", "chain_return_value", "(", "self", ".", "_ensure_file", "(", ")", ",", "self", ".", "get_io_loop", "(", ")", ",", "self", ")" ]	35.866667	20.266667
def generate_VJ_junction_transfer_matrices(self): """Compute the transfer matrices for the VJ junction. Sets the attributes Tvj, Svj, Dvj, lTvj, and lDvj. """ nt2num = {'A': 0, 'C': 1, 'G': 2, 'T': 3} #Compute Tvj Tv...	[ "def", "generate_VJ_junction_transfer_matrices", "(", "self", ")", ":", "nt2num", "=", "{", "'A'", ":", "0", ",", "'C'", ":", "1", ",", "'G'", ":", "2", ",", "'T'", ":", "3", "}", "#Compute Tvj", "Tvj", "=", "{", "}", "for", "aa", "in", "self", "."...	39.627119	22.949153
def hazard_class_style(layer, classification, display_null=False): """Set colors to the layer according to the hazard. :param layer: The layer to style. :type layer: QgsVectorLayer :param display_null: If we should display the null hazard zone. Default to False. :type display_null: bool ...	[ "def", "hazard_class_style", "(", "layer", ",", "classification", ",", "display_null", "=", "False", ")", ":", "categories", "=", "[", "]", "# Conditional styling", "attribute_table_styles", "=", "[", "]", "for", "hazard_class", ",", "(", "color", ",", "label", ...	35.673913	18.847826
def generate_folds(node_label_matrix, labelled_node_indices, number_of_categories, percentage, number_of_folds=10): """ Form the seed nodes for training and testing. Inputs: - node_label_matrix: The node-label ground truth in a SciPy sparse matrix format. - labelled_node_indices: A NumPy arra...	[ "def", "generate_folds", "(", "node_label_matrix", ",", "labelled_node_indices", ",", "number_of_categories", ",", "percentage", ",", "number_of_folds", "=", "10", ")", ":", "number_of_labeled_nodes", "=", "labelled_node_indices", ".", "size", "training_set_size", "=", ...	49.03125	29.65625
def compare_orderings(info_frags_records, linkage_orderings): """Given linkage groups and info_frags records, link pseudo-chromosomes to scaffolds based on the initial contig composition of each group. Because info_frags records are usually richer and may contain contigs not found in linkage groups, th...	[ "def", "compare_orderings", "(", "info_frags_records", ",", "linkage_orderings", ")", ":", "scaffolds", "=", "info_frags_records", ".", "keys", "(", ")", "linkage_groups", "=", "linkage_orderings", ".", "keys", "(", ")", "best_matching_table", "=", "dict", "(", ")...	36.683673	18.204082
def configure_crud(graph, ns, mappings): """ Register CRUD endpoints for a resource object. :param mappings: a dictionary from operations to tuple, where each tuple contains the target function and zero or more marshmallow schemas according to the signature of the ...	[ "def", "configure_crud", "(", "graph", ",", "ns", ",", "mappings", ")", ":", "convention", "=", "CRUDConvention", "(", "graph", ")", "convention", ".", "configure", "(", "ns", ",", "mappings", ")" ]	37.2	25.1
def _delete( self, sock_info, criteria, multi, write_concern=None, op_id=None, ordered=True, collation=None, session=None, retryable_write=False): """Internal delete helper.""" common.validate_is_mapping("filter", criteria) write_concern = write_concern or sel...	[ "def", "_delete", "(", "self", ",", "sock_info", ",", "criteria", ",", "multi", ",", "write_concern", "=", "None", ",", "op_id", "=", "None", ",", "ordered", "=", "True", ",", "collation", "=", "None", ",", "session", "=", "None", ",", "retryable_write",...	43.555556	12.6
def pop(self): """Pop the next future from the queue; in progress futures have priority over those that have not yet started; higher level futures have priority over lower level ones; """ self.updateQueue() # If our buffer is underflowing, request more Futures if self.ti...	[ "def", "pop", "(", "self", ")", ":", "self", ".", "updateQueue", "(", ")", "# If our buffer is underflowing, request more Futures", "if", "self", ".", "timelen", "(", "self", ")", "<", "self", ".", "lowwatermark", ":", "self", ".", "requestFuture", "(", ")", ...	38.482759	12.793103
def execute_and_recommend(self, drop_doses=False): """ Execute and recommend a best-fitting model. If drop_doses and no model is recommended, drop the highest dose-group and repeat until either: 1. a model is recommended, or 2. the dataset is exhausted (i.e., only 3 dose-groups ...	[ "def", "execute_and_recommend", "(", "self", ",", "drop_doses", "=", "False", ")", ":", "self", ".", "execute", "(", ")", "self", ".", "recommend", "(", ")", "if", "not", "drop_doses", ":", "return", "while", "self", ".", "recommended_model", "is", "None",...	37.869565	23.695652
def resize(mountpoint, size): ''' Resize filesystem. General options: * mountpoint: Specify the BTRFS mountpoint to resize. * size: ([+/-]<newsize>[kKmMgGtTpPeE]\|max) Specify the new size of the target. CLI Example: .. code-block:: bash salt '*' btrfs.resize /mountpoint ...	[ "def", "resize", "(", "mountpoint", ",", "size", ")", ":", "if", "size", "==", "'max'", ":", "if", "not", "salt", ".", "utils", ".", "fsutils", ".", "_is_device", "(", "mountpoint", ")", ":", "raise", "CommandExecutionError", "(", "\"Mountpoint \\\"{0}\\\" s...	36.030303	30.515152
def cancel_scheduled_hangup(self, call_params): """REST Cancel a Scheduled Hangup Helper """ path = '/' + self.api_version + '/CancelScheduledHangup/' method = 'POST' return self.request(path, method, call_params)	[ "def", "cancel_scheduled_hangup", "(", "self", ",", "call_params", ")", ":", "path", "=", "'/'", "+", "self", ".", "api_version", "+", "'/CancelScheduledHangup/'", "method", "=", "'POST'", "return", "self", ".", "request", "(", "path", ",", "method", ",", "c...	41.333333	10.5
def put(self, request, bot_id, id, format=None): """ Update existing Messenger chat state --- serializer: MessengerChatStateSerializer responseMessages: - code: 401 message: Not authenticated - code: 400 message: Not valid reque...	[ "def", "put", "(", "self", ",", "request", ",", "bot_id", ",", "id", ",", "format", "=", "None", ")", ":", "return", "super", "(", "MessengerChatStateDetail", ",", "self", ")", ".", "put", "(", "request", ",", "bot_id", ",", "id", ",", "format", ")" ...	34.083333	11.916667
def _setup(app, *, schema, title=None, app_key=APP_KEY, db=None): """Initialize the admin-on-rest admin""" admin = web.Application(loop=app.loop) app[app_key] = admin loader = jinja2.FileSystemLoader([TEMPLATES_ROOT, ]) aiohttp_jinja2.setup(admin, loader=loader, app_key=TEMPLATE_APP_KEY) if t...	[ "def", "_setup", "(", "app", ",", "*", ",", "schema", ",", "title", "=", "None", ",", "app_key", "=", "APP_KEY", ",", "db", "=", "None", ")", ":", "admin", "=", "web", ".", "Application", "(", "loop", "=", "app", ".", "loop", ")", "app", "[", "...	25.888889	21.814815
def formatTimeFromNow(secs=None): """ Properly Format Time that is `x` seconds in the future :param int secs: Seconds to go in the future (`x>0`) or the past (`x<0`) :return: Properly formated time for Graphene (`%Y-%m-%dT%H:%M:%S`) :rtype: str """ return d...	[ "def", "formatTimeFromNow", "(", "secs", "=", "None", ")", ":", "return", "datetime", ".", "utcfromtimestamp", "(", "time", ".", "time", "(", ")", "+", "int", "(", "secs", "or", "0", ")", ")", ".", "strftime", "(", "timeFormat", ")" ]	38.6	21.9
def dataset_exists(self, dataset): """Returns whether the given dataset exists. If regional location is specified for the dataset, that is also checked to be compatible with the remote dataset, otherwise an exception is thrown. :param dataset: :type dataset: BQDataset ...	[ "def", "dataset_exists", "(", "self", ",", "dataset", ")", ":", "try", ":", "response", "=", "self", ".", "client", ".", "datasets", "(", ")", ".", "get", "(", "projectId", "=", "dataset", ".", "project_id", ",", "datasetId", "=", "dataset", ".", "data...	41.72	24.48
def flatten_list(list_): """ Banana banana """ res = [] for elem in list_: if isinstance(elem, list): res.extend(flatten_list(elem)) else: res.append(elem) return res	[ "def", "flatten_list", "(", "list_", ")", ":", "res", "=", "[", "]", "for", "elem", "in", "list_", ":", "if", "isinstance", "(", "elem", ",", "list", ")", ":", "res", ".", "extend", "(", "flatten_list", "(", "elem", ")", ")", "else", ":", "res", ...	16.923077	18.307692
def _put_model(D, name, dat, m): """ Place the model data given, into the location (m) given. :param dict D: Metadata (dataset) :param str name: Model name (ex: chron0model0) :param dict dat: Model data :param regex m: Model name regex groups :return dict D: Metadata (dataset) """ t...	[ "def", "_put_model", "(", "D", ",", "name", ",", "dat", ",", "m", ")", ":", "try", ":", "# print(\"Placing model: {}\".format(name))", "_pc", "=", "m", ".", "group", "(", "1", ")", "+", "\"Data\"", "_section", "=", "m", ".", "group", "(", "1", ")", "...	42.416667	16.583333
def err_write(self, msg, **kwargs): r"""Print `msg` as an error message. The message is buffered (won't display) until linefeed ("\n"). """ if self._thread_invalid(): # special case: if a non-main thread writes to stderr # i.e. due to an uncaught exception, pass ...	[ "def", "err_write", "(", "self", ",", "msg", ",", "", "", "kwargs", ")", ":", "if", "self", ".", "_thread_invalid", "(", ")", ":", "# special case: if a non-main thread writes to stderr", "# i.e. due to an uncaught exception, pass it through", "# without raising an additi...	42.75	17
def ReadClientFullInfo(self, client_id): """Reads full client information for a single client. Args: client_id: A GRR client id string, e.g. "C.ea3b2b71840d6fa7". Returns: A `ClientFullInfo` instance for given client. Raises: UnknownClientError: if no client with such id was found. ...	[ "def", "ReadClientFullInfo", "(", "self", ",", "client_id", ")", ":", "result", "=", "self", ".", "MultiReadClientFullInfo", "(", "[", "client_id", "]", ")", "try", ":", "return", "result", "[", "client_id", "]", "except", "KeyError", ":", "raise", "UnknownC...	27.588235	20.294118
def _item_to_database(self, iterator, database_pb): """Convert a database protobuf to the native object. :type iterator: :class:`~google.api_core.page_iterator.Iterator` :param iterator: The iterator that is currently in use. :type database_pb: :class:`~google.spanner.admin.database.v1...	[ "def", "_item_to_database", "(", "self", ",", "iterator", ",", "database_pb", ")", ":", "return", "Database", ".", "from_pb", "(", "database_pb", ",", "self", ",", "pool", "=", "BurstyPool", "(", ")", ")" ]	44.615385	23.769231
def connect(host='localhost', port=21050, database=None, timeout=None, use_ssl=False, ca_cert=None, auth_mechanism='NOSASL', user=None, password=None, kerberos_service_name='impala', use_ldap=None, ldap_user=None, ldap_password=None, use_kerberos=None, protocol=None, krb_...	[ "def", "connect", "(", "host", "=", "'localhost'", ",", "port", "=", "21050", ",", "database", "=", "None", ",", "timeout", "=", "None", ",", "use_ssl", "=", "False", ",", "ca_cert", "=", "None", ",", "auth_mechanism", "=", "'NOSASL'", ",", "user", "="...	35.633028	20.12844
def create_cache_cluster(name, wait=600, security_groups=None, region=None, key=None, keyid=None, profile=None, **args): ''' Create a cache cluster. Example: .. code-block:: bash salt myminion boto3_elasticache.create_cache_cluster name=myCacheCluster \ ...	[ "def", "create_cache_cluster", "(", "name", ",", "wait", "=", "600", ",", "security_groups", "=", "None", ",", "region", "=", "None", ",", "key", "=", "None", ",", "keyid", "=", "None", ",", "profile", "=", "None", ",", "", "", "args", ")", ":", ...	54.571429	33.214286
def disconnect(self, message=""): """Hang up the connection. Arguments: message -- Quit message. """ try: del self.connected except AttributeError: return self.quit(message) self.transport.close() self._handle_event(...	[ "def", "disconnect", "(", "self", ",", "message", "=", "\"\"", ")", ":", "try", ":", "del", "self", ".", "connected", "except", "AttributeError", ":", "return", "self", ".", "quit", "(", "message", ")", "self", ".", "transport", ".", "close", "(", ")",...	22.0625	20.125
def hill_climbing(data, graph, **kwargs): """Hill Climbing optimization: a greedy exploration algorithm.""" nodelist = list(data.columns) data = scale(data.values).astype('float32') tested_candidates = [nx.adj_matrix(graph, nodelist=nodelist, weight=None)] best_score = parallel_graph_evaluation(data...	[ "def", "hill_climbing", "(", "data", ",", "graph", ",", "", "", "kwargs", ")", ":", "nodelist", "=", "list", "(", "data", ".", "columns", ")", "data", "=", "scale", "(", "data", ".", "values", ")", ".", "astype", "(", "'float32'", ")", "tested_cand...	51.36	18.68
def _setLearningMode(self): """ Sets the learning mode. """ for region in self.L4Regions: region.setParameter("learn", True) for region in self.L2Regions: region.setParameter("learningMode", True)	[ "def", "_setLearningMode", "(", "self", ")", ":", "for", "region", "in", "self", ".", "L4Regions", ":", "region", ".", "setParameter", "(", "\"learn\"", ",", "True", ")", "for", "region", "in", "self", ".", "L2Regions", ":", "region", ".", "setParameter", ...	27.625	5.875
def load_all(stream, Loader=None): """ Parse all YAML documents in a stream and produce corresponding Python objects. """ if Loader is None: load_warning('load_all') Loader = FullLoader loader = Loader(stream) try: while loader.check_data(): yield loader....	[ "def", "load_all", "(", "stream", ",", "Loader", "=", "None", ")", ":", "if", "Loader", "is", "None", ":", "load_warning", "(", "'load_all'", ")", "Loader", "=", "FullLoader", "loader", "=", "Loader", "(", "stream", ")", "try", ":", "while", "loader", ...	23.6	12.666667
def treat_values(simulated_array, observed_array, replace_nan=None, replace_inf=None, remove_neg=False, remove_zero=False): """Removes the nan, negative, and inf values in two numpy arrays""" sim_copy = np.copy(simulated_array) obs_copy = np.copy(observed_array) # Checking to see if th...	[ "def", "treat_values", "(", "simulated_array", ",", "observed_array", ",", "replace_nan", "=", "None", ",", "replace_inf", "=", "None", ",", "remove_neg", "=", "False", ",", "remove_zero", "=", "False", ")", ":", "sim_copy", "=", "np", ".", "copy", "(", "s...	48.084906	25.509434
def get_counter(self, redis_conn=None, host='localhost', port=6379, key='counter', cycle_time=5, start_time=None, window=SECONDS_1_HOUR, roll=True, keep_max=12, start_at=0): ''' Generate a new Counter Useful for generic distributed counters @param...	[ "def", "get_counter", "(", "self", ",", "redis_conn", "=", "None", ",", "host", "=", "'localhost'", ",", "port", "=", "6379", ",", "key", "=", "'counter'", ",", "cycle_time", "=", "5", ",", "start_time", "=", "None", ",", "window", "=", "SECONDS_1_HOUR",...	49.8	22.04
def dataset_from_dataframe(df, delays=(1, 2, 3), inputs=(1, 2, -1), outputs=(-1,), normalize=False, verbosity=1): """Compose a pybrain.dataset from a pandas DataFrame Arguments: delays (list of int): sample delays to use for the input tapped delay line Positive and negative values are treated the...	[ "def", "dataset_from_dataframe", "(", "df", ",", "delays", "=", "(", "1", ",", "2", ",", "3", ")", ",", "inputs", "=", "(", "1", ",", "2", ",", "-", "1", ")", ",", "outputs", "=", "(", "-", "1", ",", ")", ",", "normalize", "=", "False", ",", ...	48.35	28.4875
def get_expiration_date(self): """ Get the expiration date from the database. :return: The expiration date from the database. :rtype: str\|None """ if self._authorization() and self.is_in_database() and not self.is_time_older(): # * We are authorized to work....	[ "def", "get_expiration_date", "(", "self", ")", ":", "if", "self", ".", "_authorization", "(", ")", "and", "self", ".", "is_in_database", "(", ")", "and", "not", "self", ".", "is_time_older", "(", ")", ":", "# * We are authorized to work.", "# and", "# * The e...	32.482759	21.172414
def _shouldConnect(self, node): """ Check whether this node should initiate a connection to another node :param node: the other node :type node: Node """ return isinstance(node, TCPNode) and node not in self._preventConnectNodes and (self._selfIsReadonlyNode or self._se...	[ "def", "_shouldConnect", "(", "self", ",", "node", ")", ":", "return", "isinstance", "(", "node", ",", "TCPNode", ")", "and", "node", "not", "in", "self", ".", "_preventConnectNodes", "and", "(", "self", ".", "_selfIsReadonlyNode", "or", "self", ".", "_sel...	38	28.888889
def transform(self, data): """ Transforms the data. """ if not self._get("fitted"): raise RuntimeError("`transform` called before `fit` or `fit_transform`.") data = data.copy() output_column_prefix = self._get("output_column_prefix") if output_colum...	[ "def", "transform", "(", "self", ",", "data", ")", ":", "if", "not", "self", ".", "_get", "(", "\"fitted\"", ")", ":", "raise", "RuntimeError", "(", "\"`transform` called before `fit` or `fit_transform`.\"", ")", "data", "=", "data", ".", "copy", "(", ")", "...	28.48	22.56
def connect(cls, database: str, user: str, password: str, host: str, port: int, , use_pool: bool=True, enable_ssl: bool=False, minsize=1, maxsize=50, keepalives_idle=5, keepalives_interval=4, echo=False, *kwargs): """ Sets connection parameters For more informat...	[ "def", "connect", "(", "cls", ",", "database", ":", "str", ",", "user", ":", "str", ",", "password", ":", "str", ",", "host", ":", "str", ",", "port", ":", "int", ",", "*", ",", "use_pool", ":", "bool", "=", "True", ",", "enable_ssl", ":", "bool"...	53.619048	19.047619
def create_for_collection_items(item_type, hint): """ Helper method for collection items :param item_type: :return: """ # this leads to infinite loops # try: # prt_type = get_pretty_type_str(item_type) # except: # prt_type = str(it...	[ "def", "create_for_collection_items", "(", "item_type", ",", "hint", ")", ":", "# this leads to infinite loops", "# try:", "# prt_type = get_pretty_type_str(item_type)", "# except:", "# prt_type = str(item_type)", "return", "TypeInformationRequiredError", "(", "\"Cannot parse...	45.6875	25.6875
def all(user, groupby='week', summary='default', network=False, split_week=False, split_day=False, filter_empty=True, attributes=True, flatten=False): """ Returns a dictionary containing all bandicoot indicators for the user, as well as reporting variables. Relevant indicators are defin...	[ "def", "all", "(", "user", ",", "groupby", "=", "'week'", ",", "summary", "=", "'default'", ",", "network", "=", "False", ",", "split_week", "=", "False", ",", "split_day", "=", "False", ",", "filter_empty", "=", "True", ",", "attributes", "=", "True", ...	48.457627	25.485876
def to_string(self, buf=None, format_abs_ref_as='string', upper_triangle=True, header=True, index=True, **kwargs): """Render a DataFrame to a console-friendly tabular output. Wrapper around the :meth:`pandas.DataFrame.to_string` method. """ out = self._sympy_formatter(...	[ "def", "to_string", "(", "self", ",", "buf", "=", "None", ",", "format_abs_ref_as", "=", "'string'", ",", "upper_triangle", "=", "True", ",", "header", "=", "True", ",", "index", "=", "True", ",", "", "", "kwargs", ")", ":", "out", "=", "self", "."...	46.428571	17.761905
def find(self, instance_id): """ find an instance Create a new instance and populate it with data stored if it exists. Args: instance_id (str): UUID of the instance Returns: AtlasServiceInstance.Instance: An instance """ ...	[ "def", "find", "(", "self", ",", "instance_id", ")", ":", "instance", "=", "AtlasServiceInstance", ".", "Instance", "(", "instance_id", ",", "self", ".", "backend", ")", "self", ".", "backend", ".", "storage", ".", "populate", "(", "instance", ")", "return...	31.857143	19.928571
def _finalize(self, chain=-1): """Finalize the chain for all tallyable objects.""" chain = range(self.chains)[chain] for name in self.trace_names[chain]: self._traces[name]._finalize(chain) self.commit()	[ "def", "_finalize", "(", "self", ",", "chain", "=", "-", "1", ")", ":", "chain", "=", "range", "(", "self", ".", "chains", ")", "[", "chain", "]", "for", "name", "in", "self", ".", "trace_names", "[", "chain", "]", ":", "self", ".", "_traces", "[...	40.333333	6.833333
def tournament(self,individuals,tourn_size, num_selections=None): """conducts tournament selection of size tourn_size""" winners = [] locs = [] if num_selections is None: num_selections = len(individuals) for i in np.arange(num_selections): # sample pool ...	[ "def", "tournament", "(", "self", ",", "individuals", ",", "tourn_size", ",", "num_selections", "=", "None", ")", ":", "winners", "=", "[", "]", "locs", "=", "[", "]", "if", "num_selections", "is", "None", ":", "num_selections", "=", "len", "(", "individ...	37.5	17.722222
def roll_dice(roll, *, functions=True, floats=True): """ Rolls dice in dice notation with advanced syntax used according to tinyurl.com/pydice :param roll: Roll in dice notation :return: Result of roll, and an explanation string """ roll = ''.join(roll.split()) roll = regex.sub(r'(?<=d)%', ...	[ "def", "roll_dice", "(", "roll", ",", "*", ",", "functions", "=", "True", ",", "floats", "=", "True", ")", ":", "roll", "=", "''", ".", "join", "(", "roll", ".", "split", "(", ")", ")", "roll", "=", "regex", ".", "sub", "(", "r'(?<=d)%'", ",", ...	49.420543	30.170543
def open(self): """Create a connection to the AWS API server. This can be reused for sending multiple emails. """ if self.connection: return False try: self.connection = SESConnection( aws_access_key_id=self._access_key_id, ...	[ "def", "open", "(", "self", ")", ":", "if", "self", ".", "connection", ":", "return", "False", "try", ":", "self", ".", "connection", "=", "SESConnection", "(", "aws_access_key_id", "=", "self", ".", "_access_key_id", ",", "aws_secret_access_key", "=", "self...	32.45	12.4
def set_actuator_control_target_send(self, time_usec, group_mlx, target_system, target_component, controls, force_mavlink1=False): ''' Set the vehicle attitude and body angular rates. time_usec : Timestamp (micros since boot or Unix epoch) (uint64_t) ...	[ "def", "set_actuator_control_target_send", "(", "self", ",", "time_usec", ",", "group_mlx", ",", "target_system", ",", "target_component", ",", "controls", ",", "force_mavlink1", "=", "False", ")", ":", "return", "self", ".", "send", "(", "self", ".", "set_actua...	102.75	83.083333
def replicate_global_dbs(cloud_url=None, local_url=None): """ Set up replication of the global databases from the cloud server to the local server. :param str cloud_url: Used to override the cloud url from the global configuration in case the calling function is in the process of initializing t...	[ "def", "replicate_global_dbs", "(", "cloud_url", "=", "None", ",", "local_url", "=", "None", ")", ":", "local_url", "=", "local_url", "or", "config", "[", "\"local_server\"", "]", "[", "\"url\"", "]", "cloud_url", "=", "cloud_url", "or", "config", "[", "\"cl...	41.684211	20.210526
def update(self, reference, field_updates, option=None): """Add a "change" to update a document. See :meth:`~.firestore_v1beta1.document.DocumentReference.update` for more information on ``field_updates`` and ``option``. Args: reference (~.firestore_v1beta1.document...	[ "def", "update", "(", "self", ",", "reference", ",", "field_updates", ",", "option", "=", "None", ")", ":", "if", "option", ".", "__class__", ".", "__name__", "==", "\"ExistsOption\"", ":", "raise", "ValueError", "(", "\"you must not pass an explicit write option ...	46.454545	23.636364
def decimal_to_digits(decimal, min_digits=None): """ Return the number of digits to the first nonzero decimal. Parameters ----------- decimal: float min_digits: int, minimum number of digits to return Returns ----------- digits: int, number of digits to the first nonzero decima...	[ "def", "decimal_to_digits", "(", "decimal", ",", "min_digits", "=", "None", ")", ":", "digits", "=", "abs", "(", "int", "(", "np", ".", "log10", "(", "decimal", ")", ")", ")", "if", "min_digits", "is", "not", "None", ":", "digits", "=", "np", ".", ...	25.055556	19.5
def as_dict(self): """ Returns a copy of the configuration dictionary. Changes in this should not reflect on the original object. :return: Configuration dictionary. :rtype: dict """ self.clean() d = OrderedDict() all_props = self.__class__.CONFIG_...	[ "def", "as_dict", "(", "self", ")", ":", "self", ".", "clean", "(", ")", "d", "=", "OrderedDict", "(", ")", "all_props", "=", "self", ".", "__class__", ".", "CONFIG_PROPERTIES", "for", "attr_name", ",", "attr_config", "in", "six", ".", "iteritems", "(", ...	37.307692	16
def _update_ctx(self, attrs): """ Update the state of the Styler. Collects a mapping of {index_label: ['<property>: <value>']}. attrs : Series or DataFrame should contain strings of '<property>: <value>;<prop2>: <val2>' Whitespace shouldn't matter and the final trailing...	[ "def", "_update_ctx", "(", "self", ",", "attrs", ")", ":", "for", "row_label", ",", "v", "in", "attrs", ".", "iterrows", "(", ")", ":", "for", "col_label", ",", "col", "in", "v", ".", "iteritems", "(", ")", ":", "i", "=", "self", ".", "index", "....	39.235294	17
def _private_notes(self, key, value): """Populate the ``_private_notes`` key. Also populates the ``_export_to`` key through side effects. """ def _is_for_cds(value): normalized_c_values = [el.upper() for el in force_list(value.get('c'))] return 'CDS' in normalized_c_values def _is_...	[ "def", "_private_notes", "(", "self", ",", "key", ",", "value", ")", ":", "def", "_is_for_cds", "(", "value", ")", ":", "normalized_c_values", "=", "[", "el", ".", "upper", "(", ")", "for", "el", "in", "force_list", "(", "value", ".", "get", "(", "'c...	32.342105	17.184211
def select_hits(hits_array, condition=None): '''Selects the hits with condition. E.g.: condition = 'rel_BCID == 7 & event_number < 1000' Parameters ---------- hits_array : numpy.array condition : string A condition that is applied to the hits in numexpr. Only if the expression evaluates...	[ "def", "select_hits", "(", "hits_array", ",", "condition", "=", "None", ")", ":", "if", "condition", "is", "None", ":", "return", "hits_array", "for", "variable", "in", "set", "(", "re", ".", "findall", "(", "r'[a-zA-Z_]+'", ",", "condition", ")", ")", "...	29.136364	24.5
def institutes(self, institute_ids=None): """Fetch all institutes. Args: institute_ids(list(str)) Returns: res(pymongo.Cursor) """ query = {} if institute_ids: query['_id'] = {'$in': institute_ids} LOG.debug("F...	[ "def", "institutes", "(", "self", ",", "institute_ids", "=", "None", ")", ":", "query", "=", "{", "}", "if", "institute_ids", ":", "query", "[", "'_id'", "]", "=", "{", "'$in'", ":", "institute_ids", "}", "LOG", ".", "debug", "(", "\"Fetching all institu...	27.428571	13.642857
def _add_implied_commands(self): """ Add the commands that are implied by the blueprint. """ if len(self.get_added_columns()) and not self._creating(): self._commands.insert(0, self._create_command("add")) if len(self.get_changed_columns()) and not self._creating(): ...	[ "def", "_add_implied_commands", "(", "self", ")", ":", "if", "len", "(", "self", ".", "get_added_columns", "(", ")", ")", "and", "not", "self", ".", "_creating", "(", ")", ":", "self", ".", "_commands", ".", "insert", "(", "0", ",", "self", ".", "_cr...	38.272727	19.545455
def list_event_types(self, filter=market_filter(), locale=None, session=None, lightweight=None): """ Returns a list of Event Types (i.e. Sports) associated with the markets selected by the MarketFilter. :param dict filter: The filter to select desired markets :param str locale: ...	[ "def", "list_event_types", "(", "self", ",", "filter", "=", "market_filter", "(", ")", ",", "locale", "=", "None", ",", "session", "=", "None", ",", "lightweight", "=", "None", ")", ":", "params", "=", "clean_locals", "(", "locals", "(", ")", ")", "met...	50.4375	24.5625
def verify(self, string_version=None): """ Check that the version information is consistent with the VCS before doing a release. If supplied with a string version, this is also checked against the current version. Should be called from setup.py with the declared package version b...	[ "def", "verify", "(", "self", ",", "string_version", "=", "None", ")", ":", "if", "string_version", "and", "string_version", "!=", "str", "(", "self", ")", ":", "raise", "Exception", "(", "\"Supplied string version does not match current version.\"", ")", "if", "s...	44.454545	25.363636
def workbench_scenarios(cls): """ Gather scenarios to be displayed in the workbench """ module = cls.__module__ module = module.split('.')[0] directory = pkg_resources.resource_filename(module, 'scenarios') files = _find_files(directory) scenarios = _read_...	[ "def", "workbench_scenarios", "(", "cls", ")", ":", "module", "=", "cls", ".", "__module__", "module", "=", "module", ".", "split", "(", "'.'", ")", "[", "0", "]", "directory", "=", "pkg_resources", ".", "resource_filename", "(", "module", ",", "'scenarios...	34.8	9.2
def cluster_nodes(self, state=None, healthy=None): """ With the Nodes API, you can obtain a collection of resources, each of which represents a node. :returns: API response object with JSON data :rtype: :py:class:`yarn_api_client.base.Response` :raises yarn_api_client.er...	[ "def", "cluster_nodes", "(", "self", ",", "state", "=", "None", ",", "healthy", "=", "None", ")", ":", "path", "=", "'/ws/v1/cluster/nodes'", "# TODO: validate state argument", "legal_healthy", "=", "[", "'true'", ",", "'false'", "]", "if", "healthy", "is", "n...	34.12	17.24
def addPathway( self, pathway_id, pathway_label, pathway_type=None, pathway_description=None): """ Adds a pathway as a class. If no specific type is specified, it will default to a subclass of "GO:cellular_process" and "PW:pathway". :param pathway_id: :pa...	[ "def", "addPathway", "(", "self", ",", "pathway_id", ",", "pathway_label", ",", "pathway_type", "=", "None", ",", "pathway_description", "=", "None", ")", ":", "if", "pathway_type", "is", "None", ":", "pathway_type", "=", "self", ".", "globaltt", "[", "'cell...	35.15	19.25
def validate(self): """ Perform some basic checks to help ensure that the specification is valid. Throws an exception if an invalid value is found. Returns true if all checks were passed. :return: boolean """ # Check all values for None for attr in self.__...	[ "def", "validate", "(", "self", ")", ":", "# Check all values for None", "for", "attr", "in", "self", ".", "__dict__", ":", "if", "self", ".", "__dict__", "[", "attr", "]", "is", "None", ":", "raise", "ValueError", "(", "attr", "+", "\" is not set\"", ")",...	37.02381	21.595238
def create(cls, name, abr_type='cisco', auto_cost_bandwidth=100, deprecated_algorithm=False, initial_delay=200, initial_hold_time=1000, max_hold_time=10000, shutdown_max_metric_lsa=0, startup_max_metric_lsa=0): """ Create custom Domain Settings Domai...	[ "def", "create", "(", "cls", ",", "name", ",", "abr_type", "=", "'cisco'", ",", "auto_cost_bandwidth", "=", "100", ",", "deprecated_algorithm", "=", "False", ",", "initial_delay", "=", "200", ",", "initial_hold_time", "=", "1000", ",", "max_hold_time", "=", ...	44.848485	15.636364
def seek(self, offset, whence): """Changes the current file position of this file. The file current position always applies to the :py:func:`IFile.read` method. Same for the :py:func:`IFile.write` method it except when the :py:func:`IFile.access_mode` is :py:attr:`FileAccess...	[ "def", "seek", "(", "self", ",", "offset", ",", "whence", ")", ":", "if", "not", "isinstance", "(", "offset", ",", "baseinteger", ")", ":", "raise", "TypeError", "(", "\"offset can only be an instance of type baseinteger\"", ")", "if", "not", "isinstance", "(", ...	43.28	22.2
def _get_sv_callers(items): """ return a sorted list of all of the structural variant callers run """ callers = [] for data in items: for sv in data.get("sv", []): callers.append(sv["variantcaller"]) return list(set([x for x in callers if x != "sv-ensemble"])).sort()	[ "def", "_get_sv_callers", "(", "items", ")", ":", "callers", "=", "[", "]", "for", "data", "in", "items", ":", "for", "sv", "in", "data", ".", "get", "(", "\"sv\"", ",", "[", "]", ")", ":", "callers", ".", "append", "(", "sv", "[", "\"variantcaller...	33.666667	13.888889
def connect(self, port=None, baud_rate=115200): ''' Parameters ---------- port : str or list-like, optional Port (or list of ports) to try to connect to as a DMF Control Board. baud_rate : int, optional Returns ------- str ...	[ "def", "connect", "(", "self", ",", "port", "=", "None", ",", "baud_rate", "=", "115200", ")", ":", "if", "isinstance", "(", "port", ",", "types", ".", "StringTypes", ")", ":", "ports", "=", "[", "port", "]", "else", ":", "ports", "=", "port", "if"...	35.268908	21.722689
def plot_pot(self, colorbar=True, cb_orientation='vertical', cb_label='Potential, m$^2$ s$^{-2}$', ax=None, show=True, fname=None, **kwargs): """ Plot the gravitational potential. Usage ----- x.plot_pot([tick_interval, xlabel, ylabel, ax, colorb...	[ "def", "plot_pot", "(", "self", ",", "colorbar", "=", "True", ",", "cb_orientation", "=", "'vertical'", ",", "cb_label", "=", "'Potential, m$^2$ s$^{-2}$'", ",", "ax", "=", "None", ",", "show", "=", "True", ",", "fname", "=", "None", ",", "", "", "kwar...	42.078431	18.862745
def list_tables(self, limit=None, start_table=None): """ Return a list of table names associated with the current account and endpoint. :type limit: int :param limit: The maximum number of tables to return. :type start_table: str :param limit: The name of the ta...	[ "def", "list_tables", "(", "self", ",", "limit", "=", "None", ",", "start_table", "=", "None", ")", ":", "data", "=", "{", "}", "if", "limit", ":", "data", "[", "'Limit'", "]", "=", "limit", "if", "start_table", ":", "data", "[", "'ExclusiveStartTableN...	37.136364	17.772727
def setup_signing(self, secret_key, sign_outgoing=True, allow_unsigned_callback=None, initial_timestamp=None, link_id=None): '''setup for MAVLink2 signing''' self.mav.signing.secret_key = secret_key self.mav.signing.sign_outgoing = sign_outgoing self.mav.signing.allow_unsigned_callback =...	[ "def", "setup_signing", "(", "self", ",", "secret_key", ",", "sign_outgoing", "=", "True", ",", "allow_unsigned_callback", "=", "None", ",", "initial_timestamp", "=", "None", ",", "link_id", "=", "None", ")", ":", "self", ".", "mav", ".", "signing", ".", "...	51.263158	14.421053
def vel_term_floc(ConcAl, ConcClay, coag, material, DIM_FRACTAL, DiamTarget, Temp): """Calculate floc terminal velocity.""" WaterDensity = pc.density_water(Temp).magnitude return (((pc.gravity.magnitude * material.Diameter*2) / (18 PHI_FLOC * pc.viscosity_kinematic(Temp).ma...	[ "def", "vel_term_floc", "(", "ConcAl", ",", "ConcClay", ",", "coag", ",", "material", ",", "DIM_FRACTAL", ",", "DiamTarget", ",", "Temp", ")", ":", "WaterDensity", "=", "pc", ".", "density_water", "(", "Temp", ")", ".", "magnitude", "return", "(", "(", "...	41.642857	19.285714
def _get_dynamic_field_for(cls, field_name): """ Return the dynamic field within this class that match the given name. Keep an internal cache to speed up future calls wieh same field name. (The cache store the field for each individual class and subclasses, to keep the link betwe...	[ "def", "_get_dynamic_field_for", "(", "cls", ",", "field_name", ")", ":", "from", ".", "fields", "import", "DynamicFieldMixin", "# here to avoid circular import", "if", "cls", "not", "in", "ModelWithDynamicFieldMixin", ".", "_dynamic_fields_cache", ":", "ModelWithDynamicF...	48	29.461538
def handler(self, reply): """Upper level handler of keyboard events.""" data = reply.data while len(data): event, data = rq.EventField(None).parse_binary_value(data, self.display.display, None, None) if self.escape(event): # Quit if this returns True self...	[ "def", "handler", "(", "self", ",", "reply", ")", ":", "data", "=", "reply", ".", "data", "while", "len", "(", "data", ")", ":", "event", ",", "data", "=", "rq", ".", "EventField", "(", "None", ")", ".", "parse_binary_value", "(", "data", ",", "sel...	41.111111	19.666667
def intersect(self, queries): '''Return a new :class:`Query` obtained form the intersection of this :class:`Query` with one or more queries*. Workds the same way as the :meth:`union` method.''' q = self._clone() q.intersections += queries return q	[ "def", "intersect", "(", "self", ",", "*", "queries", ")", ":", "q", "=", "self", ".", "_clone", "(", ")", "q", ".", "intersections", "+=", "queries", "return", "q" ]	40.142857	18.142857
def get(key, profile=None): # pylint: disable=W0613 ''' Get a value from the dictionary ''' data = _get_values(profile) # Decrypt SDB data if specified in the profile if profile and profile.get('gpg', False): return salt.utils.data.traverse_dict_and_list(_decrypt(data), key, None) ...	[ "def", "get", "(", "key", ",", "profile", "=", "None", ")", ":", "# pylint: disable=W0613", "data", "=", "_get_values", "(", "profile", ")", "# Decrypt SDB data if specified in the profile", "if", "profile", "and", "profile", ".", "get", "(", "'gpg'", ",", "Fals...	33.909091	23
def update(self, callback=None, errback=None, **kwargs): """ Update Network configuration. Pass a list of keywords and their values to update. For the list of keywords available for zone configuration, see :attr:`ns1.rest.ipam.Networks.INT_FIELDS` and :attr:`ns1.rest.ipam.Networks.PASSTHRU_FIELD...	[ "def", "update", "(", "self", ",", "callback", "=", "None", ",", "errback", "=", "None", ",", "", "", "kwargs", ")", ":", "if", "not", "self", ".", "data", ":", "raise", "NetworkException", "(", "'Network not loaded'", ")", "def", "success", "(", "re...	41.15	21.35
def _evaluate(self,args,*kwargs): """ NAME: __call__ (_evaluate) PURPOSE: evaluate the actions (jr,lz,jz) INPUT: Either: a) R,vR,vT,z,vz[,phi]: 1) floats: phase-space value for single object (phi is optional) (each can be ...	[ "def", "_evaluate", "(", "self", ",", "", "args", ",", "", "*", "kwargs", ")", ":", "delta", "=", "kwargs", ".", "pop", "(", "'delta'", ",", "self", ".", "_delta", ")", "order", "=", "kwargs", ".", "get", "(", "'order'", ",", "self", ".", "_ord...	49.747475	21.282828
def convert_dict_to_option_dict(input_dict): """Convert a simple key-value dictionary to a dictionary of options tuples""" ret_dict = {} for key, value in input_dict.items(): ret_dict[key] = convert_value_to_option_tuple(value) return ret_dict	[ "def", "convert_dict_to_option_dict", "(", "input_dict", ")", ":", "ret_dict", "=", "{", "}", "for", "key", ",", "value", "in", "input_dict", ".", "items", "(", ")", ":", "ret_dict", "[", "key", "]", "=", "convert_value_to_option_tuple", "(", "value", ")", ...	43.666667	11.5
def get_serializable_data_for_fields(model): """ Return a serialised version of the model's fields which exist as local database columns (i.e. excluding m2m and incoming foreign key relations) """ pk_field = model._meta.pk # If model is a child via multitable inheritance, use parent's pk whi...	[ "def", "get_serializable_data_for_fields", "(", "model", ")", ":", "pk_field", "=", "model", ".", "_meta", ".", "pk", "# If model is a child via multitable inheritance, use parent's pk", "while", "pk_field", ".", "remote_field", "and", "pk_field", ".", "remote_field", "."...	36.294118	20.647059
def get_rating_metadata(self): """Gets the metadata for a rating. return: (osid.Metadata) - metadata for the rating compliance: mandatory -- This method must be implemented. """ # Implemented from template for osid.resource.ResourceForm.get_group_metadata_template met...	[ "def", "get_rating_metadata", "(", "self", ")", ":", "# Implemented from template for osid.resource.ResourceForm.get_group_metadata_template", "metadata", "=", "dict", "(", "self", ".", "_mdata", "[", "'rating'", "]", ")", "metadata", ".", "update", "(", "{", "'existing...	41.363636	21.090909
def info(self, message, args, kwargs): """More important level : default for print and save """ self._log(logging.INFO, message, args, **kwargs)	[ "def", "info", "(", "self", ",", "message", ",", "", "args", ",", "", "", "kwargs", ")", ":", "self", ".", "_log", "(", "logging", ".", "INFO", ",", "message", ",", "", "args", ",", "", "", "kwargs", ")" ]	42.25	4.5
def read(self, symbol, as_of=None, date_range=None, from_version=None, allow_secondary=None, **kwargs): """ Read data for the named symbol. Returns a VersionedItem object with a data and metdata element (as passed into write). Parameters ---------- symbol : `str` ...	[ "def", "read", "(", "self", ",", "symbol", ",", "as_of", "=", "None", ",", "date_range", "=", "None", ",", "from_version", "=", "None", ",", "allow_secondary", "=", "None", ",", "", "", "kwargs", ")", ":", "try", ":", "read_preference", "=", "self", ...	54.804348	27.326087
def getObjectsAspecting(self, point, aspList): """ Returns a list of objects aspecting a point considering a list of possible aspects. """ res = [] for obj in self: if obj.isPlanet() and aspects.isAspecting(obj, point, aspList): res.append(ob...	[ "def", "getObjectsAspecting", "(", "self", ",", "point", ",", "aspList", ")", ":", "res", "=", "[", "]", "for", "obj", "in", "self", ":", "if", "obj", ".", "isPlanet", "(", ")", "and", "aspects", ".", "isAspecting", "(", "obj", ",", "point", ",", "...	34.4	13.9
def _fit_island(self, island_data): """ Take an Island, do all the parameter estimation and fitting. Parameters ---------- island_data : :class:`AegeanTools.models.IslandFittingData` The island to be fit. Returns ------- sources : list ...	[ "def", "_fit_island", "(", "self", ",", "island_data", ")", ":", "global_data", "=", "self", ".", "global_data", "# global data", "dcurve", "=", "global_data", ".", "dcurve", "rmsimg", "=", "global_data", ".", "rmsimg", "# island data", "isle_num", "=", "island_...	38.534653	22.871287
def get_preorder_burn_info( outputs ): """ Given the set of outputs, find the fee sent to our burn address. This is always the third output. Return the fee and burn address on success as {'op_fee': ..., 'burn_address': ...} Return None if not found """ if len(outputs) != 3: ...	[ "def", "get_preorder_burn_info", "(", "outputs", ")", ":", "if", "len", "(", "outputs", ")", "!=", "3", ":", "# not a well-formed preorder ", "return", "None", "op_fee", "=", "outputs", "[", "2", "]", "[", "'value'", "]", "burn_address", "=", "None", "try", ...	29.5	22.333333
def do_unthrottle(self, *args): """ Remove the throughput limits for DQL that were set with 'throttle' # Remove all limits > unthrottle # Remove the limit on total allowed throughput > unthrottle total # Remove the default limit > unthrottle default ...	[ "def", "do_unthrottle", "(", "self", ",", "*", "args", ")", ":", "if", "not", "args", ":", "if", "promptyn", "(", "\"Are you sure you want to clear all throttles?\"", ")", ":", "self", ".", "throttle", ".", "load", "(", "{", "}", ")", "elif", "len", "(", ...	34.117647	13.294118
def to_json(self): """ Serialize object to json dict :return: dict """ data = dict() data['InterlocutorId'] = self.id_ data['Text'] = self.text data['Username'] = self.username data['FirstName'] = self.first_name data['LastName'] = self.la...	[ "def", "to_json", "(", "self", ")", ":", "data", "=", "dict", "(", ")", "data", "[", "'InterlocutorId'", "]", "=", "self", ".", "id_", "data", "[", "'Text'", "]", "=", "self", ".", "text", "data", "[", "'Username'", "]", "=", "self", ".", "username...	25.769231	10.538462
def set_setting(key, value, qsettings=None): """Set value to QSettings based on key in InaSAFE scope. :param key: Unique key for setting. :type key: basestring :param value: Value to be saved. :type value: QVariant :param qsettings: A custom QSettings to use. If it's not defined, it will ...	[ "def", "set_setting", "(", "key", ",", "value", ",", "qsettings", "=", "None", ")", ":", "full_key", "=", "'%s/%s'", "%", "(", "APPLICATION_NAME", ",", "key", ")", "set_general_setting", "(", "full_key", ",", "value", ",", "qsettings", ")" ]	32.466667	15.6
def keep_types_s(s, types): """ Keep the given types from a string Same as :meth:`keep_types` but does not use the :attr:`params` dictionary Parameters ---------- s: str The string of the returns like section types: list of str Th...	[ "def", "keep_types_s", "(", "s", ",", "types", ")", ":", "patt", "=", "'\|'", ".", "join", "(", "'(?<=\\n)'", "+", "s", "+", "'\\n(?s).+?\\n(?=\\S+\|$)'", "for", "s", "in", "types", ")", "return", "''", ".", "join", "(", "re", ".", "findall", "(", "pat...	29.095238	22.142857
def measure(function, xs, ys, popt, weights): """ measure the quality of a fit """ m = 0 n = 0 for x in xs: try: if len(popt) == 2: m += (ys[n] - function(x, popt[0], popt[1]))*2 weights[n] elif len(popt) == 3: m += (ys[n] - func...	[ "def", "measure", "(", "function", ",", "xs", ",", "ys", ",", "popt", ",", "weights", ")", ":", "m", "=", "0", "n", "=", "0", "for", "x", "in", "xs", ":", "try", ":", "if", "len", "(", "popt", ")", "==", "2", ":", "m", "+=", "(", "ys", "[...	29.631579	21.210526
def get_metadata(url, validate_cert=True): """ Gets the metadata XML from the provided URL :param url: Url where the XML of the Identity Provider Metadata is published. :type url: string :param validate_cert: If the url uses https schema, that flag enables or not the verificati...	[ "def", "get_metadata", "(", "url", ",", "validate_cert", "=", "True", ")", ":", "valid", "=", "False", "if", "validate_cert", ":", "response", "=", "urllib2", ".", "urlopen", "(", "url", ")", "else", ":", "ctx", "=", "ssl", ".", "create_default_context", ...	32.527778	21.527778
def get_points(recording): """ Get one point for each stroke in a recording. The point represents the strokes spacial position (e.g. the center of the bounding box). Parameters ---------- recording : list of strokes Returns ------- list : points """ points = [] ...	[ "def", "get_points", "(", "recording", ")", ":", "points", "=", "[", "]", "for", "stroke", "in", "recording", ":", "point", "=", "geometry", ".", "get_bounding_box", "(", "stroke", ")", ".", "get_center", "(", ")", "points", ".", "append", "(", "point", ...	22.947368	22.315789

def three_d_effect(img, **kwargs): """Create 3D effect using convolution""" w = kwargs.get('weight', 1) LOG.debug("Applying 3D effect with weight %.2f", w) kernel = np.array([[-w, 0, w], [-w, 1, w], [-w, 0, w]]) mode = kwargs.get('convolve_mode', 'same')...

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def config_attributes(self): """ Helper method used by TorConfig when generating a torrc file. """ rtn = [('HiddenServiceDir', str(self.dir))] if self.conf._supports['HiddenServiceDirGroupReadable'] \ and self.group_readable: rtn.append(('HiddenServiceDirG...

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40.5

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def get_logical_plan(cluster, environ, topology, role=None): ''' Get the logical plan state of a topology in a cluster :param cluster: :param environ: :param topology: :param role: :return: ''' params = dict(cluster=cluster, environ=environ, topology=topology) if role is not None: params['role']...

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def get_default_jvm_opts(tmp_dir=None, parallel_gc=False): """Retrieve default JVM tuning options Avoids issues with multiple spun up Java processes running into out of memory errors. Parallel GC can use a lot of cores on big machines and primarily helps reduce task latency and responsiveness which are...

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57.8125

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def validate_id(tx_body): """Validate the transaction ID of a transaction Args: tx_body (dict): The Transaction to be transformed. """ # NOTE: Remove reference to avoid side effects # tx_body = deepcopy(tx_body) tx_body = rapidjson.loads(rapidjson.dum...

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def bresenham_line(self, x0, y0, x1, y1, color=None, colorFunc=None): """ Draw line from point x0, y0 to x1, y1 using Bresenham's algorithm. Will draw beyond matrix bounds. """ md.bresenham_line(self.set, x0, y0, x1, y1, color, colorFunc)

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39

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def evaluate(self, values): ''' Evaluates the expression to an integer values is a dictionnary that associates n-bit variables to integer values. Every symbolic variables used in the expression must be represented. For instance, let x and y 4-bit variables, and e = x+y: ...

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def clear_mappers(): """ Clears all mappers set up by SA and also clears all custom "id" and "slug" attributes inserted by the :func:`mapper` function in this module. This should only ever be needed in a testing context. """ # Remove our hybrid property constructs. for mpr, is_primary in _m...

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40.095238

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def matching(self, packages): """Message for matching packages """ print("\nNot found package with the name [ {0}{1}{2} ]. " "Matching packages:\nNOTE: Not dependenc" "ies are resolved\n".format(self.meta.color["CYAN"], "".joi...

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49.125

15.5

def getobjpath(obj, path): """Returns an item or attribute of the object recursively. Item names are specified between brackets, eg: [item]. Attribute names are prefixed with a dot (the first one is optional), eg: .attr Example: getobjpath(obj, "attr1.attr2[item].attr3") """ if not path: ...

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35.6

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def _get_traceback_no_io(): """ Return a version of L{traceback} that doesn't do I/O. """ try: module = load_module(str("_traceback_no_io"), traceback) except NotImplementedError: # Can't fix the I/O problem, oh well: return traceback class FakeLineCache(object): ...

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25.045455

17.409091

def configure_user(self, user, attributes, attribute_mapping): """Configures a user after creation and returns the updated user. By default, returns the user with his attributes updated. """ user.set_unusable_password() return self.update_user(user, attributes, attribute_mapping...

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45.375

15.875

def _load_string_from_native_memory(self, addr_): """ Load zero terminated UTF-8 string from native memory. :param addr_: Native load address. :return: Loaded string. """ # check if addr is symbolic if self.state.solver.symbolic(addr_): l.error("...

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37.444444

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def user_id(self): """Who created the event (:class:`~hangups.user.UserID`).""" return user.UserID(chat_id=self._event.sender_id.chat_id, gaia_id=self._event.sender_id.gaia_id)

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54

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def open(self): """Retrieve this file's attributes from the server. Returns a Future. .. versionchanged:: 2.0 No longer accepts a callback argument. .. versionchanged:: 0.2 :class:`~motor.MotorGridOut` now opens itself on demand, calling ``open`` expli...

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35.866667

20.266667

def generate_VJ_junction_transfer_matrices(self): """Compute the transfer matrices for the VJ junction. Sets the attributes Tvj, Svj, Dvj, lTvj, and lDvj. """ nt2num = {'A': 0, 'C': 1, 'G': 2, 'T': 3} #Compute Tvj Tv...

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39.627119

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def hazard_class_style(layer, classification, display_null=False): """Set colors to the layer according to the hazard. :param layer: The layer to style. :type layer: QgsVectorLayer :param display_null: If we should display the null hazard zone. Default to False. :type display_null: bool ...

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35.673913

18.847826

def generate_folds(node_label_matrix, labelled_node_indices, number_of_categories, percentage, number_of_folds=10): """ Form the seed nodes for training and testing. Inputs: - node_label_matrix: The node-label ground truth in a SciPy sparse matrix format. - labelled_node_indices: A NumPy arra...

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49.03125

29.65625

def compare_orderings(info_frags_records, linkage_orderings): """Given linkage groups and info_frags records, link pseudo-chromosomes to scaffolds based on the initial contig composition of each group. Because info_frags records are usually richer and may contain contigs not found in linkage groups, th...

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36.683673

18.204082

def configure_crud(graph, ns, mappings): """ Register CRUD endpoints for a resource object. :param mappings: a dictionary from operations to tuple, where each tuple contains the target function and zero or more marshmallow schemas according to the signature of the ...

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37.2

25.1

def _delete( self, sock_info, criteria, multi, write_concern=None, op_id=None, ordered=True, collation=None, session=None, retryable_write=False): """Internal delete helper.""" common.validate_is_mapping("filter", criteria) write_concern = write_concern or sel...

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43.555556

12.6

def pop(self): """Pop the next future from the queue; in progress futures have priority over those that have not yet started; higher level futures have priority over lower level ones; """ self.updateQueue() # If our buffer is underflowing, request more Futures if self.ti...

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38.482759

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def execute_and_recommend(self, drop_doses=False): """ Execute and recommend a best-fitting model. If drop_doses and no model is recommended, drop the highest dose-group and repeat until either: 1. a model is recommended, or 2. the dataset is exhausted (i.e., only 3 dose-groups ...

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37.869565

23.695652

def resize(mountpoint, size): ''' Resize filesystem. General options: * **mountpoint**: Specify the BTRFS mountpoint to resize. * **size**: ([+/-]<newsize>[kKmMgGtTpPeE]|max) Specify the new size of the target. CLI Example: .. code-block:: bash salt '*' btrfs.resize /mountpoint ...

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36.030303

30.515152

def cancel_scheduled_hangup(self, call_params): """REST Cancel a Scheduled Hangup Helper """ path = '/' + self.api_version + '/CancelScheduledHangup/' method = 'POST' return self.request(path, method, call_params)

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41.333333

10.5

def put(self, request, bot_id, id, format=None): """ Update existing Messenger chat state --- serializer: MessengerChatStateSerializer responseMessages: - code: 401 message: Not authenticated - code: 400 message: Not valid reque...

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34.083333

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def _setup(app, *, schema, title=None, app_key=APP_KEY, db=None): """Initialize the admin-on-rest admin""" admin = web.Application(loop=app.loop) app[app_key] = admin loader = jinja2.FileSystemLoader([TEMPLATES_ROOT, ]) aiohttp_jinja2.setup(admin, loader=loader, app_key=TEMPLATE_APP_KEY) if t...

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25.888889

21.814815

def formatTimeFromNow(secs=None): """ Properly Format Time that is `x` seconds in the future :param int secs: Seconds to go in the future (`x>0`) or the past (`x<0`) :return: Properly formated time for Graphene (`%Y-%m-%dT%H:%M:%S`) :rtype: str """ return d...

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38.6

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def dataset_exists(self, dataset): """Returns whether the given dataset exists. If regional location is specified for the dataset, that is also checked to be compatible with the remote dataset, otherwise an exception is thrown. :param dataset: :type dataset: BQDataset ...

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def flatten_list(list_): """ Banana banana """ res = [] for elem in list_: if isinstance(elem, list): res.extend(flatten_list(elem)) else: res.append(elem) return res

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def _put_model(D, name, dat, m): """ Place the model data given, into the location (m) given. :param dict D: Metadata (dataset) :param str name: Model name (ex: chron0model0) :param dict dat: Model data :param regex m: Model name regex groups :return dict D: Metadata (dataset) """ t...

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def err_write(self, msg, **kwargs): r"""Print `msg` as an error message. The message is buffered (won't display) until linefeed ("\n"). """ if self._thread_invalid(): # special case: if a non-main thread writes to stderr # i.e. due to an uncaught exception, pass ...

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def ReadClientFullInfo(self, client_id): """Reads full client information for a single client. Args: client_id: A GRR client id string, e.g. "C.ea3b2b71840d6fa7". Returns: A `ClientFullInfo` instance for given client. Raises: UnknownClientError: if no client with such id was found. ...

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def _item_to_database(self, iterator, database_pb): """Convert a database protobuf to the native object. :type iterator: :class:`~google.api_core.page_iterator.Iterator` :param iterator: The iterator that is currently in use. :type database_pb: :class:`~google.spanner.admin.database.v1...

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def connect(host='localhost', port=21050, database=None, timeout=None, use_ssl=False, ca_cert=None, auth_mechanism='NOSASL', user=None, password=None, kerberos_service_name='impala', use_ldap=None, ldap_user=None, ldap_password=None, use_kerberos=None, protocol=None, krb_...

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def create_cache_cluster(name, wait=600, security_groups=None, region=None, key=None, keyid=None, profile=None, **args): ''' Create a cache cluster. Example: .. code-block:: bash salt myminion boto3_elasticache.create_cache_cluster name=myCacheCluster \ ...

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def disconnect(self, message=""): """Hang up the connection. Arguments: message -- Quit message. """ try: del self.connected except AttributeError: return self.quit(message) self.transport.close() self._handle_event(...

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def hill_climbing(data, graph, **kwargs): """Hill Climbing optimization: a greedy exploration algorithm.""" nodelist = list(data.columns) data = scale(data.values).astype('float32') tested_candidates = [nx.adj_matrix(graph, nodelist=nodelist, weight=None)] best_score = parallel_graph_evaluation(data...

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def _setLearningMode(self): """ Sets the learning mode. """ for region in self.L4Regions: region.setParameter("learn", True) for region in self.L2Regions: region.setParameter("learningMode", True)

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def load_all(stream, Loader=None): """ Parse all YAML documents in a stream and produce corresponding Python objects. """ if Loader is None: load_warning('load_all') Loader = FullLoader loader = Loader(stream) try: while loader.check_data(): yield loader....

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def treat_values(simulated_array, observed_array, replace_nan=None, replace_inf=None, remove_neg=False, remove_zero=False): """Removes the nan, negative, and inf values in two numpy arrays""" sim_copy = np.copy(simulated_array) obs_copy = np.copy(observed_array) # Checking to see if th...

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def get_counter(self, redis_conn=None, host='localhost', port=6379, key='counter', cycle_time=5, start_time=None, window=SECONDS_1_HOUR, roll=True, keep_max=12, start_at=0): ''' Generate a new Counter Useful for generic distributed counters @param...

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def dataset_from_dataframe(df, delays=(1, 2, 3), inputs=(1, 2, -1), outputs=(-1,), normalize=False, verbosity=1): """Compose a pybrain.dataset from a pandas DataFrame Arguments: delays (list of int): sample delays to use for the input tapped delay line Positive and negative values are treated the...

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def get_expiration_date(self): """ Get the expiration date from the database. :return: The expiration date from the database. :rtype: str|None """ if self._authorization() and self.is_in_database() and not self.is_time_older(): # * We are authorized to work....

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def _shouldConnect(self, node): """ Check whether this node should initiate a connection to another node :param node: the other node :type node: Node """ return isinstance(node, TCPNode) and node not in self._preventConnectNodes and (self._selfIsReadonlyNode or self._se...

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def transform(self, data): """ Transforms the data. """ if not self._get("fitted"): raise RuntimeError("`transform` called before `fit` or `fit_transform`.") data = data.copy() output_column_prefix = self._get("output_column_prefix") if output_colum...

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def connect(cls, database: str, user: str, password: str, host: str, port: int, *, use_pool: bool=True, enable_ssl: bool=False, minsize=1, maxsize=50, keepalives_idle=5, keepalives_interval=4, echo=False, **kwargs): """ Sets connection parameters For more informat...

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def create_for_collection_items(item_type, hint): """ Helper method for collection items :param item_type: :return: """ # this leads to infinite loops # try: # prt_type = get_pretty_type_str(item_type) # except: # prt_type = str(it...

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def all(user, groupby='week', summary='default', network=False, split_week=False, split_day=False, filter_empty=True, attributes=True, flatten=False): """ Returns a dictionary containing all bandicoot indicators for the user, as well as reporting variables. Relevant indicators are defin...

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def to_string(self, buf=None, format_abs_ref_as='string', upper_triangle=True, header=True, index=True, **kwargs): """Render a DataFrame to a console-friendly tabular output. Wrapper around the :meth:`pandas.DataFrame.to_string` method. """ out = self._sympy_formatter(...

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def find(self, instance_id): """ find an instance Create a new instance and populate it with data stored if it exists. Args: instance_id (str): UUID of the instance Returns: AtlasServiceInstance.Instance: An instance """ ...

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def _finalize(self, chain=-1): """Finalize the chain for all tallyable objects.""" chain = range(self.chains)[chain] for name in self.trace_names[chain]: self._traces[name]._finalize(chain) self.commit()

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def tournament(self,individuals,tourn_size, num_selections=None): """conducts tournament selection of size tourn_size""" winners = [] locs = [] if num_selections is None: num_selections = len(individuals) for i in np.arange(num_selections): # sample pool ...

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def roll_dice(roll, *, functions=True, floats=True): """ Rolls dice in dice notation with advanced syntax used according to tinyurl.com/pydice :param roll: Roll in dice notation :return: Result of roll, and an explanation string """ roll = ''.join(roll.split()) roll = regex.sub(r'(?<=d)%', ...

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def open(self): """Create a connection to the AWS API server. This can be reused for sending multiple emails. """ if self.connection: return False try: self.connection = SESConnection( aws_access_key_id=self._access_key_id, ...

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def set_actuator_control_target_send(self, time_usec, group_mlx, target_system, target_component, controls, force_mavlink1=False): ''' Set the vehicle attitude and body angular rates. time_usec : Timestamp (micros since boot or Unix epoch) (uint64_t) ...

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def replicate_global_dbs(cloud_url=None, local_url=None): """ Set up replication of the global databases from the cloud server to the local server. :param str cloud_url: Used to override the cloud url from the global configuration in case the calling function is in the process of initializing t...

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def update(self, reference, field_updates, option=None): """Add a "change" to update a document. See :meth:`~.firestore_v1beta1.document.DocumentReference.update` for more information on ``field_updates`` and ``option``. Args: reference (~.firestore_v1beta1.document...

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def decimal_to_digits(decimal, min_digits=None): """ Return the number of digits to the first nonzero decimal. Parameters ----------- decimal: float min_digits: int, minimum number of digits to return Returns ----------- digits: int, number of digits to the first nonzero decima...

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def as_dict(self): """ Returns a copy of the configuration dictionary. Changes in this should not reflect on the original object. :return: Configuration dictionary. :rtype: dict """ self.clean() d = OrderedDict() all_props = self.__class__.CONFIG_...

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def _update_ctx(self, attrs): """ Update the state of the Styler. Collects a mapping of {index_label: ['<property>: <value>']}. attrs : Series or DataFrame should contain strings of '<property>: <value>;<prop2>: <val2>' Whitespace shouldn't matter and the final trailing...

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def _private_notes(self, key, value): """Populate the ``_private_notes`` key. Also populates the ``_export_to`` key through side effects. """ def _is_for_cds(value): normalized_c_values = [el.upper() for el in force_list(value.get('c'))] return 'CDS' in normalized_c_values def _is_...

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def select_hits(hits_array, condition=None): '''Selects the hits with condition. E.g.: condition = 'rel_BCID == 7 & event_number < 1000' Parameters ---------- hits_array : numpy.array condition : string A condition that is applied to the hits in numexpr. Only if the expression evaluates...

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def institutes(self, institute_ids=None): """Fetch all institutes. Args: institute_ids(list(str)) Returns: res(pymongo.Cursor) """ query = {} if institute_ids: query['_id'] = {'$in': institute_ids} LOG.debug("F...

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def _add_implied_commands(self): """ Add the commands that are implied by the blueprint. """ if len(self.get_added_columns()) and not self._creating(): self._commands.insert(0, self._create_command("add")) if len(self.get_changed_columns()) and not self._creating(): ...

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def list_event_types(self, filter=market_filter(), locale=None, session=None, lightweight=None): """ Returns a list of Event Types (i.e. Sports) associated with the markets selected by the MarketFilter. :param dict filter: The filter to select desired markets :param str locale: ...

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def verify(self, string_version=None): """ Check that the version information is consistent with the VCS before doing a release. If supplied with a string version, this is also checked against the current version. Should be called from setup.py with the declared package version b...

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def workbench_scenarios(cls): """ Gather scenarios to be displayed in the workbench """ module = cls.__module__ module = module.split('.')[0] directory = pkg_resources.resource_filename(module, 'scenarios') files = _find_files(directory) scenarios = _read_...

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def cluster_nodes(self, state=None, healthy=None): """ With the Nodes API, you can obtain a collection of resources, each of which represents a node. :returns: API response object with JSON data :rtype: :py:class:`yarn_api_client.base.Response` :raises yarn_api_client.er...

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def addPathway( self, pathway_id, pathway_label, pathway_type=None, pathway_description=None): """ Adds a pathway as a class. If no specific type is specified, it will default to a subclass of "GO:cellular_process" and "PW:pathway". :param pathway_id: :pa...

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def validate(self): """ Perform some basic checks to help ensure that the specification is valid. Throws an exception if an invalid value is found. Returns true if all checks were passed. :return: boolean """ # Check all values for None for attr in self.__...

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def create(cls, name, abr_type='cisco', auto_cost_bandwidth=100, deprecated_algorithm=False, initial_delay=200, initial_hold_time=1000, max_hold_time=10000, shutdown_max_metric_lsa=0, startup_max_metric_lsa=0): """ Create custom Domain Settings Domai...

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def seek(self, offset, whence): """Changes the current file position of this file. The file current position always applies to the :py:func:`IFile.read` method. Same for the :py:func:`IFile.write` method it except when the :py:func:`IFile.access_mode` is :py:attr:`FileAccess...

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def _get_sv_callers(items): """ return a sorted list of all of the structural variant callers run """ callers = [] for data in items: for sv in data.get("sv", []): callers.append(sv["variantcaller"]) return list(set([x for x in callers if x != "sv-ensemble"])).sort()

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def connect(self, port=None, baud_rate=115200): ''' Parameters ---------- port : str or list-like, optional Port (or list of ports) to try to connect to as a DMF Control Board. baud_rate : int, optional Returns ------- str ...

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def plot_pot(self, colorbar=True, cb_orientation='vertical', cb_label='Potential, m$^2$ s$^{-2}$', ax=None, show=True, fname=None, **kwargs): """ Plot the gravitational potential. Usage ----- x.plot_pot([tick_interval, xlabel, ylabel, ax, colorb...

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def list_tables(self, limit=None, start_table=None): """ Return a list of table names associated with the current account and endpoint. :type limit: int :param limit: The maximum number of tables to return. :type start_table: str :param limit: The name of the ta...

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def setup_signing(self, secret_key, sign_outgoing=True, allow_unsigned_callback=None, initial_timestamp=None, link_id=None): '''setup for MAVLink2 signing''' self.mav.signing.secret_key = secret_key self.mav.signing.sign_outgoing = sign_outgoing self.mav.signing.allow_unsigned_callback =...

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51.263158

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def vel_term_floc(ConcAl, ConcClay, coag, material, DIM_FRACTAL, DiamTarget, Temp): """Calculate floc terminal velocity.""" WaterDensity = pc.density_water(Temp).magnitude return (((pc.gravity.magnitude * material.Diameter**2) / (18 * PHI_FLOC * pc.viscosity_kinematic(Temp).ma...

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41.642857

19.285714

def _get_dynamic_field_for(cls, field_name): """ Return the dynamic field within this class that match the given name. Keep an internal cache to speed up future calls wieh same field name. (The cache store the field for each individual class and subclasses, to keep the link betwe...

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48

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def handler(self, reply): """Upper level handler of keyboard events.""" data = reply.data while len(data): event, data = rq.EventField(None).parse_binary_value(data, self.display.display, None, None) if self.escape(event): # Quit if this returns True self...

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41.111111

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def intersect(self, *queries): '''Return a new :class:`Query` obtained form the intersection of this :class:`Query` with one or more *queries*. Workds the same way as the :meth:`union` method.''' q = self._clone() q.intersections += queries return q

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40.142857

18.142857

def get(key, profile=None): # pylint: disable=W0613 ''' Get a value from the dictionary ''' data = _get_values(profile) # Decrypt SDB data if specified in the profile if profile and profile.get('gpg', False): return salt.utils.data.traverse_dict_and_list(_decrypt(data), key, None) ...

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33.909091

23

def update(self, callback=None, errback=None, **kwargs): """ Update Network configuration. Pass a list of keywords and their values to update. For the list of keywords available for zone configuration, see :attr:`ns1.rest.ipam.Networks.INT_FIELDS` and :attr:`ns1.rest.ipam.Networks.PASSTHRU_FIELD...

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41.15

21.35

def _evaluate(self,*args,**kwargs): """ NAME: __call__ (_evaluate) PURPOSE: evaluate the actions (jr,lz,jz) INPUT: Either: a) R,vR,vT,z,vz[,phi]: 1) floats: phase-space value for single object (phi is optional) (each can be ...

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49.747475

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def convert_dict_to_option_dict(input_dict): """Convert a simple key-value dictionary to a dictionary of options tuples""" ret_dict = {} for key, value in input_dict.items(): ret_dict[key] = convert_value_to_option_tuple(value) return ret_dict

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43.666667

11.5

def get_serializable_data_for_fields(model): """ Return a serialised version of the model's fields which exist as local database columns (i.e. excluding m2m and incoming foreign key relations) """ pk_field = model._meta.pk # If model is a child via multitable inheritance, use parent's pk whi...

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36.294118

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def get_rating_metadata(self): """Gets the metadata for a rating. return: (osid.Metadata) - metadata for the rating *compliance: mandatory -- This method must be implemented.* """ # Implemented from template for osid.resource.ResourceForm.get_group_metadata_template met...

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41.363636

21.090909

def info(self, message, *args, **kwargs): """More important level : default for print and save """ self._log(logging.INFO, message, *args, **kwargs)

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42.25

4.5

def read(self, symbol, as_of=None, date_range=None, from_version=None, allow_secondary=None, **kwargs): """ Read data for the named symbol. Returns a VersionedItem object with a data and metdata element (as passed into write). Parameters ---------- symbol : `str` ...

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54.804348

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def getObjectsAspecting(self, point, aspList): """ Returns a list of objects aspecting a point considering a list of possible aspects. """ res = [] for obj in self: if obj.isPlanet() and aspects.isAspecting(obj, point, aspList): res.append(ob...

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34.4

13.9

def _fit_island(self, island_data): """ Take an Island, do all the parameter estimation and fitting. Parameters ---------- island_data : :class:`AegeanTools.models.IslandFittingData` The island to be fit. Returns ------- sources : list ...

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38.534653

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def get_preorder_burn_info( outputs ): """ Given the set of outputs, find the fee sent to our burn address. This is always the third output. Return the fee and burn address on success as {'op_fee': ..., 'burn_address': ...} Return None if not found """ if len(outputs) != 3: ...

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29.5

22.333333

def do_unthrottle(self, *args): """ Remove the throughput limits for DQL that were set with 'throttle' # Remove all limits > unthrottle # Remove the limit on total allowed throughput > unthrottle total # Remove the default limit > unthrottle default ...

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34.117647

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def to_json(self): """ Serialize object to json dict :return: dict """ data = dict() data['InterlocutorId'] = self.id_ data['Text'] = self.text data['Username'] = self.username data['FirstName'] = self.first_name data['LastName'] = self.la...

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25.769231

10.538462

def set_setting(key, value, qsettings=None): """Set value to QSettings based on key in InaSAFE scope. :param key: Unique key for setting. :type key: basestring :param value: Value to be saved. :type value: QVariant :param qsettings: A custom QSettings to use. If it's not defined, it will ...

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32.466667

15.6

def keep_types_s(s, types): """ Keep the given types from a string Same as :meth:`keep_types` but does not use the :attr:`params` dictionary Parameters ---------- s: str The string of the returns like section types: list of str Th...

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29.095238

22.142857

def measure(function, xs, ys, popt, weights): """ measure the quality of a fit """ m = 0 n = 0 for x in xs: try: if len(popt) == 2: m += (ys[n] - function(x, popt[0], popt[1]))**2 * weights[n] elif len(popt) == 3: m += (ys[n] - func...

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29.631579

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def get_metadata(url, validate_cert=True): """ Gets the metadata XML from the provided URL :param url: Url where the XML of the Identity Provider Metadata is published. :type url: string :param validate_cert: If the url uses https schema, that flag enables or not the verificati...

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32.527778

21.527778

def get_points(recording): """ Get one point for each stroke in a recording. The point represents the strokes spacial position (e.g. the center of the bounding box). Parameters ---------- recording : list of strokes Returns ------- list : points """ points = [] ...

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22.947368

22.315789